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Protein

Stromal cell-derived factor 1

Gene

CXCL12

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Chemoattractant active on T-lymphocytes and monocytes but not neutrophils. Activates the C-X-C chemokine receptor CXCR4 to induce a rapid and transient rise in the level of intracellular calcium ions and chemotaxis. SDF-1-beta(3-72) and SDF-1-alpha(3-67) show a reduced chemotactic activity. Binding to cell surface proteoglycans seems to inhibit formation of SDF-1-alpha(3-67) and thus to preserve activity on local sites. Also binds to atypical chemokine receptor ACKR3, which activates the beta-arrestin pathway and acts as a scavenger receptor for SDF-1. Binds to the allosteric site (site 2) of integrins and activates integrins ITGAV:ITGB3, ITGA4:ITGB1 and ITGA5:ITGB1 in a CXCR4-independent manner (PubMed:29301984). Acts as a positive regulator of monocyte migration and a negative regulator of monocyte adhesion via the LYN kinase. Stimulates migration of monocytes and T-lymphocytes through its receptors, CXCR4 and ACKR3, and decreases monocyte adherence to surfaces coated with ICAM-1, a ligand for beta-2 integrins. SDF1A/CXCR4 signaling axis inhibits beta-2 integrin LFA-1 mediated adhesion of monocytes to ICAM-1 through LYN kinase. Inhibits CXCR4-mediated infection by T-cell line-adapted HIV-1. Plays a protective role after myocardial infarction. Induces down-regulation and internalization of ACKR3 expressed in various cells. Has several critical functions during embryonic development; required for B-cell lymphopoiesis, myelopoiesis in bone marrow and heart ventricular septum formation. Stimulates the proliferation of bone marrow-derived B-cell progenitors in the presence of IL7 as well as growth of stromal cell-dependent pre-B-cells (By similarity).By similarity7 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections (‘Function’, ‘PTM / Processing’, ‘Pathology and Biotech’) according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei45Important for integrin interaction and activation1 Publication1
Sitei46Important for dimer formation1
Sitei48Important for integrin interaction and activation1 Publication1
<p>This subsection of the ‘Function’ section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei62Heparin1
Sitei64Important for integrin interaction and activation1 Publication1
Binding sitei69Heparin1
Binding sitei85Heparin1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

  • chemokine activity Source: UniProtKB
  • chemokine receptor binding Source: UniProtKB
  • CXCR chemokine receptor binding Source: BHF-UCL
  • growth factor activity Source: UniProtKB-KW
  • integrin binding Source: UniProtKB
  • signaling receptor binding Source: ProtInc

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionCytokine, Growth factor
Biological processChemotaxis, Host-virus interaction

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

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Reactomei
R-HSA-1251985 Nuclear signaling by ERBB4
R-HSA-376176 Signaling by ROBO receptors
R-HSA-380108 Chemokine receptors bind chemokines
R-HSA-418594 G alpha (i) signalling events
R-HSA-9018519 Estrogen-dependent gene expression

SIGNOR Signaling Network Open Resource

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SIGNORi
P48061

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Stromal cell-derived factor 1
Short name:
SDF-1
Short name:
hSDF-1
Alternative name(s):
C-X-C motif chemokine 12
Intercrine reduced in hepatomas
Short name:
IRH
Short name:
hIRH
Pre-B cell growth-stimulating factor
Short name:
PBSF
Cleaved into the following 2 chains:
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:CXCL12
Synonyms:SDF1, SDF1A, SDF1B
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 10

Organism-specific databases

Eukaryotic Pathogen Database Resources

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EuPathDBi
HostDB:ENSG00000107562.16

Human Gene Nomenclature Database

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HGNCi
HGNC:10672 CXCL12

Online Mendelian Inheritance in Man (OMIM)

