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Protein

Probable RNA-binding protein 23

Gene

RBM23

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

Functioni

Probable RNA-binding protein. May be involved in pre-mRNA splicing process.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Probable RNA-binding protein 23
Alternative name(s):
RNA-binding motif protein 23
RNA-binding region-containing protein 4
Splicing factor SF2
Gene namesi
Name:RBM23
Synonyms:RNPC4
ORF Names:PP239
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 14

Organism-specific databases

HGNCiHGNC:20155. RBM23.

Subcellular locationi

GO - Cellular componenti

  • membrane Source: UniProtKB
  • nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000100461.
PharmGKBiPA134974852.

Polymorphism and mutation databases

BioMutaiRBM23.
DMDMi34925229.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000817831 – 439Probable RNA-binding protein 23Add BLAST439

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei128PhosphoserineCombined sources1
Modified residuei149PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ86U06.
MaxQBiQ86U06.
PaxDbiQ86U06.
PeptideAtlasiQ86U06.
PRIDEiQ86U06.

PTM databases

iPTMnetiQ86U06.
PhosphoSitePlusiQ86U06.
SwissPalmiQ86U06.

Expressioni

Gene expression databases

BgeeiENSG00000100461.
CleanExiHS_RBM23.
ExpressionAtlasiQ86U06. baseline and differential.
GenevisibleiQ86U06. HS.

Organism-specific databases

HPAiHPA004144.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
BHLHE40O145033EBI-780319,EBI-711810
FAM9BQ8IZU03EBI-780319,EBI-10175124
MAGEA11P43364-23EBI-10258579,EBI-10178634
MAGED1Q9Y5V33EBI-780319,EBI-716006
PRMT5O147443EBI-780319,EBI-351098
SRPK2P783622EBI-780319,EBI-593303
TRIM27P143733EBI-780319,EBI-719493

Protein-protein interaction databases

BioGridi120450. 47 interactors.
IntActiQ86U06. 17 interactors.
MINTiMINT-1382566.
STRINGi9606.ENSP00000352956.

Structurei

Secondary structure

1439
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi162 – 165Combined sources4
Beta strandi167 – 172Combined sources6
Helixi179 – 186Combined sources8
Turni187 – 189Combined sources3
Beta strandi192 – 197Combined sources6
Beta strandi203 – 205Combined sources3
Beta strandi210 – 215Combined sources6
Helixi217 – 219Combined sources3
Helixi220 – 226Combined sources7
Beta strandi229 – 231Combined sources3
Beta strandi234 – 240Combined sources7
Helixi241 – 248Combined sources8
Beta strandi265 – 269Combined sources5
Helixi276 – 283Combined sources8
Turni284 – 286Combined sources3
Beta strandi289 – 295Combined sources7
Beta strandi298 – 300Combined sources3
Beta strandi305 – 312Combined sources8
Helixi314 – 324Combined sources11
Beta strandi329 – 332Combined sources4
Beta strandi335 – 340Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CQ4NMR-A148-248[»]
2DNZNMR-A265-346[»]
ProteinModelPortaliQ86U06.
SMRiQ86U06.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ86U06.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini166 – 243RRM 1PROSITE-ProRule annotationAdd BLAST78
Domaini263 – 341RRM 2PROSITE-ProRule annotationAdd BLAST79

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi63 – 127Arg-richAdd BLAST65
Compositional biasi371 – 424Ala-richAdd BLAST54

