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Protein

AT-rich interactive domain-containing protein 4A

Gene

ARID4A

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Interacts with the viral protein-binding domain of the retinoblastoma protein.

GO - Molecular functioni

  • DNA binding Source: GDB
  • histone deacetylase activity Source: Reactome
  • transcription factor activity, sequence-specific DNA binding Source: ProtInc
  • transcription regulatory region DNA binding Source: GO_Central

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciZFISH:ENSG00000032219-MONOMER.
ReactomeiR-HSA-3214815. HDACs deacetylate histones.
SIGNORiP29374.

Names & Taxonomyi

Protein namesi
Recommended name:
AT-rich interactive domain-containing protein 4A
Short name:
ARID domain-containing protein 4A
Alternative name(s):
Retinoblastoma-binding protein 1
Short name:
RBBP-1
Gene namesi
Name:ARID4A
Synonyms:RBBP1, RBP1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 14

Organism-specific databases

HGNCiHGNC:9885. ARID4A.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation1 Publication

GO - Cellular componenti

  • nucleoplasm Source: Reactome
  • nucleus Source: GDB
  • transcriptional repressor complex Source: GDB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi5926.
OpenTargetsiENSG00000032219.
PharmGKBiPA34249.

Polymorphism and mutation databases

BioMutaiARID4A.
DMDMi206729929.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002005801 – 1257AT-rich interactive domain-containing protein 4AAdd BLAST1257

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki481Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei676PhosphoserineCombined sources1
Modified residuei716PhosphoserineCombined sources1
Cross-linki718Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei864PhosphoserineCombined sources1
Modified residuei1109PhosphoserineCombined sources1
Modified residuei1145PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiP29374.
MaxQBiP29374.
PaxDbiP29374.
PeptideAtlasiP29374.
PRIDEiP29374.

PTM databases

iPTMnetiP29374.
PhosphoSitePlusiP29374.

Expressioni

Gene expression databases

BgeeiENSG00000032219.
CleanExiHS_ARID4A.
HS_RBP1.
ExpressionAtlasiP29374. baseline and differential.
GenevisibleiP29374. HS.

Organism-specific databases

HPAiHPA048899.

Interactioni

Subunit structurei

Interacts with BRMS1. Identified in mSin3A corepressor complexes together with SIN3A, SIN3B, RBBP4, RBBP7, SAP30, BRMS1, HDAC1 and HDAC2.1 Publication

Protein-protein interaction databases

BioGridi111861. 28 interactors.
DIPiDIP-463N.
IntActiP29374. 9 interactors.
MINTiMINT-150005.
STRINGi9606.ENSP00000347602.

Structurei

Secondary structure

11257
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi8 – 10Combined sources3
Beta strandi15 – 20Combined sources6
Beta strandi23 – 42Combined sources20
Turni43 – 45Combined sources3
Beta strandi48 – 52Combined sources5
Turni53 – 55Combined sources3
Beta strandi56 – 58Combined sources3
Beta strandi65 – 69Combined sources5
Beta strandi75 – 93Combined sources19
Beta strandi98 – 102Combined sources5
Helixi103 – 105Combined sources3
Beta strandi112 – 114Combined sources3
Beta strandi177 – 182Combined sources6
Beta strandi190 – 196Combined sources7
Beta strandi211 – 218Combined sources8
Beta strandi221 – 224Combined sources4
Turni226 – 228Combined sources3
Helixi239 – 244Combined sources6
Helixi246 – 256Combined sources11
Turni262 – 264Combined sources3
Helixi269 – 272Combined sources4
Beta strandi578 – 585Combined sources8
Beta strandi588 – 602Combined sources15
Beta strandi605 – 612Combined sources8
Beta strandi621 – 624Combined sources4
Helixi625 – 627Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LCCNMR-A568-635[»]
2MAMNMR-A4-121[»]
2YRVNMR-A170-273[»]
ProteinModelPortaliP29374.
SMRiP29374.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP29374.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini309 – 401ARIDPROSITE-ProRule annotationAdd BLAST93