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MIMi
600835 gene

neXtProt; the human protein knowledge platform

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neXtProti
NX_P48061

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Secreted

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi22 – 23Missing : Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication2
Mutagenesisi22K → A: Loss of chemotactic activity. 2 Publications1
Mutagenesisi22K → R: Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 2 Publications1
Mutagenesisi22Missing : Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 2 Publications1
Mutagenesisi23P → G: Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication1
Mutagenesisi25 – 27SLS → AQA: Significantly impaired CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication3
Mutagenesisi28Y → A: Impaired CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication1
Mutagenesisi28Y → H: No significant effect on CXCR4 binding or activation. 1 Publication1
Mutagenesisi29R → K: Slightly impaired binding and activation of CXCR4. 2 Publications1
Mutagenesisi29R → Q: Greatly impaired chemotactic activity and enhanced inhibition by heparin. 2 Publications1
Mutagenesisi33 – 38RFFESH → AAAAAA: Significantly decreased chemotactic activity. 1 Publication6
Mutagenesisi33R → A: Significantly decreased anti-HIV-1 and chemotactic activities. 2 Publications1
Mutagenesisi33R → Q: Slightly impaired chemotactic activity and enhanced inhibition by heparin. Greatly impaired chemotactic activity; when associated with Q-29. 2 Publications1
Mutagenesisi34F → A: No effect on anti-HIV-1 and chemotactic activities. Slightly impaired chemotactic activity and no effect on inhibition by heparin; when associated with A-35. 1 Publication1
Mutagenesisi35F → A: No effect on anti-HIV-1 and chemotactic activities. Slightly impaired chemotactic activity and no effect on inhibition by heparin; when associated with A-34. 1 Publication1
Mutagenesisi36 – 38ESH → QSN: Slightly impaired chemotactic activity, no effect on inhibition by heparin. 1 Publication3
Mutagenesisi36E → A: No effect on anti-HIV-1 and chemotactic activities. 1 Publication1
Mutagenesisi37S → A: No effect on anti-HIV-1 and chemotactic activities. 1 Publication1
Mutagenesisi38H → A: No effect on anti-HIV-1 and chemotactic activities. 1 Publication1
Mutagenesisi41R → A: No effect on CXCR4 activation. 1 Publication1
Mutagenesisi45 – 48KHLK → SSLS: Loss of heparin-binding capacity. 1 Publication4
Mutagenesisi45K → E: Loss of integrin activation; when associated with E-48 or E-64. 1 Publication1
Mutagenesisi46H → A: Reduced dimerization in neutral pH. Eliminates the pH dependence of dimerization. 3 Publications1
Mutagenesisi46H → L: No significant effect on dimerization in neutral pH. Eliminates the pH dependence of dimerization. 3 Publications1
Mutagenesisi46H → N: Slightly impaired CXCR4 activation and clear resistance to inhibition by heparin; when associated with Q-48; Q-62; Q-68 and N-69. 3 Publications1
Mutagenesisi46H → R: No effect on CXCR4 activation. Impaired dimer formation, leading to increased chemotactic activity. Eliminates the pH dependence of dimerization. 3 Publications1
Mutagenesisi48K → A: Impaired CXCR4 activation. 2 Publications1
Mutagenesisi48K → E: Impaired CXCR4 activation. Loss of integrin activation; when associated with E-45 or E-64. 3 Publications1
Mutagenesisi48K → Q: Slightly impaired CXCR4 activation and clear resistance to inhibition by heparin; when associated with N-46; Q-62; Q-68 and N-69. 2 Publications1
Mutagenesisi52 – 56TPNCA → GPGCG: Slightly impaired chemotactic activity, no effect on inhibition by heparin. 1 Publication5
Mutagenesisi57L → C: Formation of an intermolecular disulfide bond, leading to a locked dimer; when associated with C-86. No effect on CXCR4 activation, but loss of chemotactic activity; when associated with C-86. 1
Mutagenesisi60V → A: Impaired CXCR4 activation. 1 Publication1
Mutagenesisi62R → A: No effect on CXCR4 activation. 2 Publications1
Mutagenesisi62R → Q: Slightly impaired CXCR4 activation and clear resistance to inhibition by heparin; when associated with N-46; Q-48; Q-68 and N-69. 2 Publications1
Mutagenesisi64K → E: Loss of integrin activation; when associated with E-45 or E-48. 1 Publication1
Mutagenesisi68R → A: Impaired CXCR4 activation. 2 Publications1
Mutagenesisi68R → E: Greatly impaired CXCR4 activation. 2 Publications1
Mutagenesisi68R → Q: Slightly impaired CXCR4 activation and clear resistance to inhibition by heparin; when associated with N-46; Q-48; Q-62 and N-69. 2 Publications1
Mutagenesisi69Q → N: Slightly impaired CXCR4 activation and clear resistance to inhibition by heparin; when associated with N-46; Q-48; Q-62 and Q-68. 1 Publication1
Mutagenesisi70V → A: Impaired CXCR4 activation. 1 Publication1
Mutagenesisi81E → A: No effect on CXCR4 activation. 1 Publication1
Mutagenesisi84E → A: No effect on CXCR4 activation. 1 Publication1
Mutagenesisi85K → A: No effect on CXCR4 activation. 1 Publication1
Mutagenesisi86A → C: Formation of an intermolecular disulfide bond, leading to a locked dimer; when associated with C-57. No effect on CXCR4 activation, but loss of chemotactic activity; when associated with C-57. 1

