Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

E3 ubiquitin-protein ligase BRE1B

Gene

RNF40

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

Functioni

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes.2 Publications

Catalytic activityi

S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.2 Publications

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri948 – 987RING-typePROSITE-ProRule annotationAdd BLAST40

GO - Molecular functioni

  • mRNA 3'-UTR binding Source: UniProtKB
  • protein homodimerization activity Source: UniProtKB
  • ubiquitin protein ligase binding Source: UniProtKB
  • ubiquitin-protein transferase activity Source: Ensembl
  • zinc ion binding Source: InterPro

GO - Biological processi

  • histone H2B ubiquitination Source: UniProtKB
  • histone monoubiquitination Source: UniProtKB
  • negative regulation of mRNA polyadenylation Source: UniProtKB
  • positive regulation of histone H2B ubiquitination Source: UniProtKB
  • positive regulation of proteasomal protein catabolic process Source: Ensembl
  • positive regulation of protein polyubiquitination Source: Ensembl
  • response to peptide hormone Source: Ensembl
  • ubiquitin-dependent protein catabolic process Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Transferase

Keywords - Biological processi

Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:ENSG00000103549-MONOMER.
SIGNORiO75150.
UniPathwayiUPA00143.

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase BRE1B (EC:2.3.2.272 Publications)
Short name:
BRE1-B
Alternative name(s):
95 kDa retinoblastoma-associated protein
Short name:
RBP95
RING finger protein 40
RING-type E3 ubiquitin transferase BRE1BCurated
Gene namesi
Name:RNF40
Synonyms:BRE1B, KIAA0661
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 16

Organism-specific databases

HGNCiHGNC:16867. RNF40.

Subcellular locationi

  • Nucleus 1 Publication

GO - Cellular componenti

  • axon terminus Source: Ensembl
  • cytosol Source: Ensembl
  • extrinsic component of membrane Source: Ensembl
  • HULC complex Source: UniProtKB
  • membrane Source: UniProtKB
  • neuron projection Source: UniProtKB
  • nucleoplasm Source: HPA
  • nucleus Source: UniProtKB
  • ubiquitin ligase complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi109L → S: Abolishes interaction with RB1. 1 Publication1
Mutagenesisi111C → M: Abolishes interaction with RB1. 1 Publication1
Mutagenesisi113E → Q: Abolishes interaction with RB1. 1 Publication1

Organism-specific databases

DisGeNETi9810.
PharmGKBiPA34440.

Polymorphism and mutation databases

BioMutaiRNF40.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000558391 – 1001E3 ubiquitin-protein ligase BRE1BAdd BLAST1001

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei20N6-acetyllysineBy similarity1
Modified residuei42PhosphoserineBy similarity1
Modified residuei355N6-acetyllysineBy similarity1
Modified residuei517N6-acetyllysineBy similarity1
Modified residuei528PhosphoserineBy similarity1
Modified residuei585PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiO75150.
MaxQBiO75150.
PaxDbiO75150.
PeptideAtlasiO75150.
PRIDEiO75150.

PTM databases

iPTMnetiO75150.
PhosphoSitePlusiO75150.

Expressioni

Tissue specificityi

Ubiquitously expressed. Expressed at higher level in testis, heart and pancreas, while it is only weakly expressed in lung, skeletal muscle and small intestine.1 Publication

Gene expression databases

BgeeiENSG00000103549.
CleanExiHS_RNF40.
ExpressionAtlasiO75150. baseline and differential.
GenevisibleiO75150. HS.

Organism-specific databases

HPAiHPA041330.
HPA054227.

Interactioni

Subunit structurei

Component of the RNF20/40 complex (also known as BRE1 complex) probably composed of 2 copies of RNF20/BRE1A and 2 copies of RNF40/BRE1B. Interacts with UBE2E1/UBCH6. Interacts with RB1 and WAC.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
AMOTL2Q9Y2J4-43EBI-744408,EBI-10187270
CCDC146Q8IYE0-23EBI-744408,EBI-10247802
HTTP428583EBI-744408,EBI-466029
NCBP1Q091613EBI-744408,EBI-464743
RB1P064003EBI-744408,EBI-491274
RNF20Q5VTR210EBI-744408,EBI-2372238
SFR1Q86XK33EBI-744408,EBI-1104535
UBE2IQ7KZS03EBI-744408,EBI-10180829

GO - Molecular functioni

  • protein homodimerization activity Source: UniProtKB
  • ubiquitin protein ligase binding Source: UniProtKB

Protein-protein interaction databases

BioGridi115149. 82 interactors.
IntActiO75150. 32 interactors.
MINTiMINT-1466706.
STRINGi9606.ENSP00000325677.

