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Protein

RNA-binding protein 47

Gene

RBM47

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 47
Alternative name(s):
RNA-binding motif protein 47
Gene namesi
Name:RBM47
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 4

Organism-specific databases

HGNCiHGNC:30358. RBM47.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi54502.
OpenTargetsiENSG00000163694.
PharmGKBiPA162400825.

Polymorphism and mutation databases

BioMutaiRBM47.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003078551 – 593RNA-binding protein 47Add BLAST593

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei332Omega-N-methylarginineCombined sources1
Modified residuei394Asymmetric dimethylarginine; alternateCombined sources1
Modified residuei394Omega-N-methylarginine; alternateCombined sources1
Modified residuei405Asymmetric dimethylarginine; alternateCombined sources1
Modified residuei405Omega-N-methylarginine; alternateCombined sources1

Keywords - PTMi

Methylation

Proteomic databases

MaxQBiA0AV96.
PaxDbiA0AV96.
PRIDEiA0AV96.

PTM databases

iPTMnetiA0AV96.
PhosphoSitePlusiA0AV96.

Expressioni

Gene expression databases

BgeeiENSG00000163694.
CleanExiHS_RBM47.
ExpressionAtlasiA0AV96. baseline and differential.
GenevisibleiA0AV96. HS.

Organism-specific databases

HPAiHPA006347.

Interactioni

Protein-protein interaction databases

BioGridi119998. 5 interactors.
IntActiA0AV96. 8 interactors.
MINTiMINT-4654833.
STRINGi9606.ENSP00000295971.

Structurei

Secondary structure

1593
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi150 – 156Combined sources7
Helixi164 – 174Combined sources11
Beta strandi178 – 182Combined sources5
Beta strandi185 – 187Combined sources3
Turni189 – 193Combined sources5
Beta strandi196 – 203Combined sources8
Helixi204 – 211Combined sources8
Turni212 – 216Combined sources5
Beta strandi227 – 231Combined sources5
Turni237 – 239Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2DISNMR-A150-245[»]
ProteinModelPortaliA0AV96.
SMRiA0AV96.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiA0AV96.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini71 – 149RRM 1PROSITE-ProRule annotationAdd BLAST79
Domaini151 – 233RRM 2PROSITE-ProRule annotationAdd BLAST83
Domaini246 – 318RRM 3PROSITE-ProRule annotationAdd BLAST73

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi487 – 581Ala-richAdd BLAST95

Sequence similaritiesi

Belongs to the RRM RBM47 family.Curated
Contains 3 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0117. Eukaryota.
ENOG410XTJ5. LUCA.
GeneTreeiENSGT00550000074366.
HOGENOMiHOG000186083.
HOVERGENiHBG051917.
InParanoidiA0AV96.
OMAiIGPNREY.
OrthoDBiEOG091G0EUB.
PhylomeDBiA0AV96.
TreeFamiTF314932.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR006535. HnRNP_R/Q_splicing_fac.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 3 hits.
[Graphical view]
SMARTiSM00360. RRM. 3 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 3 hits.
TIGRFAMsiTIGR01648. hnRNP-R-Q. 1 hit.
PROSITEiPS50102. RRM. 3 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: A0AV96-1) [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
MTAEDSTAAM SSDSAAGSSA KVPEGVAGAP NEAALLALME RTGYSMVQEN
60 70 80 90 100
GQRKYGGPPP GWEGPHPQRG CEVFVGKIPR DVYEDELVPV FEAVGRIYEL
110 120 130 140 150
RLMMDFDGKN RGYAFVMYCH KHEAKRAVRE LNNYEIRPGR LLGVCCSVDN
160 170 180 190 200
CRLFIGGIPK MKKREEILEE IAKVTEGVLD VIVYASAADK MKNRGFAFVE
210 220 230 240 250
YESHRAAAMA RRKLMPGRIQ LWGHQIAVDW AEPEIDVDED VMETVKILYV
260 270 280 290 300
RNLMIETTED TIKKSFGQFN PGCVERVKKI RDYAFVHFTS REDAVHAMNN
310 320 330 340 350
LNGTELEGSC LEVTLAKPVD KEQYSRYQKA ARGGGAAEAA QQPSYVYSCD
360 370 380 390 400
PYTLAYYGYP YNALIGPNRD YFVKAGSIRG RGRGAAGNRA PGPRGSYLGG
410 420 430 440 450
YSAGRGIYSR YHEGKGKQQE KGYELVPNLE IPTVNPVAIK PGTVAIPAIG
460 470 480 490 500
AQYSMFPAAP APKMIEDGKI HTVEHMISPI AVQPDPASAA AAAAAAAAAA
510 520 530 540 550
AAVIPTVSTP PPFQGRPITP VYTVAPNVQR IPTAGIYGAS YVPFAAPATA
560 570 580 590
TIATLQKNAA AAAAMYGGYA GYIPQAFPAA AIQVPIPDVY QTY
Length:593
Mass (Da):64,099
Last modified:November 30, 2010 - v2
Checksum:iAEA061F89A68010B
GO
Isoform 2 (identifier: A0AV96-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     375-443: Missing.