Organism-specific databases

DisGeNET

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DisGeNETi
6387

MalaCards human disease database

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MalaCardsi
CXCL12

Open Targets

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OpenTargetsi
ENSG00000107562

The Pharmacogenetics and Pharmacogenomics Knowledge Base

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PharmGKBi
PA35602

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

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ChEMBLi
CHEMBL3286074

Drug and drug target database

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DrugBanki
DB06822 Tinzaparin

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

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BioMutai
CXCL12

Domain mapping of disease mutations (DMDM)

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DMDMi
1352728

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section denotes the presence of an N-terminal signal peptide.<p><a href='/help/signal' target='_top'>More...</a></p>Signal peptidei1 – 21Sequence analysisAdd BLAST21
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000000510922 – 93Stromal cell-derived factor 1Add BLAST72
ChainiPRO_000000511024 – 93SDF-1-beta(3-72)Add BLAST70
ChainiPRO_000000511124 – 88SDF-1-alpha(3-67)Add BLAST65

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the PTM / Processing":/help/ptm_processing_section section describes the positions of cysteine residues participating in disulfide bonds.<p><a href='/help/disulfid' target='_top'>More...</a></p>Disulfide bondi30 ↔ 55
Disulfide bondi32 ↔ 71

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

Processed forms SDF-1-beta(3-72) and SDF-1-alpha(3-67) are produced after secretion by proteolytic cleavage of isoforms Beta and Alpha, respectively. The N-terminal processing is probably achieved by DPP4. Isoform Alpha is first cleaved at the C-terminus to yield a SDF-1-alpha(1-67) intermediate before being processed at the N-terminus. The C-terminal processing of isoform Alpha is reduced by binding to heparin and, probably, cell surface proteoglycans.1 Publication

Keywords - PTMi

Disulfide bond

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

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jPOSTi
P48061

PaxDb, a database of protein abundance averages across all three domains of life

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PaxDbi
P48061

PeptideAtlas

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PeptideAtlasi
P48061

PRoteomics IDEntifications database

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PRIDEi
P48061

ProteomicsDB human proteome resource

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ProteomicsDBi
55853
55854 [P48061-2]
55855 [P48061-3]
55856 [P48061-4]
55857 [P48061-5]
55858 [P48061-6]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

