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Entry version 173 (31 Jul 2019)
Sequence version 3 (23 Jan 2007)
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Protein

Nuclease-sensitive element-binding protein 1

Gene

YBX1

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

Mediates pre-mRNA alternative splicing regulation. Binds to splice sites in pre-mRNA and regulates splice site selection. Binds and stabilizes cytoplasmic mRNA. Contributes to the regulation of translation by modulating the interaction between the mRNA and eukaryotic initiation factors (By similarity). Regulates the transcription of numerous genes. Its transcriptional activity on the multidrug resistance gene MDR1 is enhanced in presence of the APEX1 acetylated form at 'Lys-6' and 'Lys-7'. Binds to promoters that contain a Y-box (5'-CTGATTGGCCAA-3'), such as MDR1 and HLA class II genes. Promotes separation of DNA strands that contain mismatches or are modified by cisplatin. Has endonucleolytic activity and can introduce nicks or breaks into double-stranded DNA (in vitro). May play a role in DNA repair. Component of the CRD-mediated complex that promotes MYC mRNA stability. Binds preferentially to the 5'-[CU]CUGCG-3' motif in vitro.By similarity8 Publications
The secreted form acts as an extracellular mitogen and stimulates cell migration and proliferation.

<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

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 functionActivator, DNA-binding, Mitogen, Repressor, RNA-binding
Biological processmRNA processing, mRNA splicing, Transcription, Transcription regulation

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-72165 mRNA Splicing - Minor Pathway
R-HSA-9017802 Noncanonical activation of NOTCH3

SignaLink: a signaling pathway resource with multi-layered regulatory networks

More...
SignaLinki
P67809

SIGNOR Signaling Network Open Resource

More...
SIGNORi
P67809

<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:
Nuclease-sensitive element-binding protein 1
Alternative name(s):
CCAAT-binding transcription factor I subunit A
Short name:
CBF-A
DNA-binding protein B
Short name:
DBPB
Enhancer factor I subunit A
Short name:
EFI-A
Y-box transcription factor
Y-box-binding protein 1
Short name:
YB-1
<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:YBX1
Synonyms:NSEP1, YB1
<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 1

Organism-specific databases

Human Gene Nomenclature Database

More...
HGNCi
HGNC:8014 YBX1

Online Mendelian Inheritance in Man (OMIM)

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MIMi
154030 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_P67809

<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 & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus, 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>Mutagenesisi102S → A: Loss of phosphorylation by PKB/AKT1. Inhibits translocation to the nucleus and tumor cell growth. 1 Publication1
Mutagenesisi301K → A: Abrogates unconventional secretion. 1 Publication1
Mutagenesisi304K → A: Abrogates unconventional secretion. 1 Publication1

Organism-specific databases

DisGeNET

More...
DisGeNETi
4904

Open Targets

More...
OpenTargetsi
ENSG00000065978

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA31791

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
YBX1

Domain mapping of disease mutations (DMDM)

More...
DMDMi
54040031

<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 <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemovedCombined sources1 Publication
<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_00001002192 – 324Nuclease-sensitive element-binding protein 1Add BLAST323

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei2N-acetylserineCombined sources1 Publication1
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section describes <strong>covalent linkages</strong> of various types formed <strong>between two proteins (interchain cross-links)</strong> or <strong>between two parts of the same protein (intrachain cross-links)</strong>, except the disulfide bonds that are annotated in the <a href="http://www.uniprot.org/manual/disulfid">'Disulfide bond'</a> subsection.<p><a href='/help/crosslnk' target='_top'>More...</a></p>Cross-linki26Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei102Phosphoserine; by PKB/AKT1Combined sources1 Publication1
Cross-linki137Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication
Modified residuei162PhosphotyrosineCombined sources1
Modified residuei165PhosphoserineCombined sources1 Publication1
Modified residuei167PhosphoserineCombined sources1
Modified residuei174PhosphoserineCombined sources1
Modified residuei176PhosphoserineCombined sources1
Modified residuei301N6-acetyllysine1 Publication1
Modified residuei304N6-acetyllysine1 Publication1
Modified residuei314PhosphoserineCombined sources1

