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Protein

AT-rich interactive domain-containing protein 5B

Gene

ARID5B

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

Functioni

Transcription coactivator that binds to the 5'-AATA[CT]-3' core sequence and plays a key role in adipogenesis and liver development. Acts by forming a complex with phosphorylated PHF2, which mediates demethylation at Lys-336, leading to target the PHF2-ARID5B complex to target promoters, where PHF2 mediates demethylation of dimethylated 'Lys-9' of histone H3 (H3K9me2), followed by transcription activation of target genes. The PHF2-ARID5B complex acts as a coactivator of HNF4A in liver. Required for adipogenesis: regulates triglyceride metabolism in adipocytes by regulating expression of adipogenic genes. Overexpression leads to induction of smooth muscle marker genes, suggesting that it may also act as a regulator of smooth muscle cell differentiation and proliferation. Represses the cytomegalovirus enhancer.1 Publication

GO - Molecular functioni

  • DNA binding Source: GDB
  • histone demethylase activity Source: Reactome
  • RNA polymerase II regulatory region sequence-specific DNA binding Source: NTNU_SB
  • transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding Source: NTNU_SB
  • transcription regulatory region DNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-3214842. HDMs demethylate histones.
SignaLinkiQ14865.

Names & Taxonomyi

Protein namesi
Recommended name:
AT-rich interactive domain-containing protein 5B
Short name:
ARID domain-containing protein 5B
Alternative name(s):
MRF1-like protein
Modulator recognition factor 2
Short name:
MRF-2
Gene namesi
Name:ARID5B
Synonyms:DESRT, MRF2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 10

Organism-specific databases

HGNCiHGNC:17362. ARID5B.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Involvement in diseasei

Defects in ARID5B may be a cause of susceptibility to coronary atherosclerosis in the Japanese population.

Leukemia, acute lymphoblastic (ALL)7 Publications
Disease susceptibility is associated with variations affecting the gene represented in this entry.
Disease descriptionA subtype of acute leukemia, a cancer of the white blood cells. ALL is a malignant disease of bone marrow and the most common malignancy diagnosed in children. The malignant cells are lymphoid precursor cells (lymphoblasts) that are arrested in an early stage of development. The lymphoblasts replace the normal marrow elements, resulting in a marked decrease in the production of normal blood cells. Consequently, anemia, thrombocytopenia, and neutropenia occur to varying degrees. The lymphoblasts also proliferate in organs other than the marrow, particularly the liver, spleen, and lymphnodes.
See also OMIM:613065

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi336K → A or R: Abolishes methylation and FSK-dependent DNA-binding of the PHF2-ARID5B complex to promoters. 1 Publication1

Organism-specific databases

DisGeNETi84159.
MIMi613065. phenotype.
OpenTargetsiENSG00000150347.
PharmGKBiPA134943193.

Polymorphism and mutation databases

BioMutaiARID5B.
DMDMi209572763.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002005811 – 1188AT-rich interactive domain-containing protein 5BAdd BLAST1188

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei264PhosphoserineCombined sources1
Modified residuei336N6,N6-dimethyllysine1 Publication1
Cross-linki774Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki803Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei1032PhosphoserineCombined sources1
Modified residuei1133PhosphoserineCombined sources1

Post-translational modificationi

Methylation at Lys-336 prevents DNA-binding. Demethylation by PHF2 promotes recruitment of the PHF2-ARID5B complex to promoters.1 Publication

Keywords - PTMi

Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ14865.
MaxQBiQ14865.
PaxDbiQ14865.
PeptideAtlasiQ14865.
PRIDEiQ14865.

PTM databases

iPTMnetiQ14865.
PhosphoSitePlusiQ14865.

Expressioni

Tissue specificityi

Widely expressed, including in liver (at protein level).1 Publication

Gene expression databases

BgeeiENSG00000150347.
CleanExiHS_ARID5B.
GenevisibleiQ14865. HS.

