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Protein

Pre-mRNA-splicing factor RBM22

Gene

RBM22

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

Functioni

Involved in the first step of pre-mRNA splicing. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic phases of the spliceosome cycle. Involved in both translocations of the nuclear SLU7 to the cytoplasm and the cytosolic calcium-binding protein PDCD6 to the nucleus upon cellular stress responses.3 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri159 – 186C3H1-typePROSITE-ProRule annotationAdd BLAST28

GO - Molecular functioni

  • calcium-dependent protein binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • nucleocytoplasmic transporter activity Source: UniProtKB
  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • pre-mRNA binding Source: UniProtKB
  • U6 snRNA binding Source: UniProtKB

GO - Biological processi

  • cellular response to drug Source: UniProtKB
  • mRNA cis splicing, via spliceosome Source: UniProtKB
  • mRNA splicing, via spliceosome Source: UniProtKB
  • positive regulation of intracellular protein transport Source: UniProtKB
  • positive regulation of RNA splicing Source: UniProtKB
  • protein import into nucleus, translocation Source: UniProtKB
  • spliceosomal snRNP assembly Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing, Transport

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:ENSG00000086589-MONOMER.
ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-splicing factor RBM22
Alternative name(s):
RNA-binding motif protein 22
Zinc finger CCCH domain-containing protein 16
Gene namesi
Name:RBM22
Synonyms:ZC3H16
ORF Names:199G4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:25503. RBM22.

Subcellular locationi

  • Nucleus
  • Cytoplasm

  • Note: Mainly located in the nucleus. Translocated from the nucleus to the cytoplasm after heat shock cell treatment. May be shuttling between the nucleus and the cytosol.

GO - Cellular componenti

  • catalytic step 2 spliceosome Source: UniProtKB
  • cytoplasm Source: UniProtKB
  • nucleoplasm Source: HPA
  • nucleus Source: UniProtKB
  • Prp19 complex Source: GO_Central
  • U2-type catalytic step 1 spliceosome Source: GO_Central
  • U2-type catalytic step 2 spliceosome Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi170K → R: Accumulates in speckle-like structures. 1 Publication1
Mutagenesisi324K → R: Accumulates in speckle-like structures. 1 Publication1

Organism-specific databases

OpenTargetsiENSG00000086589.
PharmGKBiPA134982384.

Polymorphism and mutation databases

BioMutaiRBM22.
DMDMi74762758.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002505462 – 420Pre-mRNA-splicing factor RBM22Add BLAST419

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1
Modified residuei4PhosphoserineCombined sources1
Modified residuei102PhosphoserineCombined sources1
Cross-linki149Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei212N6-acetyllysineCombined sources1
Cross-linki290Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9NW64.
MaxQBiQ9NW64.
PaxDbiQ9NW64.
PeptideAtlasiQ9NW64.
PRIDEiQ9NW64.

PTM databases

iPTMnetiQ9NW64.
PhosphoSitePlusiQ9NW64.

Expressioni

Gene expression databases

BgeeiENSG00000086589.
CleanExiHS_RBM22.
ExpressionAtlasiQ9NW64. baseline and differential.
GenevisibleiQ9NW64. HS.

Organism-specific databases

HPAiHPA001634.

Interactioni

Subunit structurei

Identified in the spliceosome C complex. Interacts with PDCD6; the interaction induces translocation of PDCD6 in the cytoplasm.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CEP55D3DR373EBI-2602260,EBI-10173536

GO - Molecular functioni

  • calcium-dependent protein binding Source: UniProtKB

Protein-protein interaction databases

BioGridi120821. 41 interactors.
IntActiQ9NW64. 26 interactors.
MINTiMINT-2819539.
STRINGi9606.ENSP00000199814.

Structurei

Secondary structure

1420
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi234 – 237Combined sources4
Turni240 – 242Combined sources3
Helixi245 – 253Combined sources9
Beta strandi258 – 264Combined sources7
Helixi265 – 267Combined sources3
Beta strandi269 – 276Combined sources8
Helixi277 – 285Combined sources9
Turni286 – 290Combined sources5
Beta strandi300 – 302Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2YTCNMR-A227-304[»]
ProteinModelPortaliQ9NW64.
SMRiQ9NW64.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9NW64.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini232 – 305RRMPROSITE-ProRule annotationAdd BLAST74

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi327 – 407Pro-richAdd BLAST81

Domaini

The C-terminus RRM domain and the zinc finger motif are necessary for RNA-binding.By similarity

Sequence similaritiesi

Belongs to the SLT11 family.Curated
Contains 1 C3H1-type zinc finger.PROSITE-ProRule annotation
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri159 – 186C3H1-typePROSITE-ProRule annotationAdd BLAST28

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG0153. Eukaryota.
ENOG410XSFK. LUCA.
GeneTreeiENSGT00390000002792.
HOGENOMiHOG000171086.
HOVERGENiHBG083475.
InParanoidiQ9NW64.
KOiK12872.
OMAiSLICSHR.
OrthoDBiEOG091G0B2N.
PhylomeDBiQ9NW64.
TreeFamiTF314284.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR000571. Znf_CCCH.
[Graphical view]
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
SM00356. ZnF_C3H1. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
SSF90229. SSF90229. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
PS50103. ZF_C3H1. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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