<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

Ubiquitinated by RBBP6; leading to a decrease of YBX1 transcactivational ability.1 Publication
In the absence of phosphorylation the protein is retained in the cytoplasm.2 Publications
Cleaved by a 20S proteasomal protease in response to agents that damage DNA. Cleavage takes place in the absence of ubiquitination and ATP. The resulting N-terminal fragment accumulates in the nucleus (By similarity).By similarity

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>Sitei219 – 220Cleavage; by 20S proteasomal protease2

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

Encyclopedia of Proteome Dynamics

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EPDi
P67809

jPOST - Japan Proteome Standard Repository/Database

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jPOSTi
P67809

MaxQB - The MaxQuant DataBase

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MaxQBi
P67809

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

More...
PaxDbi
P67809

PeptideAtlas

More...
PeptideAtlasi
P67809

PRoteomics IDEntifications database

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PRIDEi
P67809

ProteomicsDB human proteome resource

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ProteomicsDBi
57522

Consortium for Top Down Proteomics

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TopDownProteomicsi
P67809

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

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iPTMneti
P67809

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

More...
PhosphoSitePlusi
P67809

SwissPalm database of S-palmitoylation events

More...
SwissPalmi
P67809

Miscellaneous databases

CutDB - Proteolytic event database

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PMAP-CutDBi
P67809

<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

Gene expression databases

Bgee dataBase for Gene Expression Evolution

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Bgeei
ENSG00000065978 Expressed in 94 organ(s), highest expression level in testis

ExpressionAtlas, Differential and Baseline Expression

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ExpressionAtlasi
P67809 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

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Genevisiblei
P67809 HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
CAB005875
HPA040304
HPA057159

<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

Identified in a histone pre-mRNA complex, at least composed of ERI1, LSM11, SLBP, SNRPB, SYNCRIP and YBX1 (By similarity).

Component of the coding region determinant (CRD)-mediated complex, composed of DHX9, HNRNPU, IGF2BP1, SYNCRIP and YBX1.

Identified in a IGF2BP1-dependent mRNP granule complex containing untranslated mRNAs.

Component of the U11/U12 snRNPs that are part of the U12-type spliceosome.

Interacts with IGF2BP1 and RBBP6.

Component of cytoplasmic messenger ribonucleoprotein particles (mRNPs).

Interacts with AKT1, MBNL1, SFRS9, ALYREF/THOC4, MSH2, XRCC5, WRN and NCL. Can bind to DNA as a homomeric form, (EFI-A)n or as a heteromeric form in association with EFI-B. Homodimer in the presence of ATP.

Interacts (via C-terminus) with APEX1 (via N-terminus); the interaction is increased with APEX1 acetylated at 'Lys-6' and 'Lys-7'.

Interacts with AGO1 and AGO2.

Interacts with ANKRD2.

Interacts with DERA.

Interacts with FMR1; this interaction occurs in association with polyribosome (By similarity).

Interacts with ZBTB7B (By similarity).

Interacts with HDGF (isoform 1) (PubMed:26845719).

By similarity16 Publications

<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)

More...
BioGridi
110959, 326 interactors

ComplexPortal: manually curated resource of macromolecular complexes

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ComplexPortali
CPX-1080 CRD-mediated mRNA stability complex

CORUM comprehensive resource of mammalian protein complexes

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CORUMi
P67809

Database of interacting proteins

More...
DIPi
DIP-29405N

Protein interaction database and analysis system

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IntActi
P67809, 326 interactors

Molecular INTeraction database

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MINTi
P67809

STRING: functional protein association networks

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STRINGi
9606.ENSP00000361626

<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

1324
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

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SMRi
P67809

Database of comparative protein structure models

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ModBasei
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

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EvolutionaryTracei
P67809

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini61 – 125CSDAdd BLAST65

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>Regioni15 – 71Interaction with ss-DNAAdd BLAST57

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
KOG3070 Eukaryota
COG1278 LUCA

Ensembl GeneTree

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GeneTreei
ENSGT00940000153341

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

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HOGENOMi
HOG000116439

InParanoid: Eukaryotic Ortholog Groups

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InParanoidi
P67809

KEGG Orthology (KO)