Sequence similaritiesi

Belongs to the splicing factor SR family.Curated
Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0147. Eukaryota.
ENOG410XP20. LUCA.
GeneTreeiENSGT00860000133811.
HOVERGENiHBG057646.
InParanoidiQ86U06.
OMAiMRVGHVT.
OrthoDBiEOG091G0BQ9.
PhylomeDBiQ86U06.
TreeFamiTF320448.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR029123. RBM39_linker.
IPR006509. RBM39_SF.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF15519. RBM39linker. 1 hit.
PF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
TIGRFAMsiTIGR01622. SF-CC1. 1 hit.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q86U06-1) [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
MASDDFDIVI EAMLEAPYKK EEDEQQRKEV KKDYPSNTTS STSNSGNETS
60 70 80 90 100
GSSTIGETSK KKRSRSHNKS RDRKRSRSRD RDRYRRRNSR SRSPGRQCRH
110 120 130 140 150
RSRSWDRRHG SESRSRDHRR EDRVHYRSPP LATGYRYGHS KSPHFREKSP
160 170 180 190 200
VREPVDNLSP EERDARTVFC MQLAARIRPR DLEDFFSAVG KVRDVRIISD
210 220 230 240 250
RNSRRSKGIA YVEFCEIQSV PLAIGLTGQR LLGVPIIVQA SQAEKNRLAA
260 270 280 290 300
MANNLQKGNG GPMRLYVGSL HFNITEDMLR GIFEPFGKID NIVLMKDSDT
310 320 330 340 350
GRSKGYGFIT FSDSECARRA LEQLNGFELA GRPMRVGHVT ERLDGGTDIT
360 370 380 390 400
FPDGDQELDL GSAGGRFQLM AKLAEGAGIQ LPSTAAAAAA AAAQAAALQL
410 420 430
NGAVPLGALN PAALTALSPA LNLASQCFQL SSLFTPQTM
Length:439
Mass (Da):48,731
Last modified:June 1, 2003 - v1
Checksum:iCFF3E56F7EA12D0B
GO
Isoform 2 (identifier: Q86U06-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     60-76: KKKRSRSHNKSRDRKRS → N

Show »
Length:423
Mass (Da):46,708
Checksum:i0DD858657398EC9C
GO
Isoform 3 (identifier: Q86U06-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     311-319: FSDSECARR → LHPPPLGTV
     320-439: Missing.

Show »
Length:319
Mass (Da):36,535
Checksum:i3983D6B0494B7EC8
GO
Isoform 4 (identifier: Q86U06-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     60-76: KKKRSRSHNKSRDRKRS → N
     135-152: Missing.

Show »
Length:405
Mass (Da):44,495
Checksum:i1344E0827F28B86D
GO
Isoform 5 (identifier: Q86U06-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-100: MASDDFDIVI...SRSPGRQCRH → MSNKGKKLKR...AEVQVGSVVT

Show »
Length:417
Mass (Da):44,930
Checksum:i88EB17EF60E117CB
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti132A → T in AAG24388 (PubMed:14702039).Curated1
Sequence conflicti321 – 330LEQLNGFELA → CGTVEWGLSLL in AAP97203 (Ref. 1) Curated10

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_052221184D → N.Corresponds to variant rs34246954dbSNPEnsembl.1
Natural variantiVAR_016841393A → AA.4 Publications1
Natural variantiVAR_052222428F → L.Corresponds to variant rs1127066dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0083111 – 100MASDD…RQCRH → MSNKGKKLKRIILAIPPAAP ATVAMRPVEAAPSGRQARRR GVGAIIKAGIESAVVVEIGI GIDGEIVGAEVQVGSVVT in isoform 5. 1 PublicationAdd BLAST100
Alternative sequenceiVSP_00831260 – 76KKKRS…DRKRS → N in isoform 2 and isoform 4. 3 PublicationsAdd BLAST17
Alternative sequenceiVSP_008313135 – 152Missing in isoform 4. 1 PublicationAdd BLAST18
Alternative sequenceiVSP_008314311 – 319FSDSECARR → LHPPPLGTV in isoform 3. 1 Publication9
Alternative sequenceiVSP_008315320 – 439Missing in isoform 3. 1 PublicationAdd BLAST120

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF087905 mRNA. Translation: AAP97203.1.
AF275678 mRNA. Translation: AAG24388.1.
AK001344 mRNA. Translation: BAA91638.1.
AL834198 mRNA. Translation: CAD38887.1.
BX161440 mRNA. Translation: CAD61910.1.
AL132780 Genomic DNA. No translation available.
AL135998 Genomic DNA. No translation available.
CH471078 Genomic DNA. Translation: EAW66223.1.
CH471078 Genomic DNA. Translation: EAW66229.1.
BC002566 mRNA. Translation: AAH02566.1.
BC024208 mRNA. Translation: AAH24208.1.
CCDSiCCDS41919.1. [Q86U06-4]
CCDS41920.1. [Q86U06-2]
CCDS41921.1. [Q86U06-1]
RefSeqiNP_001070819.1. NM_001077351.1. [Q86U06-1]
NP_001070820.1. NM_001077352.1. [Q86U06-4]
NP_001294973.1. NM_001308044.1.
NP_060577.3. NM_018107.4. [Q86U06-2]
XP_016876896.1. XM_017021407.1. [Q86U06-1]
XP_016876902.1. XM_017021413.1. [Q86U06-3]
UniGeneiHs.4997.