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni951 – 964Retinoblastoma protein bindingSequence analysisAdd BLAST14

Sequence similaritiesi

Contains 1 ARID domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG2744. Eukaryota.
KOG3001. Eukaryota.
ENOG410Y2AP. LUCA.
GeneTreeiENSGT00850000132287.
HOGENOMiHOG000015398.
HOVERGENiHBG058247.
InParanoidiP29374.
KOiK19194.
OMAiTCSIIVQ.
OrthoDBiEOG091G0EG4.
PhylomeDBiP29374.
TreeFamiTF106427.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR001606. ARID_dom.
IPR000953. Chromo/shadow_dom.
IPR016197. Chromodomain-like.
IPR012603. RBB1NT.
IPR002999. Tudor.
IPR025995. Tudor-knot.
[Graphical view]
PfamiPF01388. ARID. 1 hit.
PF08169. RBB1NT. 1 hit.
PF11717. Tudor-knot. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
SM00298. CHROMO. 1 hit.
SM00333. TUDOR. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 1 hit.
SSF54160. SSF54160. 1 hit.
PROSITEiPS51011. ARID. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform I (identifier: P29374-1) [UniParc]FASTAAdd to basket

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
MKAADEPAYL TVGTDVSAKY RGAFCEAKIK TVKRLVKVKV LLKQDNTTQL
60 70 80 90 100
VQDDQVKGPL RVGAIVETRT SDGSFQEAII SKLTDASWYT VVFDDGDERT
110 120 130 140 150
LRRTSLCLKG ERHFAESETL DQLPLTNPEH FGTPVIAKKT NRGRRSSLPV
160 170 180 190 200
TEDEKEEESS EEEDEDKRRL NDELLGKVVS VVSATERTEW YPALVISPSC
210 220 230 240 250
NDDITVKKDQ CLVRSFIDSK FYSIARKDIK EVDILNLPES ELSTKPGLQK
260 270 280 290 300
ASIFLKTRVV PDNWKMDISE ILESSSSDDE DGPAEENDEE KEKEAKKTEE
310 320 330 340 350
EVPEEELDPE ERDNFLQQLY KFMEDRGTPI NKPPVLGYKD LNLFKLFRLV
360 370 380 390 400
YHQGGCDNID SGAVWKQIYM DLGIPILNSA ASYNVKTAYR KYLYGFEEYC
410 420 430 440 450
RSANIQFRTV HHHEPKVKEE KKDLEESMEE ALKLDQEMPL TEVKSEPEEN
460 470 480 490 500
IDSNSESERE EIELKSPRGR RRIARDVNSI KKEIEEEKTE DKLKDNDTEN
510 520 530 540 550
KDVDDDYETA EKKENELLLG RKNTPKQKEK KIKKQEDSDK DSDEEEEKSQ
560 570 580 590 600
EREETESKCD SEGEEDEEDM EPCLTGTKVK VKYGRGKTQK IYEASIKSTE
610 620 630 640 650
IDDGEVLYLV HYYGWNVRYD EWVKADRIIW PLDKGGPKKK QKKKAKNKED
660 670 680 690 700
SEKDEKRDEE RQKSKRGRPP LKSTLSSNMP YGLSKTANSE GKSDSCSSDS
710 720 730 740 750
ETEDALEKNL INEELSLKDE LEKNENLNDD KLDEENPKIS AHILKENDRT
760 770 780 790 800
QMQPLETLKL EVGENEQIVQ IFGNKMEKTE EVKKEAEKSP KGKGRRSKTK
810 820 830 840 850
DLSLEIIKIS SFGQNEAGSE PHIEAHSLEL SSLDNKNFSS ATEDEIDQCV
860 870 880 890 900
KEKKLKRKIL GQSSPEKKIR IENGMEMTNT VSQERTSDCI GSEGMKNLNF
910 920 930 940 950
EQHFERENEG MPSLIAESNQ CIQQLTSERF DSPAEETVNI PLKEDEDAMP
960 970 980 990 1000
LIGPETLVCH EVDLDDLDEK DKTSIEDVAV ESSESNSLVS IPPALPPVVQ
1010 1020 1030 1040 1050
HNFSVASPLT LSQDESRSVK SESDITIEVD SIAEESQEGL CERESANGFE
1060 1070 1080 1090 1100
TNVASGTCSI IVQERESREK GQKRPSDGNS GLMAKKQKRT PKRTSAAAKN
1110 1120 1130 1140 1150
EKNGTGQSSD SEDLPVLDNS SKCTPVKHLN VSKPQKLARS PARISPHIKD
1160 1170 1180 1190 1200
GEKDKHREKH PNSSPRTYKW SFQLNELDNM NSTERISFLQ EKLQEIRKYY
1210 1220 1230 1240 1250
MSLKSEVATI DRRRKRLKKK DREVSHAGAS MSSASSDTGM SPSSSSPPQN