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KOi
K09276

Identification of Orthologs from Complete Genome Data

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OMAi
RRYPPYY

Database of Orthologous Groups

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OrthoDBi
1431946at2759

Database for complete collections of gene phylogenies

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PhylomeDBi
P67809

TreeFam database of animal gene trees

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TreeFami
TF317306

Family and domain databases

Conserved Domains Database

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CDDi
cd04458 CSP_CDS, 1 hit

Integrated resource of protein families, domains and functional sites

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InterProi
View protein in InterPro
IPR011129 CSD
IPR019844 CSD_1
IPR002059 CSP_DNA-bd
IPR012340 NA-bd_OB-fold

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00313 CSD, 1 hit

Protein Motif fingerprint database; a protein domain database

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PRINTSi
PR00050 COLDSHOCK

Simple Modular Architecture Research Tool; a protein domain database

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SMARTi
View protein in SMART
SM00357 CSP, 1 hit

Superfamily database of structural and functional annotation

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SUPFAMi
SSF50249 SSF50249, 1 hit

PROSITE; a protein domain and family database

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PROSITEi
View protein in PROSITE
PS00352 CSD_1, 1 hit
PS51857 CSD_2, 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>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)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 has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

P67809-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSSEAETQQP PAAPPAAPAL SAADTKPGTT GSGAGSGGPG GLTSAAPAGG
60 70 80 90 100
DKKVIATKVL GTVKWFNVRN GYGFINRNDT KEDVFVHQTA IKKNNPRKYL
110 120 130 140 150
RSVGDGETVE FDVVEGEKGA EAANVTGPGG VPVQGSKYAA DRNHYRRYPR
160 170 180 190 200
RRGPPRNYQQ NYQNSESGEK NEGSESAPEG QAQQRRPYRR RRFPPYYMRR
210 220 230 240 250
PYGRRPQYSN PPVQGEVMEG ADNQGAGEQG RPVRQNMYRG YRPRFRRGPP
260 270 280 290 300
RQRQPREDGN EEDKENQGDE TQGQQPPQRR YRRNFNYRRR RPENPKPQDG
310 320
KETKAADPPA ENSSAPEAEQ GGAE
Length:324
Mass (Da):35,924
Last modified:January 23, 2007 - v3
<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:iDF0114BF974AEDB8
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
H0Y449H0Y449_HUMAN
Nuclease-sensitive element-binding ...
YBX1
374Annotation score:

Annotation score:2 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>
C9J5V9C9J5V9_HUMAN
Nuclease-sensitive element-binding ...
YBX1
216Annotation score:

Annotation score:2 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>

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAA35750 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence AAA59949 differs from that shown. Reason: Frameshift at several positions.Curated
The sequence AAA61308 differs from that shown. Reason: Frameshift at position 314.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti120A → E in AAA61308 (PubMed:3174636).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
M24070 mRNA Translation: AAA35750.1 Different initiation.
J03827 mRNA Translation: AAA61308.1 Frameshift.
M83234 mRNA Translation: AAA59949.1 Frameshift.
L28809 mRNA Translation: AAA20871.1
BC002411 mRNA Translation: AAH02411.1
BC010430 mRNA Translation: AAH10430.1
BC015208 mRNA Translation: AAH15208.1
BC038384 mRNA Translation: AAH38384.1
BC065571 mRNA Translation: AAH65571.1
BC070084 mRNA Translation: AAH70084.1
BC071708 mRNA Translation: AAH71708.1
BC090038 mRNA Translation: AAH90038.1
BC098435 mRNA Translation: AAH98435.1
BC106045 mRNA Translation: AAI06046.1

The Consensus CDS (CCDS) project

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CCDSi
CCDS470.1

Protein sequence database of the Protein Information Resource

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PIRi
I39382
S34426

NCBI Reference Sequences

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RefSeqi
NP_004550.2, NM_004559.4

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000321358; ENSP00000361626; ENSG00000065978

Database of genes from NCBI RefSeq genomes

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GeneIDi
4904

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:4904

UCSC genome browser

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UCSCi
uc001chs.4 human

<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

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M24070 mRNA Translation: AAA35750.1 Different initiation.
J03827 mRNA Translation: AAA61308.1 Frameshift.
M83234 mRNA Translation: AAA59949.1 Frameshift.
L28809 mRNA Translation: AAA20871.1
BC002411 mRNA Translation: AAH02411.1
BC010430 mRNA Translation: AAH10430.1
BC015208 mRNA Translation: AAH15208.1
BC038384 mRNA Translation: AAH38384.1
BC065571 mRNA Translation: AAH65571.1
BC070084 mRNA Translation: AAH70084.1
BC071708 mRNA Translation: AAH71708.1
BC090038 mRNA Translation: AAH90038.1
BC098435 mRNA Translation: AAH98435.1
BC106045 mRNA Translation: AAI06046.1
CCDSiCCDS470.1
PIRiI39382
S34426
RefSeqiNP_004550.2, NM_004559.4

