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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-Experimental evidence at protein leveli

Functioni

Chemoattractant active on T-lymphocytes, 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. Also binds to atypical chemokine receptor ACKR3, which activates the beta-arrestin pathway and acts as a scavenger receptor for SDF-1. 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. 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.6 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei46 – 461Important for dimer formation
Binding sitei62 – 621Heparin
Binding sitei69 – 691Heparin
Binding sitei85 – 851Heparin

GO - Molecular functioni

  • chemoattractant activity Source: GO_Central
  • chemokine activity Source: UniProtKB
  • chemokine receptor binding Source: UniProtKB
  • CXCR chemokine receptor binding Source: BHF-UCL
  • receptor binding Source: ProtInc

GO - Biological processi

  • adult locomotory behavior Source: Ensembl
  • axon guidance Source: GO_Central
  • blood circulation Source: ProtInc
  • cell adhesion Source: ProtInc
  • cell chemotaxis Source: UniProtKB
  • cellular calcium ion homeostasis Source: ProtInc
  • chemokine-mediated signaling pathway Source: BHF-UCL
  • chemotaxis Source: UniProtKB
  • G-protein coupled receptor signaling pathway Source: ProtInc
  • immune response Source: ProtInc
  • induction of positive chemotaxis Source: GO_Central
  • negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage Source: BHF-UCL
  • negative regulation of leukocyte apoptotic process Source: BHF-UCL
  • negative regulation of leukocyte tethering or rolling Source: UniProtKB
  • neuron migration Source: Ensembl
  • organ regeneration Source: Ensembl
  • positive regulation of axon extension involved in axon guidance Source: Ensembl
  • positive regulation of calcium ion import Source: BHF-UCL
  • positive regulation of cell adhesion Source: MGI
  • positive regulation of dopamine secretion Source: Ensembl
  • positive regulation of endothelial cell proliferation Source: Ensembl
  • positive regulation of monocyte chemotaxis Source: UniProtKB
  • positive regulation of T cell migration Source: MGI
  • regulation of actin polymerization or depolymerization Source: ProtInc
  • response to heat Source: Ensembl
  • response to hypoxia Source: Ensembl
  • response to mechanical stimulus Source: Ensembl
  • response to peptide hormone Source: Ensembl
  • response to radiation Source: Ensembl
  • response to virus Source: ProtInc
  • signal transduction Source: ProtInc
  • telencephalon cell migration Source: Ensembl
Complete GO annotation...

Keywords - Molecular functioni

Cytokine, Growth factor

Keywords - Biological processi

Chemotaxis

Enzyme and pathway databases

ReactomeiR-HSA-1251985. Nuclear signaling by ERBB4.
R-HSA-380108. Chemokine receptors bind chemokines.
R-HSA-418594. G alpha (i) signalling events.
SIGNORiP48061.

Names & Taxonomyi

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:
Gene namesi
Name:CXCL12
Synonyms:SDF1, SDF1A, SDF1B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 10