VLAVECR
Length:1,257
Mass (Da):142,752
Last modified:September 23, 2008 - v3
Checksum:i5B3F6A5AFB7588CF
GO
Isoform II (identifier: P29374-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1121-1174: Missing.

Show »
Length:1,203
Mass (Da):136,495
Checksum:iB2A06AA7071AAAE2
GO
Isoform III (identifier: P29374-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1106-1174: Missing.
     1175-1175: N → D

Show »
Length:1,188
Mass (Da):134,951
Checksum:i0576FA849F761B54
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti385V → L in AAB28543 (PubMed:8414517).Curated1
Sequence conflicti618R → S in AAB28543 (PubMed:8414517).Curated1
Sequence conflicti653K → V in AAB25833 (PubMed:8455946).Curated1
Sequence conflicti653K → V in AAB25834 (PubMed:8455946).Curated1
Sequence conflicti653K → V in AAB25835 (PubMed:8455946).Curated1
Sequence conflicti1178D → S no nucleotide entry (PubMed:1857421).Curated1
Sequence conflicti1196 – 1201IRKYYM → SENIICL no nucleotide entry (PubMed:1857421).Curated6

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_031566412H → P.Corresponds to variant rs34982206dbSNPEnsembl.1
Natural variantiVAR_031567724N → S.Corresponds to variant rs2230098dbSNPEnsembl.1
Natural variantiVAR_031568779T → A.1 PublicationCorresponds to variant rs1051858dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0043711106 – 1174Missing in isoform III. 1 PublicationAdd BLAST69
Alternative sequenceiVSP_0043731121 – 1174Missing in isoform II. 1 PublicationAdd BLAST54
Alternative sequenceiVSP_0043721175N → D in isoform III. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S66427 mRNA. Translation: AAB28543.1.
AL132989 Genomic DNA. No translation available.
AL139021 Genomic DNA. No translation available.
S57153 mRNA. Translation: AAB25833.1.
S57160 mRNA. Translation: AAB25834.1.
S57162 mRNA. Translation: AAB25835.2.
CCDSiCCDS45114.1. [P29374-2]
CCDS9732.1. [P29374-1]
CCDS9733.1. [P29374-3]
PIRiI58383.
RefSeqiNP_002883.3. NM_002892.3. [P29374-1]
NP_075376.2. NM_023000.2. [P29374-2]
NP_075377.2. NM_023001.2. [P29374-3]
UniGeneiHs.161000.