3D structure databases

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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
1H95NMR-A52-129[»]
5YTSX-ray1.77A50-130[»]
5YTTX-ray1.60A50-130[»]
5YTVX-ray1.70A50-130[»]
5YTXX-ray1.55A50-130[»]
6A6JX-ray2.25A/C50-142[»]
6A6LX-ray1.78A50-130[»]
SMRiP67809
ModBaseiSearch...

Protein-protein interaction databases

BioGridi110959, 326 interactors
ComplexPortaliCPX-1080 CRD-mediated mRNA stability complex
CORUMiP67809
DIPiDIP-29405N
IntActiP67809, 326 interactors
MINTiP67809
STRINGi9606.ENSP00000361626

PTM databases

iPTMnetiP67809
PhosphoSitePlusiP67809
SwissPalmiP67809

Polymorphism and mutation databases

BioMutaiYBX1
DMDMi54040031

Proteomic databases

EPDiP67809
jPOSTiP67809
MaxQBiP67809
PaxDbiP67809
PeptideAtlasiP67809
PRIDEiP67809
ProteomicsDBi57522
TopDownProteomicsiP67809

Protocols and materials databases

The DNASU plasmid repository

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DNASUi
4904
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000321358; ENSP00000361626; ENSG00000065978
GeneIDi4904
KEGGihsa:4904
UCSCiuc001chs.4 human

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
4904
DisGeNETi4904

GeneCards: human genes, protein and diseases

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GeneCardsi
YBX1
HGNCiHGNC:8014 YBX1
HPAiCAB005875
HPA040304
HPA057159
MIMi154030 gene
neXtProtiNX_P67809
OpenTargetsiENSG00000065978
PharmGKBiPA31791

GenAtlas: human gene database

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GenAtlasi
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Phylogenomic databases

eggNOGiKOG3070 Eukaryota
COG1278 LUCA
GeneTreeiENSGT00940000153341
HOGENOMiHOG000116439
InParanoidiP67809
KOiK09276
OMAiRRYPPYY
OrthoDBi1431946at2759
PhylomeDBiP67809
TreeFamiTF317306

Enzyme and pathway databases

ReactomeiR-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-72165 mRNA Splicing - Minor Pathway
R-HSA-9017802 Noncanonical activation of NOTCH3
SignaLinkiP67809
SIGNORiP67809

Miscellaneous databases

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

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ChiTaRSi
YBX1 human
EvolutionaryTraceiP67809

The Gene Wiki collection of pages on human genes and proteins

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GeneWikii
Y_box_binding_protein_1

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

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GenomeRNAii
4904
PMAP-CutDBiP67809

Protein Ontology

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PROi
PR:P67809

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
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Gene expression databases

BgeeiENSG00000065978 Expressed in 94 organ(s), highest expression level in testis
ExpressionAtlasiP67809 baseline and differential
GenevisibleiP67809 HS

Family and domain databases

CDDicd04458 CSP_CDS, 1 hit
InterProiView protein in InterPro
IPR011129 CSD
IPR019844 CSD_1
IPR002059 CSP_DNA-bd
IPR012340 NA-bd_OB-fold
PfamiView protein in Pfam
PF00313 CSD, 1 hit
PRINTSiPR00050 COLDSHOCK
SMARTiView protein in SMART
SM00357 CSP, 1 hit
SUPFAMiSSF50249 SSF50249, 1 hit
PROSITEiView protein in PROSITE
PS00352 CSD_1, 1 hit
PS51857 CSD_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
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MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
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<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 nameiYBOX1_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: P67809
Secondary accession number(s): P16990
, P16991, Q14972, Q15325, Q5FVF0
<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: October 11, 2004
Last sequence update: January 23, 2007
Last modified: July 31, 2019
This is version 173 of the entry and version 3 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, Direct protein sequencing, Reference proteome

Documents

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