Organism-specific databases

HPAiHPA015037.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
HDAC1Q135475EBI-1210388,EBI-301834

Protein-protein interaction databases

BioGridi123918. 18 interactors.
IntActiQ14865. 14 interactors.
STRINGi9606.ENSP00000279873.

Structurei

Secondary structure

11188
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi319 – 333Combined sources15
Turni334 – 336Combined sources3
Helixi339 – 341Combined sources3
Beta strandi345 – 349Combined sources5
Helixi352 – 361Combined sources10
Helixi364 – 371Combined sources8
Helixi374 – 381Combined sources8
Turni388 – 393Combined sources6
Helixi394 – 401Combined sources8
Turni402 – 405Combined sources4
Helixi406 – 412Combined sources7
Beta strandi414 – 417Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IG6NMR-A318-424[»]
2OEHNMR-A318-424[»]
ProteinModelPortaliQ14865.
SMRiQ14865.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ14865.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini318 – 410ARIDPROSITE-ProRule annotationAdd BLAST93

Domaini

The ARID domain mediates the interaction with DNA.

Sequence similaritiesi

Belongs to the ARID5B family.Curated
Contains 1 ARID domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG410IQ7B. Eukaryota.
ENOG4110NWK. LUCA.
GeneTreeiENSGT00850000132287.
HOVERGENiHBG102783.
InParanoidiQ14865.
OMAiPVGSSYG.
OrthoDBiEOG091G0E6N.
PhylomeDBiQ14865.
TreeFamiTF324725.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR030408. ARID5B.
IPR001606. ARID_dom.
[Graphical view]
PANTHERiPTHR13964:SF29. PTHR13964:SF29. 1 hit.
PfamiPF01388. ARID. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 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 1 (identifier: Q14865-1) [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
MEPNSLQWVG SPCGLHGPYI FYKAFQFHLE GKPRILSLGD FFFVRCTPKD
60 70 80 90 100
PICIAELQLL WEERTSRQLL SSSKLYFLPE DTPQGRNSDH GEDEVIAVSE
110 120 130 140 150
KVIVKLEDLV KWVHSDFSKW RCGFHAGPVK TEALGRNGQK EALLKYRQST
160 170 180 190 200
LNSGLNFKDV LKEKADLGED EEETNVIVLS YPQYCRYRSM LKRIQDKPSS
210 220 230 240 250
ILTDQFALAL GGIAVVSRNP QILYCRDTFD HPTLIENESI CDEFAPNLKG
260 270 280 290 300
RPRKKKPCPQ RRDSFSGVKD SNNNSDGKAV AKVKCEARSA LTKPKNNHNC
310 320 330 340 350
KKVSNEEKPK VAIGEECRAD EQAFLVALYK YMKERKTPIE RIPYLGFKQI
360 370 380 390 400
NLWTMFQAAQ KLGGYETITA RRQWKHIYDE LGGNPGSTSA ATCTRRHYER
410 420 430 440 450
LILPYERFIK GEEDKPLPPI KPRKQENSSQ ENENKTKVSG TKRIKHEIPK
460 470 480 490 500
SKKEKENAPK PQDAAEVSSE QEKEQETLIS QKSIPEPLPA ADMKKKIEGY
510 520 530 540 550
QEFSAKPLAS RVDPEKDNET DQGSNSEKVA EEAGEKGPTP PLPSAPLAPE
560 570 580 590 600
KDSALVPGAS KQPLTSPSAL VDSKQESKLC CFTESPESEP QEASFPSFPT
610 620 630 640 650
TQPPLANQNE TEDDKLPAMA DYIANCTVKV DQLGSDDIHN ALKQTPKVLV
660 670 680 690 700
VQSFDMFKDK DLTGPMNENH GLNYTPLLYS RGNPGIMSPL AKKKLLSQVS
710 720 730 740 750
GASLSSSYPY GSPPPLISKK KLIARDDLCS SLSQTHHGQS TDHMAVSRPS
760 770 780 790 800
VIQHVQSFRS KPSEERKTIN DIFKHEKLSR SDPHRCSFSK HHLNPLADSY
810 820 830 840 850
VLKQEIQEGK DKLLEKRALP HSHMPSFLAD FYSSPHLHSL YRHTEHHLHN
860 870 880 890 900
EQTSKYPSRD MYRESENSSF PSHRHQEKLH VNYLTSLHLQ DKKSAAAEAP
910 920 930 940 950
TDDQPTDLSL PKNPHKPTGK VLGLAHSTTG PQESKGISQF QVLGSQSRDC
960 970 980 990 1000
HPKACRVSPM TMSGPKKYPE SLSRSGKPHH VRLENFRKME GMVHPILHRK
1010 1020 1030 1040 1050
MSPQNIGAAR PIKRSLEDLD LVIAGKKARA VSPLDPSKEV SGKEKASEQE
1060 1070 1080 1090 1100
SEGSKAAHGG HSGGGSEGHK LPLSSPIFPG LYSGSLCNSG LNSRLPAGYS
1110 1120 1130 1140 1150
HSLQYLKNQT VLSPLMQPLA FHSLVMQRGI FTSPTNSQQL YRHLAAATPV
1160 1170 1180
GSSYGDLLHN SIYPLAAINP QAAFPSSQLS SVHPSTKL
Length:1,188
Mass (Da):132,375
Last modified:October 14, 2008 - v3
Checksum:i23B7C525B0055330
GO
Isoform 2 (identifier: Q14865-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-243: Missing.
     244-244: F → M