Show »
Length:524
Mass (Da):56,920
Checksum:i4C7004D92117D5B1
GO

Sequence cautioni

The sequence AAM21973 differs from that shown. Reason: Frameshift at positions 561 and 577.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti9A → T in AAM21973 (Ref. 1) Curated1
Sequence conflicti97I → T in BAA91049 (PubMed:14702039).Curated1
Sequence conflicti515G → V in AAM21972 (Ref. 1) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_061832538G → R.Corresponds to variant rs35529250dbSNPEnsembl.1
Natural variantiVAR_054770565M → V.2 PublicationsCorresponds to variant rs278981dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_028839375 – 443Missing in isoform 2. 1 PublicationAdd BLAST69

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF261889 Genomic DNA. Translation: AAM21972.1.
AF262323 mRNA. Translation: AAM21973.1. Frameshift.
AK000280 mRNA. Translation: BAA91049.1.
AC098869 Genomic DNA. No translation available.
AC112717 Genomic DNA. No translation available.
BC034402 mRNA. Translation: AAH34402.1.
BC126261 mRNA. Translation: AAI26262.1.
CCDSiCCDS3460.1. [A0AV96-2]
CCDS43223.1. [A0AV96-1]
RefSeqiNP_001092104.1. NM_001098634.1. [A0AV96-1]
NP_061900.2. NM_019027.3. [A0AV96-2]
XP_005248160.1. XM_005248103.3. [A0AV96-1]
XP_005248164.1. XM_005248107.3. [A0AV96-1]
XP_005248165.1. XM_005248108.3. [A0AV96-1]
XP_005248166.1. XM_005248109.4. [A0AV96-1]
XP_011512006.1. XM_011513704.2. [A0AV96-1]
XP_011512009.1. XM_011513707.2. [A0AV96-1]
XP_011512010.1. XM_011513708.2. [A0AV96-1]
XP_016863793.1. XM_017008304.1. [A0AV96-1]
XP_016863794.1. XM_017008305.1. [A0AV96-1]
XP_016863795.1. XM_017008306.1. [A0AV96-1]
XP_016863796.1. XM_017008307.1. [A0AV96-1]
XP_016863797.1. XM_017008308.1. [A0AV96-1]
XP_016863799.1. XM_017008310.1. [A0AV96-2]
UniGeneiHs.518727.