Organism-specific databases

HGNCiHGNC:10672. CXCL12.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi22 – 232Missing : Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication
Mutagenesisi22 – 221K → A: Loss of chemotactic activity. 2 Publications
Mutagenesisi22 – 221K → R: Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 2 Publications
Mutagenesisi22 – 221Missing : Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 2 Publications
Mutagenesisi23 – 231P → G: Abolished CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication
Mutagenesisi25 – 273SLS → AQA: Significantly impaired CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication
Mutagenesisi28 – 281Y → A: Impaired CXCR4 activation ability, but only slightly impaired binding to the receptor. 1 Publication
Mutagenesisi28 – 281Y → H: No significant effect on CXCR4 binding or activation. 1 Publication
Mutagenesisi29 – 291R → K: Slightly impaired binding and activation of CXCR4. 2 Publications
Mutagenesisi29 – 291R → Q: Greatly impaired chemotactic activity and enhanced inhibition by heparin. 2 Publications
Mutagenesisi33 – 386RFFESH → AAAAAA: Significantly decreased chemotactic activity. 1 Publication
Mutagenesisi33 – 331R → A: Significantly decreased anti-HIV-1 and chemotactic activities. 2 Publications
Mutagenesisi33 – 331R → Q: Slightly impaired chemotactic activity and enhanced inhibition by heparin. Greatly impaired chemotactic activity; when associated with Q-29. 2 Publications
Mutagenesisi34 – 341F → 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 Publication
Mutagenesisi35 – 351F → 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 Publication
Mutagenesisi36 – 383ESH → QSN: Slightly impaired chemotactic activity, no effect on inhibition by heparin. 1 Publication
Mutagenesisi36 – 361E → A: No effect on anti-HIV-1 and chemotactic activities. 1 Publication
Mutagenesisi37 – 371S → A: No effect on anti-HIV-1 and chemotactic activities. 1 Publication
Mutagenesisi38 – 381H → A: No effect on anti-HIV-1 and chemotactic activities. 1 Publication
Mutagenesisi41 – 411R → A: No effect on CXCR4 activation. 1 Publication
Mutagenesisi45 – 484KHLK → SSLS: Loss of heparin-binding capacity. 1 Publication
Mutagenesisi46 – 461H → A: Reduced dimerization in neutral pH. Eliminates the pH dependence of dimerization. 3 Publications
Mutagenesisi46 – 461H → L: No significant effect on dimerization in neutral pH. Eliminates the pH dependence of dimerization. 3 Publications
Mutagenesisi46 – 461H → 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 Publications
Mutagenesisi46 – 461H → R: No effect on CXCR4 activation. Impaired dimer formation, leading to increased chemotactic activity. Eliminates the pH dependence of dimerization. 3 Publications
Mutagenesisi48 – 481K → A: Impaired CXCR4 activation. 2 Publications
Mutagenesisi48 – 481K → E: Impaired CXCR4 activation. 2 Publications
Mutagenesisi48 – 481K → 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 Publications
Mutagenesisi52 – 565TPNCA → GPGCG: Slightly impaired chemotactic activity, no effect on inhibition by heparin. 1 Publication
Mutagenesisi57 – 571L → 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.
Mutagenesisi60 – 601V → A: Impaired CXCR4 activation. 1 Publication
Mutagenesisi62 – 621R → A: No effect on CXCR4 activation. 2 Publications
Mutagenesisi62 – 621R → 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 Publications
Mutagenesisi68 – 681R → A: Impaired CXCR4 activation. 2 Publications
Mutagenesisi68 – 681R → E: Greatly impaired CXCR4 activation. 2 Publications
Mutagenesisi68 – 681R → 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 Publications
Mutagenesisi69 – 691Q → 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 Publication
Mutagenesisi70 – 701V → A: Impaired CXCR4 activation. 1 Publication
Mutagenesisi81 – 811E → A: No effect on CXCR4 activation. 1 Publication
Mutagenesisi84 – 841E → A: No effect on CXCR4 activation. 1 Publication
Mutagenesisi85 – 851K → A: No effect on CXCR4 activation. 1 Publication
Mutagenesisi86 – 861A → 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.

Organism-specific databases

MalaCardsiCXCL12.
PharmGKBiPA35602.

Chemistry

ChEMBLiCHEMBL3286074.
DrugBankiDB06822. Tinzaparin.

Polymorphism and mutation databases

BioMutaiCXCL12.
DMDMi1352728.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2121Sequence analysisAdd
BLAST
Chaini22 – 9372Stromal cell-derived factor 1PRO_0000005109Add
BLAST
Chaini24 – 9370SDF-1-beta(3-72)PRO_0000005110Add
BLAST
Chaini24 – 8865SDF-1-alpha(3-67)PRO_0000005111Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi30 ↔ 55
Disulfide bondi32 ↔ 71

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

PaxDbiP48061.
PeptideAtlasiP48061.
PRIDEiP48061.

PTM databases

iPTMnetiP48061.
PhosphoSiteiP48061.

Miscellaneous databases

PMAP-CutDBQ5IT36.

Expressioni

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

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

BgeeiENSG00000107562.
CleanExiHS_CXCL12.
GenevisibleiP48061. HS.

Organism-specific databases

HPAiCAB017564.

Interactioni

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 ACKR3.7 Publications

GO - Molecular functioni

  • chemokine activity Source: UniProtKB
  • chemokine receptor binding Source: UniProtKB
  • CXCR chemokine receptor binding Source: BHF-UCL
  • receptor binding Source: ProtInc

Protein-protein interaction databases

BioGridi112288. 6 interactions.
DIPiDIP-391N.
IntActiP48061. 3 interactions.
MINTiMINT-6491347.
STRINGi9606.ENSP00000379140.

Chemistry

BindingDBiP48061.

Structurei

Secondary structure

1
93
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi24 – 263Combined sources
Beta strandi27 – 293Combined sources
Beta strandi31 – 344Combined sources
Beta strandi36 – 383Combined sources
Helixi41 – 433Combined sources
Beta strandi44 – 496Combined sources
Turni53 – 553Combined sources
Beta strandi59 – 635Combined sources
Turni64 – 663Combined sources
Beta strandi69 – 724Combined sources
Helixi79 – 868Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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. Positions 22-89.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP48061.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni29 – 335Receptor and heparin bindingCurated
Regioni39 – 413Receptor binding
Regioni41 – 5111Heparin bindingAdd
BLAST
Regioni48 – 503Receptor binding
Regioni60 – 7011Receptor bindingAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi22 – 232Receptor activation motif

Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG410J1S5. Eukaryota.
ENOG4112BS6. LUCA.
GeneTreeiENSGT00390000014056.
HOGENOMiHOG000220915.
HOVERGENiHBG107437.
InParanoidiP48061.
KOiK10031.
OMAiSTPNCAL.
OrthoDBiEOG091G14JB.
PhylomeDBiP48061.
TreeFamiTF353159.