Show »
Length:945
Mass (Da):104,602
Checksum:iEAD2A25EDB4EF57D
GO
Isoform 3 (identifier: Q14865-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     284-318: KCEARSALTKPKNNHNCKKVSNEEKPKVAIGEECR → RSFTPRYSFRCIFLFLLFLFISLCLCLGGSFQFSI
     319-1188: Missing.

Note: No experimental confirmation available.
Show »
Length:318
Mass (Da):36,282
Checksum:iAFE2D2C2665FE375
GO

Sequence cautioni

The sequence AAH15120 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated
The sequence AAH36831 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence AAH66345 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated
The sequence AAI07801 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated
The sequence BAB15012 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti401L → S in AAH15120 (PubMed:15489334).Curated1
Sequence conflicti451S → N in AAH15120 (PubMed:15489334).Curated1
Sequence conflicti827F → L in CAE46013 (PubMed:17974005).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0093551 – 243Missing in isoform 2. 2 PublicationsAdd BLAST243
Alternative sequenceiVSP_009356244F → M in isoform 2. 2 Publications1
Alternative sequenceiVSP_041560284 – 318KCEAR…GEECR → RSFTPRYSFRCIFLFLLFLF ISLCLCLGGSFQFSI in isoform 3. CuratedAdd BLAST35
Alternative sequenceiVSP_041561319 – 1188Missing in isoform 3. CuratedAdd BLAST870

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL671972 Genomic DNA. Translation: CAH72685.1.
AL671972, AC067742 Genomic DNA. Translation: CAH72686.1.
AK024803 mRNA. Translation: BAB15012.1. Sequence problems.
AK296921 mRNA. Translation: BAG59475.1.
BC015120 mRNA. Translation: AAH15120.1. Sequence problems.
BC036831 mRNA. Translation: AAH36831.1. Different initiation.
BC066345 mRNA. Translation: AAH66345.1. Sequence problems.
BC107800 mRNA. Translation: AAI07801.1. Sequence problems.
M73837 mRNA. Translation: AAA59870.1.
BX537690 mRNA. Translation: CAD97814.1.
BX641020 mRNA. Translation: CAE46013.1.
CCDSiCCDS31208.1. [Q14865-1]
CCDS58082.1. [Q14865-2]
PIRiS27963.
RefSeqiNP_001231567.1. NM_001244638.1. [Q14865-2]
NP_115575.1. NM_032199.2. [Q14865-1]
UniGeneiHs.535297.