Genome annotation databases

EnsembliENST00000346528; ENSP00000339220; ENSG00000100461. [Q86U06-4]
ENST00000359890; ENSP00000352956; ENSG00000100461. [Q86U06-1]
ENST00000399922; ENSP00000382806; ENSG00000100461. [Q86U06-2]
GeneIDi55147.
KEGGihsa:55147.
UCSCiuc001whg.4. human. [Q86U06-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF087905 mRNA. Translation: AAP97203.1.
AF275678 mRNA. Translation: AAG24388.1.
AK001344 mRNA. Translation: BAA91638.1.
AL834198 mRNA. Translation: CAD38887.1.
BX161440 mRNA. Translation: CAD61910.1.
AL132780 Genomic DNA. No translation available.
AL135998 Genomic DNA. No translation available.
CH471078 Genomic DNA. Translation: EAW66223.1.
CH471078 Genomic DNA. Translation: EAW66229.1.
BC002566 mRNA. Translation: AAH02566.1.
BC024208 mRNA. Translation: AAH24208.1.
CCDSiCCDS41919.1. [Q86U06-4]
CCDS41920.1. [Q86U06-2]
CCDS41921.1. [Q86U06-1]
RefSeqiNP_001070819.1. NM_001077351.1. [Q86U06-1]
NP_001070820.1. NM_001077352.1. [Q86U06-4]
NP_001294973.1. NM_001308044.1.
NP_060577.3. NM_018107.4. [Q86U06-2]
XP_016876896.1. XM_017021407.1. [Q86U06-1]
XP_016876902.1. XM_017021413.1. [Q86U06-3]
UniGeneiHs.4997.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CQ4NMR-A148-248[»]
2DNZNMR-A265-346[»]
ProteinModelPortaliQ86U06.
SMRiQ86U06.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120450. 47 interactors.
IntActiQ86U06. 17 interactors.
MINTiMINT-1382566.
STRINGi9606.ENSP00000352956.

PTM databases

iPTMnetiQ86U06.
PhosphoSitePlusiQ86U06.
SwissPalmiQ86U06.

Polymorphism and mutation databases

BioMutaiRBM23.
DMDMi34925229.

Proteomic databases

EPDiQ86U06.
MaxQBiQ86U06.
PaxDbiQ86U06.
PeptideAtlasiQ86U06.
PRIDEiQ86U06.

Protocols and materials databases

DNASUi55147.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000346528; ENSP00000339220; ENSG00000100461. [Q86U06-4]
ENST00000359890; ENSP00000352956; ENSG00000100461. [Q86U06-1]
ENST00000399922; ENSP00000382806; ENSG00000100461. [Q86U06-2]
GeneIDi55147.
KEGGihsa:55147.
UCSCiuc001whg.4. human. [Q86U06-1]

Organism-specific databases

CTDi55147.
GeneCardsiRBM23.
HGNCiHGNC:20155. RBM23.
HPAiHPA004144.
neXtProtiNX_Q86U06.
OpenTargetsiENSG00000100461.
PharmGKBiPA134974852.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0147. Eukaryota.
ENOG410XP20. LUCA.
GeneTreeiENSGT00860000133811.
HOVERGENiHBG057646.
InParanoidiQ86U06.
OMAiMRVGHVT.
OrthoDBiEOG091G0BQ9.
PhylomeDBiQ86U06.
TreeFamiTF320448.

Miscellaneous databases

ChiTaRSiRBM23. human.
EvolutionaryTraceiQ86U06.
GeneWikiiRBM23.
GenomeRNAii55147.
PROiQ86U06.

Gene expression databases

BgeeiENSG00000100461.
CleanExiHS_RBM23.
ExpressionAtlasiQ86U06. baseline and differential.
GenevisibleiQ86U06. HS.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR029123. RBM39_linker.
IPR006509. RBM39_SF.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF15519. RBM39linker. 1 hit.
PF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
TIGRFAMsiTIGR01622. SF-CC1. 1 hit.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRBM23_HUMAN
AccessioniPrimary (citable) accession number: Q86U06
Secondary accession number(s): D3DS32
, Q8ND16, Q8TB88, Q8WY40, Q9BUJ1, Q9NVV7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2003
Last sequence update: June 1, 2003
Last modified: November 30, 2016
This is version 139 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 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. 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.