Family and domain databases

InterProiIPR001811. Chemokine_IL8-like_dom.
[Graphical view]
PfamiPF00048. IL8. 1 hit.
[Graphical view]
SMARTiSM00199. SCY. 1 hit.
[Graphical view]
SUPFAMiSSF54117. SSF54117. 1 hit.

Sequences (7)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 7 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
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

Sequence cautioni

The sequence CAC10202 differs from that shown. Reason: Erroneous gene model prediction. Curated

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)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei39 – 9355VARAN…KRFKM → YCTCLIRVSFHGATPLTQGS WVLYSLSCAGGETGLREPGP MVSPRVESHQEGRLGVPGPV NLGKA in isoform 7. 1 PublicationVSP_054781Add
BLAST
Alternative sequencei89 – 935KRFKM → NLISAAPAGKRVIAGARALH PSPPRACPTARALCEIRLWP PPEWSWPSPGDV in isoform Delta. 1 PublicationVSP_042118
Alternative sequencei89 – 935KRFKM → NC in isoform Epsilon. 1 PublicationVSP_042119
Alternative sequencei90 – 934Missing in isoform Alpha. 6 PublicationsVSP_001056
Alternative sequencei90 – 934RFKM → GRREEKVGKKEKIGKKKRQK KRKAAQKRKN in isoform Gamma. 2 PublicationsVSP_041209
Alternative sequencei90 – 934RFKM → IWLYGNAETSR in isoform Theta. 1 PublicationVSP_042120

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. Translation: CAC10202.1. Sequence problems.
AL137026 Genomic DNA. Translation: CAC10203.1.
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.

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]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

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. Translation: CAC10202.1. Sequence problems.
AL137026 Genomic DNA. Translation: CAC10203.1.
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
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. Positions 22-89.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112288. 6 interactions.
DIPiDIP-391N.
IntActiP48061. 3 interactions.
MINTiMINT-6491347.
STRINGi9606.ENSP00000379140.

Chemistry

BindingDBiP48061.
ChEMBLiCHEMBL3286074.
DrugBankiDB06822. Tinzaparin.

PTM databases

iPTMnetiP48061.
PhosphoSiteiP48061.

Polymorphism and mutation databases

BioMutaiCXCL12.
DMDMi1352728.

Proteomic databases

PaxDbiP48061.
PeptideAtlasiP48061.
PRIDEiP48061.

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

CTDi6387.
GeneCardsiCXCL12.
H-InvDBHIX0008784.
HGNCiHGNC:10672. CXCL12.
HPAiCAB017564.
MalaCardsiCXCL12.
MIMi600835. gene.
neXtProtiNX_P48061.
PharmGKBiPA35602.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410J1S5. Eukaryota.
ENOG4112BS6. LUCA.
GeneTreeiENSGT00390000014056.
HOGENOMiHOG000220915.
HOVERGENiHBG107437.
InParanoidiP48061.
KOiK10031.
OMAiSTPNCAL.
OrthoDBiEOG091G14JB.
PhylomeDBiP48061.
TreeFamiTF353159.

Enzyme and pathway databases

ReactomeiR-HSA-1251985. Nuclear signaling by ERBB4.
R-HSA-380108. Chemokine receptors bind chemokines.
R-HSA-418594. G alpha (i) signalling events.
SIGNORiP48061.

Miscellaneous databases

ChiTaRSiCXCL12. human.
EvolutionaryTraceiP48061.
GeneWikiiStromal_cell-derived_factor-1.
GenomeRNAii6387.
PMAP-CutDBQ5IT36.
PROiP48061.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000107562.
CleanExiHS_CXCL12.
GenevisibleiP48061. HS.

Family and domain databases

InterProiIPR001811. Chemokine_IL8-like_dom.
[Graphical view]
PfamiPF00048. IL8. 1 hit.
[Graphical view]
SMARTiSM00199. SCY. 1 hit.
[Graphical view]
SUPFAMiSSF54117. SSF54117. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSDF1_HUMAN
AccessioniPrimary (citable) accession number: P48061
Secondary accession number(s): B2R4G0
, E7EVL0, H7BYN8, Q2L985, Q2L986, Q2L988, Q5IT36, Q6ICW0, Q9H554
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: September 7, 2016
This is version 175 of the entry and version 1 of the sequence. [Complete history]
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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 10
    Human chromosome 10: entries, gene names and cross-references to MIM
  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. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.