Genome annotation databases

EnsembliENST00000279873; ENSP00000279873; ENSG00000150347. [Q14865-1]
ENST00000309334; ENSP00000308862; ENSG00000150347. [Q14865-2]
GeneIDi84159.
KEGGihsa:84159.
UCSCiuc001jlt.3. human. [Q14865-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL671972 Genomic DNA. Translation: CAH72685.1.
AL671972, AC067742 Genomic DNA. Translation: CAH72686.1.
AK024803 mRNA. Translation: BAB15012.1. Sequence problems.
AK296921 mRNA. Translation: BAG59475.1.
BC015120 mRNA. Translation: AAH15120.1. Sequence problems.
BC036831 mRNA. Translation: AAH36831.1. Different initiation.
BC066345 mRNA. Translation: AAH66345.1. Sequence problems.
BC107800 mRNA. Translation: AAI07801.1. Sequence problems.
M73837 mRNA. Translation: AAA59870.1.
BX537690 mRNA. Translation: CAD97814.1.
BX641020 mRNA. Translation: CAE46013.1.
CCDSiCCDS31208.1. [Q14865-1]
CCDS58082.1. [Q14865-2]
PIRiS27963.
RefSeqiNP_001231567.1. NM_001244638.1. [Q14865-2]
NP_115575.1. NM_032199.2. [Q14865-1]
UniGeneiHs.535297.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IG6NMR-A318-424[»]
2OEHNMR-A318-424[»]
ProteinModelPortaliQ14865.
SMRiQ14865.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi123918. 18 interactors.
IntActiQ14865. 14 interactors.
STRINGi9606.ENSP00000279873.

PTM databases

iPTMnetiQ14865.
PhosphoSitePlusiQ14865.

Polymorphism and mutation databases

BioMutaiARID5B.
DMDMi209572763.

Proteomic databases

EPDiQ14865.
MaxQBiQ14865.
PaxDbiQ14865.
PeptideAtlasiQ14865.
PRIDEiQ14865.

Protocols and materials databases

DNASUi84159.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000279873; ENSP00000279873; ENSG00000150347. [Q14865-1]
ENST00000309334; ENSP00000308862; ENSG00000150347. [Q14865-2]
GeneIDi84159.
KEGGihsa:84159.
UCSCiuc001jlt.3. human. [Q14865-1]

Organism-specific databases

CTDi84159.
DisGeNETi84159.
GeneCardsiARID5B.
H-InvDBHIX0008854.
HGNCiHGNC:17362. ARID5B.
HPAiHPA015037.
MIMi608538. gene.
613065. phenotype.
neXtProtiNX_Q14865.
OpenTargetsiENSG00000150347.
PharmGKBiPA134943193.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IQ7B. Eukaryota.
ENOG4110NWK. LUCA.
GeneTreeiENSGT00850000132287.
HOVERGENiHBG102783.
InParanoidiQ14865.
OMAiPVGSSYG.
OrthoDBiEOG091G0E6N.
PhylomeDBiQ14865.
TreeFamiTF324725.

Enzyme and pathway databases

ReactomeiR-HSA-3214842. HDMs demethylate histones.
SignaLinkiQ14865.

Miscellaneous databases

ChiTaRSiARID5B. human.
EvolutionaryTraceiQ14865.
GeneWikiiARID5B.
GenomeRNAii84159.
PROiQ14865.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000150347.
CleanExiHS_ARID5B.
GenevisibleiQ14865. HS.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR030408. ARID5B.
IPR001606. ARID_dom.
[Graphical view]
PANTHERiPTHR13964:SF29. PTHR13964:SF29. 1 hit.
PfamiPF01388. ARID. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 1 hit.
PROSITEiPS51011. ARID. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiARI5B_HUMAN
AccessioniPrimary (citable) accession number: Q14865
Secondary accession number(s): B4DLB3
, Q05DG6, Q32Q59, Q5VST4, Q6NZ42, Q7Z3M4, Q8N421, Q9H786
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 2, 2004
Last sequence update: October 14, 2008
Last modified: November 2, 2016
This is version 155 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 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.