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iPTMneti
P48061

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

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PhosphoSitePlusi
P48061

Miscellaneous databases

CutDB - Proteolytic event database

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PMAP-CutDBi
P48061

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified ‘at protein level’. <br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Isoform Alpha and isoform Beta are ubiquitously expressed, with highest levels detected in liver, pancreas and spleen. Isoform Gamma is mainly expressed in heart, with weak expression detected in several other tissues. Isoform Delta, isoform Epsilon and isoform Theta have highest expression levels in pancreas, with lower levels detected in heart, kidney, liver and spleen.1 Publication

<p>This subsection of the ‘Expression’ section provides information on the expression of the gene product at various stages of a cell, tissue or organism development. By default, the information is derived from experiments at the mRNA level, unless specified ‘at the protein level’.<p><a href='/help/developmental_stage' target='_top'>More...</a></p>Developmental stagei

Isoform Alpha is ubiquitously expressed in fetal tissues. Isoform Beta and isoform Delta have more limited expression patterns, with highest levels detected in fetal spleen and fetal liver, respectively. Isoform Gamma and isoform Theta are weakly detected in fetal kidney.1 Publication

Gene expression databases

Bgee dataBase for Gene Expression Evolution

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Bgeei
ENSG00000107562 Expressed in 223 organ(s), highest expression level in myometrium

CleanEx database of gene expression profiles

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CleanExi
HS_CXCL12

Genevisible search portal to normalized and curated expression data from Genevestigator

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Genevisiblei
P48061 HS

Organism-specific databases

Human Protein Atlas

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HPAi
CAB017564

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Monomer or homodimer; in equilibrium. Dimer formation is induced by non acidic pH and the presence of multivalent anions, and by binding to CXCR4 or heparin. Monomeric form is required for full chemotactic activity and resistance to ischemia/reperfusion injury, whereas the dimeric form acts as a partial agonist of CXCR4, stimulating Ca2+ mobilization but with no chemotactic activity and instead acts as a selective antagonist that blocks chemotaxis induced by the monomeric form. Interacts with the N-terminus of ACKR3. Interacts with integrin subunit ITGB3 (via the allosteric site (site 2)) (PubMed:29301984).8 Publications
(Microbial infection) Interacts with molluscum contagiosum virus protein MC148.1 Publication

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

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BioGridi
112288, 7 interactors

Database of interacting proteins

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DIPi
DIP-391N

Protein interaction database and analysis system

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IntActi
P48061, 26 interactors

Molecular INTeraction database

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MINTi
P48061

STRING: functional protein association networks

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STRINGi
9606.ENSP00000379140

Chemistry databases

BindingDB database of measured binding affinities

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BindingDBi
P48061

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

193
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1A15X-ray2.20A/B22-88[»]
1QG7X-ray2.00A/B22-88[»]
1SDFNMR-A22-88[»]
1VMCNMR-A22-89[»]
2J7ZX-ray1.95A/B22-89[»]
2K01NMR-A/C22-89[»]
2K03NMR-A/C22-89[»]
2K04NMR-A/C22-89[»]
2K05NMR-A/C22-89[»]
2KECNMR-A22-89[»]
2KEDNMR-A22-89[»]
2KEENMR-A22-89[»]
2KOLNMR-A22-89[»]
2N55NMR-A22-89[»]
2NWGX-ray2.07A/B22-88[»]
2SDFNMR-A22-88[»]
3GV3X-ray1.60A26-88[»]
3HP3X-ray2.20A/B/C/D/E/F/G/H/I/J22-88[»]
4LMQX-ray2.77D/F29-89[»]
4UAIX-ray1.90A/B22-89[»]

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

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ProteinModelPortali
P48061

SWISS-MODEL Repository - a database of annotated 3D protein structure models

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SMRi
P48061

Database of comparative protein structure models

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ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

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EvolutionaryTracei
P48061

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni29 – 33Receptor and heparin bindingCurated5
Regioni39 – 41Receptor binding3
Regioni41 – 51Heparin bindingAdd BLAST11
Regioni48 – 50Receptor binding3
Regioni60 – 70Receptor bindingAdd BLAST11