Structurei

3D structure databases

ProteinModelPortaliO75150.
SMRiO75150.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili44 – 91Sequence analysisAdd BLAST48
Coiled coili189 – 377Sequence analysisAdd BLAST189
Coiled coili437 – 525Sequence analysisAdd BLAST89
Coiled coili627 – 946Sequence analysisAdd BLAST320

Sequence similaritiesi

Belongs to the BRE1 family.Curated
Contains 1 RING-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri948 – 987RING-typePROSITE-ProRule annotationAdd BLAST40

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

eggNOGiKOG0978. Eukaryota.
ENOG410Y5C6. LUCA.
HOVERGENiHBG080312.
InParanoidiO75150.
KOiK10696.
OrthoDBiEOG091G01SA.
PhylomeDBiO75150.
TreeFamiTF323183.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
[Graphical view]
SMARTiSM00184. RING. 1 hit.
[Graphical view]
PROSITEiPS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 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: O75150-1) [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
MSGPGNKRAA GDGGSGPPEK KLSREEKTTT TLIEPIRLGG ISSTEEMDLK
60 70 80 90 100
VLQFKNKKLA ERLEQRQACE DELRERIEKL EKRQATDDAT LLIVNRYWAQ
110 120 130 140 150
LDETVEALLR CHESQGELSS APEAPGTQEG PTCDGTPLPE PGTSELRDPL
160 170 180 190 200
LMQLRPPLSE PALAFVVALG ASSSEEVELE LQGRMEFSKA AVSRVVEASD
210 220 230 240 250
RLQRRVEELC QRVYSRGDSE PLSEAAQAHT RELGRENRRL QDLATQLQEK
260 270 280 290 300
HHRISLEYSE LQDKVTSAET KVLEMETTVE DLQWDIEKLR KREQKLNKHL
310 320 330 340 350
AEALEQLNSG YYVSGSSSGF QGGQITLSMQ KFEMLNAELE ENQELANSRM
360 370 380 390 400
AELEKLQAEL QGAVRTNERL KVALRSLPEE VVRETGEYRM LQAQFSLLYN
410 420 430 440 450
ESLQVKTQLD EARGLLLATK NSHLRHIEHM ESDELGLQKK LRTEVIQLED
460 470 480 490 500
TLAQVRKEYE MLRIEFEQNL AANEQAGPIN REMRHLISSL QNHNHQLKGD
510 520 530 540 550
AQRYKRKLRE VQAEIGKLRA QASGSAHSTP NLGHPEDSGV SAPAPGKEEG
560 570 580 590 600
GPGPVSTPDN RKEMAPVPGT TTTTTSVKKE ELVPSEEDFQ GITPGAQGPS
610 620 630 640 650
SRGREPEARP KRELQEREGP SLGPPPVASA LSRADREKAK VEETKRKESE
660 670 680 690 700
LLKGLRAELK KAQESQKEMK LLLDMYKSAP KEQRDKVQLM AAERKAKAEV
710 720 730 740 750
DELRSRIREL EERDRRESKK IADEDALRRI RQAEEQIEHL QRKLGATKQE
760 770 780 790 800
EEALLSEMDV TGQAFEDMQE QNGRLLQQLR EKDDANFKLM SERIKANQIH
810 820 830 840 850
KLLREEKDEL GEQVLGLKSQ VDAQLLTVQK LEEKERALQG SLGGVEKELT
860 870 880 890 900
LRSQALELNK RKAVEAAQLA EDLKVQLEHV QTRLREIQPC LAESRAAREK
910 920 930 940 950
ESFNLKRAQE DISRLRRKLE KQRKVEVYAD ADEILQEEIK EYKARLTCPC
960 970 980 990 1000
CNTRKKDAVL TKCFHVFCFE CVRGRYEARQ RKCPKCNAAF GAHDFHRIYI

S
Length:1,001
Mass (Da):113,650
Last modified:November 30, 2010 - v4
Checksum:i82D7CD183EDD5EFC
GO
Isoform 3 (identifier: O75150-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     822-838: DAQLLTVQKLEEKERAL → WPPPACRLELERWGSWP
     839-1001: Missing.

Note: No experimental confirmation available.
Show »
Length:838
Mass (Da):94,796
Checksum:i87B68E08B358A730
GO
Isoform 4 (identifier: O75150-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     332-431: Missing.

Note: No experimental confirmation available.
Show »
Length:901
Mass (Da):102,046
Checksum:i445DD31CF7511205
GO

Sequence cautioni

The sequence BAA31636 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence CAE45869 differs from that shown. Aberrant splicing.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti56N → D in BAB55092 (PubMed:14702039).Curated1
Sequence conflicti96R → L in AAG13723 (PubMed:10944455).Curated1
Sequence conflicti108L → P in BAB55092 (PubMed:14702039).Curated1
Sequence conflicti172S → G in BAB55092 (PubMed:14702039).Curated1
Sequence conflicti387E → K in CAH10518 (PubMed:17974005).Curated1
Sequence conflicti562K → E in CAE45869 (PubMed:17974005).Curated1
Sequence conflicti600S → F in CAE45869 (PubMed:17974005).Curated1
Sequence conflicti714D → N in BAB55092 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_055021463R → H.Corresponds to variant rs11556801dbSNPEnsembl.1
Natural variantiVAR_055022615Q → R.5 PublicationsCorresponds to variant rs7195142dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_016681332 – 431Missing in isoform 4. 1 PublicationAdd BLAST100
Alternative sequenceiVSP_016682822 – 838DAQLL…KERAL → WPPPACRLELERWGSWP in isoform 3. 1 PublicationAdd BLAST17
Alternative sequenceiVSP_016683839 – 1001Missing in isoform 3. 1 PublicationAdd BLAST163