Genome annotation databases

EnsembliENST00000348476; ENSP00000344556; ENSG00000032219. [P29374-3]
ENST00000355431; ENSP00000347602; ENSG00000032219. [P29374-1]
ENST00000395168; ENSP00000378597; ENSG00000032219. [P29374-2]
ENST00000431317; ENSP00000397368; ENSG00000032219. [P29374-3]
GeneIDi5926.
KEGGihsa:5926.
UCSCiuc001xdo.4. human. [P29374-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S66427 mRNA. Translation: AAB28543.1.
AL132989 Genomic DNA. No translation available.
AL139021 Genomic DNA. No translation available.
S57153 mRNA. Translation: AAB25833.1.
S57160 mRNA. Translation: AAB25834.1.
S57162 mRNA. Translation: AAB25835.2.
CCDSiCCDS45114.1. [P29374-2]
CCDS9732.1. [P29374-1]
CCDS9733.1. [P29374-3]
PIRiI58383.
RefSeqiNP_002883.3. NM_002892.3. [P29374-1]
NP_075376.2. NM_023000.2. [P29374-2]
NP_075377.2. NM_023001.2. [P29374-3]
UniGeneiHs.161000.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LCCNMR-A568-635[»]
2MAMNMR-A4-121[»]
2YRVNMR-A170-273[»]
ProteinModelPortaliP29374.
SMRiP29374.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi111861. 28 interactors.
DIPiDIP-463N.
IntActiP29374. 9 interactors.
MINTiMINT-150005.
STRINGi9606.ENSP00000347602.

PTM databases

iPTMnetiP29374.
PhosphoSitePlusiP29374.

Polymorphism and mutation databases

BioMutaiARID4A.
DMDMi206729929.

Proteomic databases

EPDiP29374.
MaxQBiP29374.
PaxDbiP29374.
PeptideAtlasiP29374.
PRIDEiP29374.

Protocols and materials databases

DNASUi5926.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000348476; ENSP00000344556; ENSG00000032219. [P29374-3]
ENST00000355431; ENSP00000347602; ENSG00000032219. [P29374-1]
ENST00000395168; ENSP00000378597; ENSG00000032219. [P29374-2]
ENST00000431317; ENSP00000397368; ENSG00000032219. [P29374-3]
GeneIDi5926.
KEGGihsa:5926.
UCSCiuc001xdo.4. human. [P29374-1]

Organism-specific databases

CTDi5926.
DisGeNETi5926.
GeneCardsiARID4A.
H-InvDBHIX0037655.
HGNCiHGNC:9885. ARID4A.
HPAiHPA048899.
MIMi180201. gene.
neXtProtiNX_P29374.
OpenTargetsiENSG00000032219.
PharmGKBiPA34249.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2744. Eukaryota.
KOG3001. Eukaryota.
ENOG410Y2AP. LUCA.
GeneTreeiENSGT00850000132287.
HOGENOMiHOG000015398.
HOVERGENiHBG058247.
InParanoidiP29374.
KOiK19194.
OMAiTCSIIVQ.
OrthoDBiEOG091G0EG4.
PhylomeDBiP29374.
TreeFamiTF106427.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000032219-MONOMER.
ReactomeiR-HSA-3214815. HDACs deacetylate histones.
SIGNORiP29374.

Miscellaneous databases

ChiTaRSiARID4A. human.
EvolutionaryTraceiP29374.
GeneWikiiARID4A.
GenomeRNAii5926.
PROiP29374.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000032219.
CleanExiHS_ARID4A.
HS_RBP1.
ExpressionAtlasiP29374. baseline and differential.
GenevisibleiP29374. HS.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR001606. ARID_dom.
IPR000953. Chromo/shadow_dom.
IPR016197. Chromodomain-like.
IPR012603. RBB1NT.
IPR002999. Tudor.
IPR025995. Tudor-knot.
[Graphical view]
PfamiPF01388. ARID. 1 hit.
PF08169. RBB1NT. 1 hit.
PF11717. Tudor-knot. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
SM00298. CHROMO. 1 hit.
SM00333. TUDOR. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 1 hit.
SSF54160. SSF54160. 1 hit.
PROSITEiPS51011. ARID. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiARI4A_HUMAN
AccessioniPrimary (citable) accession number: P29374
Secondary accession number(s): Q15991, Q15992, Q15993
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: September 23, 2008
Last modified: November 2, 2016
This is version 156 of the entry and version 3 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 14
    Human chromosome 14: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.