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi22 – 23Receptor activation motif2

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
ENOG410J1S5 Eukaryota
ENOG4112BS6 LUCA

Ensembl GeneTree

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GeneTreei
ENSGT00390000014056

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

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HOGENOMi
HOG000220915

The HOVERGEN Database of Homologous Vertebrate Genes

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HOVERGENi
HBG107437

InParanoid: Eukaryotic Ortholog Groups

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InParanoidi
P48061

KEGG Orthology (KO)

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KOi
K10031

Identification of Orthologs from Complete Genome Data

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OMAi
STPNCAL

Database of Orthologous Groups

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OrthoDBi
1462231at2759

Database for complete collections of gene phylogenies

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PhylomeDBi
P48061

TreeFam database of animal gene trees

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TreeFami
TF353159

Family and domain databases

Conserved Domains Database

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CDDi
cd00273 Chemokine_CXC, 1 hit

Integrated resource of protein families, domains and functional sites

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InterProi
View protein in InterPro
IPR001811 Chemokine_IL8-like_dom
IPR033899 CXC_Chemokine_domain
IPR039813 CXCL12
IPR036048 Interleukin_8-like_sf

The PANTHER Classification System

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PANTHERi
PTHR18837 PTHR18837, 1 hit

Pfam protein domain database

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Pfami
View protein in Pfam
PF00048 IL8, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

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SMARTi
View protein in SMART
SM00199 SCY, 1 hit

Superfamily database of structural and functional annotation

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SUPFAMi
SSF54117 SSF54117, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (7)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 7 <p>This subsection of the ‘Sequence’ section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket
Isoform Beta (identifier: P48061-1) [UniParc]FASTAAdd to basket
Also known as: SDF-1-beta(1-72), hSDF-1beta

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MNAKVVVVLV LVLTALCLSD GKPVSLSYRC PCRFFESHVA RANVKHLKIL
60 70 80 90
NTPNCALQIV ARLKNNNRQV CIDPKLKWIQ EYLEKALNKR FKM
Length:93
Mass (Da):10,666
Last modified:February 1, 1996 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i505B5A29C2B44E8D
GO
Isoform Alpha (identifier: P48061-2) [UniParc]FASTAAdd to basket
Also known as: SDF-1-alpha(1-68), hSDF-1alpha

The sequence of this isoform differs from the canonical sequence as follows:
     90-93: Missing.

Show »
Length:89
Mass (Da):10,103
Checksum:i62B44E8D209C3A14
GO
Isoform Gamma (identifier: P48061-3) [UniParc]FASTAAdd to basket
Also known as: hSDF-1gamma, SDF-1g

The sequence of this isoform differs from the canonical sequence as follows:
     90-93: RFKM → GRREEKVGKKEKIGKKKRQKKRKAAQKRKN

Show »
Length:119
Mass (Da):13,705
Checksum:iC36297D68341B824
GO
Isoform Delta (identifier: P48061-4) [UniParc]FASTAAdd to basket
Also known as: hSDF-1delta

The sequence of this isoform differs from the canonical sequence as follows:
     89-93: KRFKM → NLISAAPAGKRVIAGARALHPSPPRACPTARALCEIRLWPPPEWSWPSPGDV

Show »
Length:140
Mass (Da):15,495
Checksum:i602BFEB309014ED2
GO
Isoform Epsilon (identifier: P48061-5) [UniParc]FASTAAdd to basket
Also known as: hSDFepsilon

The sequence of this isoform differs from the canonical sequence as follows:
     89-93: KRFKM → NC

Show »
Length:90
Mass (Da):10,192
Checksum:i7375C44E8D209C3A
GO
Isoform Theta (identifier: P48061-6) [UniParc]FASTAAdd to basket
Also known as: hSDFphi, hSDFtheta, Phi

The sequence of this isoform differs from the canonical sequence as follows:
     90-93: RFKM → IWLYGNAETSR