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF122819 mRNA. Translation: AAG13723.1.
AB014561 mRNA. Translation: BAA31636.2. Different initiation.
AK027406 mRNA. Translation: BAB55092.1.
BX640763 mRNA. Translation: CAE45869.1. Sequence problems.
CR627431 mRNA. Translation: CAH10518.1.
AC106886 Genomic DNA. No translation available.
BC004527 mRNA. Translation: AAH04527.2.
BC006133 mRNA. Translation: AAH06133.1.
BC011769 mRNA. Translation: AAH11769.1.
BC018647 mRNA. Translation: AAH18647.1.
BC030802 mRNA. Translation: AAH30802.2.
CCDSiCCDS10691.1. [O75150-1]
CCDS55994.1. [O75150-4]
PIRiJC7363.
RefSeqiNP_001193962.1. NM_001207033.1.
NP_001193963.1. NM_001207034.1.
NP_001273501.1. NM_001286572.2.
NP_055586.1. NM_014771.3.
UniGeneiHs.65238.

Genome annotation databases

EnsembliENST00000324685; ENSP00000325677; ENSG00000103549.
ENST00000357890; ENSP00000350563; ENSG00000103549.
GeneIDi9810.
KEGGihsa:9810.
UCSCiuc002dzq.4. human. [O75150-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF122819 mRNA. Translation: AAG13723.1.
AB014561 mRNA. Translation: BAA31636.2. Different initiation.
AK027406 mRNA. Translation: BAB55092.1.
BX640763 mRNA. Translation: CAE45869.1. Sequence problems.
CR627431 mRNA. Translation: CAH10518.1.
AC106886 Genomic DNA. No translation available.
BC004527 mRNA. Translation: AAH04527.2.
BC006133 mRNA. Translation: AAH06133.1.
BC011769 mRNA. Translation: AAH11769.1.
BC018647 mRNA. Translation: AAH18647.1.
BC030802 mRNA. Translation: AAH30802.2.
CCDSiCCDS10691.1. [O75150-1]
CCDS55994.1. [O75150-4]
PIRiJC7363.
RefSeqiNP_001193962.1. NM_001207033.1.
NP_001193963.1. NM_001207034.1.
NP_001273501.1. NM_001286572.2.
NP_055586.1. NM_014771.3.
UniGeneiHs.65238.

3D structure databases

ProteinModelPortaliO75150.
SMRiO75150.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115149. 82 interactors.
IntActiO75150. 32 interactors.
MINTiMINT-1466706.
STRINGi9606.ENSP00000325677.

PTM databases

iPTMnetiO75150.
PhosphoSitePlusiO75150.

Polymorphism and mutation databases

BioMutaiRNF40.

Proteomic databases

EPDiO75150.
MaxQBiO75150.
PaxDbiO75150.
PeptideAtlasiO75150.
PRIDEiO75150.

Protocols and materials databases

DNASUi9810.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000324685; ENSP00000325677; ENSG00000103549.
ENST00000357890; ENSP00000350563; ENSG00000103549.
GeneIDi9810.
KEGGihsa:9810.
UCSCiuc002dzq.4. human. [O75150-1]

Organism-specific databases

CTDi9810.
DisGeNETi9810.
GeneCardsiRNF40.
HGNCiHGNC:16867. RNF40.
HPAiHPA041330.
HPA054227.
MIMi607700. gene.
neXtProtiNX_O75150.
PharmGKBiPA34440.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0978. Eukaryota.
ENOG410Y5C6. LUCA.
HOVERGENiHBG080312.
InParanoidiO75150.
KOiK10696.
OrthoDBiEOG091G01SA.
PhylomeDBiO75150.
TreeFamiTF323183.

Enzyme and pathway databases

UniPathwayiUPA00143.
BioCyciZFISH:ENSG00000103549-MONOMER.
SIGNORiO75150.

Miscellaneous databases

ChiTaRSiRNF40. human.
GeneWikiiRNF40.
GenomeRNAii9810.
PROiO75150.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000103549.
CleanExiHS_RNF40.
ExpressionAtlasiO75150. baseline and differential.
GenevisibleiO75150. HS.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
[Graphical view]
SMARTiSM00184. RING. 1 hit.
[Graphical view]
PROSITEiPS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiBRE1B_HUMAN
AccessioniPrimary (citable) accession number: O75150
Secondary accession number(s): Q6AHZ6
, Q6N005, Q7L3T6, Q8N615, Q96T18, Q9BSV9, Q9HC82
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: November 30, 2010
Last modified: November 30, 2016
This is version 144 of the entry and version 4 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 16
    Human chromosome 16: 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  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.