Isoform 1 (identifier: Q9NW64-1) [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
MATSLGSNTY NRQNWEDADF PILCQTCLGE NPYIRMTKEK YGKECKICAR
60 70 80 90 100
PFTVFRWCPG VRMRFKKTEV CQTCSKLKNV CQTCLLDLEY GLPIQVRDAG
110 120 130 140 150
LSFKDDMPKS DVNKEYYTQN MEREISNSDG TRPVGMLGKA TSTSDMLLKL
160 170 180 190 200
ARTTPYYKRN RPHICSFWVK GECKRGEECP YRHEKPTDPD DPLADQNIKD
210 220 230 240 250
RYYGINDPVA DKLLKRASTM PRLDPPEDKT ITTLYVGGLG DTITETDLRN
260 270 280 290 300
HFYQFGEIRT ITVVQRQQCA FIQFATRQAA EVAAEKSFNK LIVNGRRLNV
310 320 330 340 350
KWGRSQAARG KEKEKDGTTD SGIKLEPVPG LPGALPPPPA AEEEASANYF
360 370 380 390 400
NLPPSGPPAV VNIALPPPPG IAPPPPPGFG PHMFHPMGPP PPFMRAPGPI
410 420
HYPSQDPQRM GAHAGKHSSP
Length:420
Mass (Da):46,896
Last modified:October 1, 2000 - v1
Checksum:iA82549D8CC88C7D0
GO
Isoform 2 (identifier: Q9NW64-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     43-91: Missing.

Note: No experimental confirmation available.
Show »
Length:371
Mass (Da):41,152
Checksum:iCD43CE9BAD03CE15
GO

Sequence cautioni

The sequence AAC99998 differs from that shown. Chimera.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_03683243 – 91Missing in isoform 2. 1 PublicationAdd BLAST49

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL136933 mRNA. Translation: CAB66867.1.
AK001152 mRNA. Translation: BAA91521.1.
AK297019 mRNA. Translation: BAG59551.1.
AC008453 Genomic DNA. No translation available.
CH471062 Genomic DNA. Translation: EAW61711.1.
BC003402 mRNA. Translation: AAH03402.1.
U39402 mRNA. Translation: AAC99998.1. Sequence problems.
CCDSiCCDS34278.1. [Q9NW64-1]
RefSeqiNP_060517.1. NM_018047.2. [Q9NW64-1]
UniGeneiHs.713564.

Genome annotation databases

EnsembliENST00000199814; ENSP00000199814; ENSG00000086589. [Q9NW64-1]
ENST00000447771; ENSP00000412118; ENSG00000086589. [Q9NW64-2]
GeneIDi55696.
KEGGihsa:55696.
UCSCiuc003lst.4. human. [Q9NW64-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL136933 mRNA. Translation: CAB66867.1.
AK001152 mRNA. Translation: BAA91521.1.
AK297019 mRNA. Translation: BAG59551.1.
AC008453 Genomic DNA. No translation available.
CH471062 Genomic DNA. Translation: EAW61711.1.
BC003402 mRNA. Translation: AAH03402.1.
U39402 mRNA. Translation: AAC99998.1. Sequence problems.
CCDSiCCDS34278.1. [Q9NW64-1]
RefSeqiNP_060517.1. NM_018047.2. [Q9NW64-1]
UniGeneiHs.713564.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2YTCNMR-A227-304[»]
ProteinModelPortaliQ9NW64.
SMRiQ9NW64.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120821. 41 interactors.
IntActiQ9NW64. 26 interactors.
MINTiMINT-2819539.
STRINGi9606.ENSP00000199814.

PTM databases

iPTMnetiQ9NW64.
PhosphoSitePlusiQ9NW64.

Polymorphism and mutation databases

BioMutaiRBM22.
DMDMi74762758.

Proteomic databases

EPDiQ9NW64.
MaxQBiQ9NW64.
PaxDbiQ9NW64.
PeptideAtlasiQ9NW64.
PRIDEiQ9NW64.

Protocols and materials databases

DNASUi55696.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000199814; ENSP00000199814; ENSG00000086589. [Q9NW64-1]
ENST00000447771; ENSP00000412118; ENSG00000086589. [Q9NW64-2]
GeneIDi55696.
KEGGihsa:55696.
UCSCiuc003lst.4. human. [Q9NW64-1]

Organism-specific databases

CTDi55696.
GeneCardsiRBM22.
HGNCiHGNC:25503. RBM22.
HPAiHPA001634.
MIMi612430. gene.
neXtProtiNX_Q9NW64.
OpenTargetsiENSG00000086589.
PharmGKBiPA134982384.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0153. Eukaryota.
ENOG410XSFK. LUCA.
GeneTreeiENSGT00390000002792.
HOGENOMiHOG000171086.
HOVERGENiHBG083475.
InParanoidiQ9NW64.
KOiK12872.
OMAiSLICSHR.
OrthoDBiEOG091G0B2N.
PhylomeDBiQ9NW64.
TreeFamiTF314284.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000086589-MONOMER.
ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

EvolutionaryTraceiQ9NW64.
GeneWikiiRBM22.
GenomeRNAii55696.
PROiQ9NW64.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000086589.
CleanExiHS_RBM22.
ExpressionAtlasiQ9NW64. baseline and differential.
GenevisibleiQ9NW64. HS.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR000571. Znf_CCCH.
[Graphical view]
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
SM00356. ZnF_C3H1. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
SSF90229. SSF90229. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
PS50103. ZF_C3H1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRBM22_HUMAN
AccessioniPrimary (citable) accession number: Q9NW64
Secondary accession number(s): A6NDM5, B4DLI9, O95607
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: October 1, 2000
Last modified: November 30, 2016
This is version 146 of the entry and version 1 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 5
    Human chromosome 5: 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.