Show »
Length:100
Mass (Da):11,395
Checksum:iBEF2739B8E70BAAD
GO
Isoform 7 (identifier: P48061-7) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     39-93: VARANVKHLK...EKALNKRFKM → YCTCLIRVSF...VPGPVNLGKA

Note: Gene prediction based on EST data.
Show »
Length:103
Mass (Da):11,004
Checksum:i33B2517CA23D65D8
GO

<p>This subsection of the ‘Sequence’ section reports information derived from mass spectrometry experiments done on the entire protein or on biologically active derived peptide(s).<p><a href='/help/mass_spectrometry' target='_top'>More...</a></p>Mass spectrometryi

Isoform Alpha : Molecular mass is 7959 Da from positions 22 - 89. Determined by ESI. 1 Publication
Isoform Alpha : Molecular mass is 7606 Da from positions 24 - 88. Determined by ESI. 1 Publication
Isoform Beta : Molecular mass is 8522 Da from positions 22 - 93. Determined by ESI. 1 Publication
Isoform Beta : Molecular mass is 8297 Da from positions 24 - 93. Determined by ESI. 1 Publication

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting. The information stored in this subsection is used to automatically construct alternative protein sequence(s) for display.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_05478139 – 93VARAN…KRFKM → YCTCLIRVSFHGATPLTQGS WVLYSLSCAGGETGLREPGP MVSPRVESHQEGRLGVPGPV NLGKA in isoform 7. 1 PublicationAdd BLAST55
Alternative sequenceiVSP_04211889 – 93KRFKM → NLISAAPAGKRVIAGARALH PSPPRACPTARALCEIRLWP PPEWSWPSPGDV in isoform Delta. 1 Publication5
Alternative sequenceiVSP_04211989 – 93KRFKM → NC in isoform Epsilon. 1 Publication5
Alternative sequenceiVSP_00105690 – 93Missing in isoform Alpha. 6 Publications4
Alternative sequenceiVSP_04120990 – 93RFKM → GRREEKVGKKEKIGKKKRQK KRKAAQKRKN in isoform Gamma. 2 Publications4
Alternative sequenceiVSP_04212090 – 93RFKM → IWLYGNAETSR in isoform Theta. 1 Publication4

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
L36033 mRNA Translation: AAB39332.1
L36034 mRNA Translation: AAB39333.1
DQ345517 mRNA Translation: ABC69270.1
DQ345518 mRNA Translation: ABC69271.1
DQ345519 mRNA Translation: ABC69272.1
DQ345520 mRNA Translation: ABC69273.1
U16752 mRNA Translation: AAA97434.1
U19495 mRNA Translation: AAB40516.1
AY644456 mRNA Translation: AAT76437.1
AY874118 mRNA Translation: AAW82036.1
CR450283 mRNA Translation: CAG29279.1
AK292628 mRNA Translation: BAF85317.1
AK311814 mRNA Translation: BAG34757.1
AU120056 mRNA No translation available.
AY802782 Genomic DNA Translation: AAV49999.1
AL137026 Genomic DNA No translation available.
CH471160 Genomic DNA Translation: EAW86619.1
BC039893 mRNA Translation: AAH39893.1

The Consensus CDS (CCDS) project

More...
CCDSi
CCDS31186.1 [P48061-3]
CCDS44373.1 [P48061-1]
CCDS53527.1 [P48061-4]
CCDS60518.1 [P48061-7]
CCDS7207.1 [P48061-2]

Protein sequence database of the Protein Information Resource

More...
PIRi
G01540

NCBI Reference Sequences

More...
RefSeqi
NP_000600.1, NM_000609.6 [P48061-1]
NP_001029058.1, NM_001033886.2 [P48061-3]
NP_001171605.1, NM_001178134.1 [P48061-4]
NP_001264919.1, NM_001277990.1 [P48061-7]
NP_954637.1, NM_199168.3 [P48061-2]