Genome annotation databases

EnsembliENST00000295971; ENSP00000295971; ENSG00000163694. [A0AV96-1]
ENST00000381793; ENSP00000371212; ENSG00000163694. [A0AV96-1]
ENST00000381795; ENSP00000371214; ENSG00000163694. [A0AV96-2]
GeneIDi54502.
KEGGihsa:54502.
UCSCiuc003gvc.3. human. [A0AV96-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF261889 Genomic DNA. Translation: AAM21972.1.
AF262323 mRNA. Translation: AAM21973.1. Frameshift.
AK000280 mRNA. Translation: BAA91049.1.
AC098869 Genomic DNA. No translation available.
AC112717 Genomic DNA. No translation available.
BC034402 mRNA. Translation: AAH34402.1.
BC126261 mRNA. Translation: AAI26262.1.
CCDSiCCDS3460.1. [A0AV96-2]
CCDS43223.1. [A0AV96-1]
RefSeqiNP_001092104.1. NM_001098634.1. [A0AV96-1]
NP_061900.2. NM_019027.3. [A0AV96-2]
XP_005248160.1. XM_005248103.3. [A0AV96-1]
XP_005248164.1. XM_005248107.3. [A0AV96-1]
XP_005248165.1. XM_005248108.3. [A0AV96-1]
XP_005248166.1. XM_005248109.4. [A0AV96-1]
XP_011512006.1. XM_011513704.2. [A0AV96-1]
XP_011512009.1. XM_011513707.2. [A0AV96-1]
XP_011512010.1. XM_011513708.2. [A0AV96-1]
XP_016863793.1. XM_017008304.1. [A0AV96-1]
XP_016863794.1. XM_017008305.1. [A0AV96-1]
XP_016863795.1. XM_017008306.1. [A0AV96-1]
XP_016863796.1. XM_017008307.1. [A0AV96-1]
XP_016863797.1. XM_017008308.1. [A0AV96-1]
XP_016863799.1. XM_017008310.1. [A0AV96-2]
UniGeneiHs.518727.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2DISNMR-A150-245[»]
ProteinModelPortaliA0AV96.
SMRiA0AV96.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119998. 5 interactors.
IntActiA0AV96. 8 interactors.
MINTiMINT-4654833.
STRINGi9606.ENSP00000295971.

PTM databases

iPTMnetiA0AV96.
PhosphoSitePlusiA0AV96.

Polymorphism and mutation databases

BioMutaiRBM47.

Proteomic databases

MaxQBiA0AV96.
PaxDbiA0AV96.
PRIDEiA0AV96.

Protocols and materials databases

DNASUi54502.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000295971; ENSP00000295971; ENSG00000163694. [A0AV96-1]
ENST00000381793; ENSP00000371212; ENSG00000163694. [A0AV96-1]
ENST00000381795; ENSP00000371214; ENSG00000163694. [A0AV96-2]
GeneIDi54502.
KEGGihsa:54502.
UCSCiuc003gvc.3. human. [A0AV96-1]

Organism-specific databases

CTDi54502.
DisGeNETi54502.
GeneCardsiRBM47.
HGNCiHGNC:30358. RBM47.
HPAiHPA006347.
neXtProtiNX_A0AV96.
OpenTargetsiENSG00000163694.
PharmGKBiPA162400825.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0117. Eukaryota.
ENOG410XTJ5. LUCA.
GeneTreeiENSGT00550000074366.
HOGENOMiHOG000186083.
HOVERGENiHBG051917.
InParanoidiA0AV96.
OMAiIGPNREY.
OrthoDBiEOG091G0EUB.
PhylomeDBiA0AV96.
TreeFamiTF314932.

Miscellaneous databases

ChiTaRSiRBM47. human.
EvolutionaryTraceiA0AV96.
GenomeRNAii54502.
PROiA0AV96.

Gene expression databases

BgeeiENSG00000163694.
CleanExiHS_RBM47.
ExpressionAtlasiA0AV96. baseline and differential.
GenevisibleiA0AV96. HS.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR006535. HnRNP_R/Q_splicing_fac.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 3 hits.
[Graphical view]
SMARTiSM00360. RRM. 3 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 3 hits.
TIGRFAMsiTIGR01648. hnRNP-R-Q. 1 hit.
PROSITEiPS50102. RRM. 3 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRBM47_HUMAN
AccessioniPrimary (citable) accession number: A0AV96
Secondary accession number(s): A0PJK2
, B5MED4, Q8NI52, Q8NI53, Q9NXG3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 23, 2007
Last sequence update: November 30, 2010
Last modified: November 30, 2016
This is version 89 of the entry and version 2 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 4
    Human chromosome 4: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  5. 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.