UniGene gene-oriented nucleotide sequence clusters

More...
UniGenei
Hs.522891

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENST00000343575; ENSP00000339913; ENSG00000107562 [P48061-2]
ENST00000374426; ENSP00000363548; ENSG00000107562 [P48061-3]
ENST00000374429; ENSP00000363551; ENSG00000107562 [P48061-1]
ENST00000395793; ENSP00000379139; ENSG00000107562 [P48061-7]
ENST00000395794; ENSP00000379140; ENSG00000107562 [P48061-4]
ENST00000395795; ENSP00000379141; ENSG00000107562 [P48061-7]

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
6387

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
hsa:6387

UCSC genome browser

More...
UCSCi
uc001jbf.5 human [P48061-1]

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

<p>This subsection of the <a href="http://www.uniprot.org/manual/cross_references_section">Cross-references</a> section provides links to various web resources that are relevant for a specific protein.<p><a href='/help/web_resource' target='_top'>More...</a></p>Web resourcesi

Wikipedia

SDF-1 entry

SeattleSNPs

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L36033 mRNA Translation: AAB39332.1
L36034 mRNA Translation: AAB39333.1
DQ345517 mRNA Translation: ABC69270.1
DQ345518 mRNA Translation: ABC69271.1
DQ345519 mRNA Translation: ABC69272.1
DQ345520 mRNA Translation: ABC69273.1
U16752 mRNA Translation: AAA97434.1
U19495 mRNA Translation: AAB40516.1
AY644456 mRNA Translation: AAT76437.1
AY874118 mRNA Translation: AAW82036.1
CR450283 mRNA Translation: CAG29279.1
AK292628 mRNA Translation: BAF85317.1
AK311814 mRNA Translation: BAG34757.1
AU120056 mRNA No translation available.
AY802782 Genomic DNA Translation: AAV49999.1
AL137026 Genomic DNA No translation available.
CH471160 Genomic DNA Translation: EAW86619.1
BC039893 mRNA Translation: AAH39893.1
CCDSiCCDS31186.1 [P48061-3]
CCDS44373.1 [P48061-1]
CCDS53527.1 [P48061-4]
CCDS60518.1 [P48061-7]
CCDS7207.1 [P48061-2]
PIRiG01540
RefSeqiNP_000600.1, NM_000609.6 [P48061-1]
NP_001029058.1, NM_001033886.2 [P48061-3]
NP_001171605.1, NM_001178134.1 [P48061-4]
NP_001264919.1, NM_001277990.1 [P48061-7]
NP_954637.1, NM_199168.3 [P48061-2]
UniGeneiHs.522891

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1A15X-ray2.20A/B22-88[»]
1QG7X-ray2.00A/B22-88[»]
1SDFNMR-A22-88[»]
1VMCNMR-A22-89[»]
2J7ZX-ray1.95A/B22-89[»]
2K01NMR-A/C22-89[»]
2K03NMR-A/C22-89[»]
2K04NMR-A/C22-89[»]
2K05NMR-A/C22-89[»]
2KECNMR-A22-89[»]
2KEDNMR-A22-89[»]
2KEENMR-A22-89[»]
2KOLNMR-A22-89[»]
2N55NMR-A22-89[»]
2NWGX-ray2.07A/B22-88[»]
2SDFNMR-A22-88[»]
3GV3X-ray1.60A26-88[»]
3HP3X-ray2.20A/B/C/D/E/F/G/H/I/J22-88[»]
4LMQX-ray2.77D/F29-89[»]
4UAIX-ray1.90A/B22-89[»]
ProteinModelPortaliP48061
SMRiP48061
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112288, 7 interactors
DIPiDIP-391N
IntActiP48061, 26 interactors
MINTiP48061
STRINGi9606.ENSP00000379140

Chemistry databases

BindingDBiP48061
ChEMBLiCHEMBL3286074
DrugBankiDB06822 Tinzaparin

PTM databases

iPTMnetiP48061
PhosphoSitePlusiP48061

Polymorphism and mutation databases

BioMutaiCXCL12
DMDMi1352728

Proteomic databases

jPOSTiP48061
PaxDbiP48061
PeptideAtlasiP48061
PRIDEiP48061
ProteomicsDBi55853
55854 [P48061-2]
55855 [P48061-3]
55856 [P48061-4]
55857 [P48061-5]
55858 [P48061-6]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000343575; ENSP00000339913; ENSG00000107562 [P48061-2]
ENST00000374426; ENSP00000363548; ENSG00000107562 [P48061-3]
ENST00000374429; ENSP00000363551; ENSG00000107562 [P48061-1]
ENST00000395793; ENSP00000379139; ENSG00000107562 [P48061-7]
ENST00000395794; ENSP00000379140; ENSG00000107562 [P48061-4]
ENST00000395795; ENSP00000379141; ENSG00000107562 [P48061-7]
GeneIDi6387
KEGGihsa:6387
UCSCiuc001jbf.5 human [P48061-1]

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
6387
DisGeNETi6387
EuPathDBiHostDB:ENSG00000107562.16

GeneCards: human genes, protein and diseases

More...
GeneCardsi
CXCL12

H-Invitational Database, human transcriptome db

More...
H-InvDBi
HIX0008784
HGNCiHGNC:10672 CXCL12
HPAiCAB017564
MalaCardsiCXCL12
MIMi600835 gene
neXtProtiNX_P48061
OpenTargetsiENSG00000107562
PharmGKBiPA35602

GenAtlas: human gene database

More...
GenAtlasi
Search...

Phylogenomic databases

eggNOGiENOG410J1S5 Eukaryota
ENOG4112BS6 LUCA
GeneTreeiENSGT00390000014056
HOGENOMiHOG000220915
HOVERGENiHBG107437
InParanoidiP48061
KOiK10031
OMAiSTPNCAL
OrthoDBi1462231at2759
PhylomeDBiP48061
TreeFamiTF353159

Enzyme and pathway databases

ReactomeiR-HSA-1251985 Nuclear signaling by ERBB4
R-HSA-376176 Signaling by ROBO receptors
R-HSA-380108 Chemokine receptors bind chemokines
R-HSA-418594 G alpha (i) signalling events
R-HSA-9018519 Estrogen-dependent gene expression
SIGNORiP48061

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

More...
ChiTaRSi
CXCL12 human
EvolutionaryTraceiP48061

The Gene Wiki collection of pages on human genes and proteins

More...
GeneWikii
Stromal_cell-derived_factor-1

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

More...
GenomeRNAii
6387
PMAP-CutDBiP48061

Protein Ontology

More...
PROi
PR:P48061

The Stanford Online Universal Resource for Clones and ESTs

More...
SOURCEi
Search...

Gene expression databases

BgeeiENSG00000107562 Expressed in 223 organ(s), highest expression level in myometrium
CleanExiHS_CXCL12
GenevisibleiP48061 HS

Family and domain databases

CDDicd00273 Chemokine_CXC, 1 hit
InterProiView protein in InterPro
IPR001811 Chemokine_IL8-like_dom
IPR033899 CXC_Chemokine_domain
IPR039813 CXCL12
IPR036048 Interleukin_8-like_sf
PANTHERiPTHR18837 PTHR18837, 1 hit
PfamiView protein in Pfam
PF00048 IL8, 1 hit
SMARTiView protein in SMART
SM00199 SCY, 1 hit
SUPFAMiSSF54117 SSF54117, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiSDF1_HUMAN
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P48061
Secondary accession number(s): B2R4G0
, E7EVL0, H7BYN8, Q2L985, Q2L986, Q2L988, Q5IT36, Q6ICW0, Q9H554
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: January 16, 2019
This is version 197 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. Human chromosome 10
    Human chromosome 10: entries, gene names and cross-references to MIM
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