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Protein

RNA-binding protein 10

Gene

RBM10

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

Functioni

May be involved in post-transcriptional processing, most probably in mRNA splicing. Binds to RNA homopolymers, with a preference for poly(G) and poly(U) and little for poly(A) (By similarity).By similarity1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri212 – 242RanBP2-typePROSITE-ProRule annotationAdd BLAST31
Zinc fingeri759 – 784C2H2-type; atypicalPROSITE-ProRule annotationAdd BLAST26

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • protein complex binding Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:G66-32255-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 10
Alternative name(s):
G patch domain-containing protein 9
RNA-binding motif protein 10
RNA-binding protein S1-1
Short name:
S1-1
Gene namesi
Name:RBM10
Synonyms:DXS8237E, GPATC9, GPATCH9, KIAA0122
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome X

Organism-specific databases

HGNCiHGNC:9896. RBM10.

Subcellular locationi

  • Nucleus 1 Publication

  • Note: In the extranucleolar nucleoplasm constitutes hundreds of nuclear domains, which dynamically change their structures in a reversible manner. Upon globally reducing RNA polymerase II transcription, the nuclear bodies enlarge and decrease in number. They occur closely adjacent to nuclear speckles or IGCs (interchromatin granule clusters) but coincide with TIDRs (transcription-inactivation-dependent RNA domains).

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Involvement in diseasei

TARP syndrome (TARPS)1 Publication
The disease is caused by mutations affecting the gene represented in this entry.
Disease descriptionA disorder characterized by the Robin sequence (micrognathia, glossoptosis and cleft palate), talipes equinovarus and cardiac defects.
See also OMIM:311900

Organism-specific databases

DisGeNETi8241.
MalaCardsiRBM10.
MIMi311900. phenotype.
OpenTargetsiENSG00000182872.
Orphaneti2886. TARP syndrome.
PharmGKBiPA34259.

Polymorphism and mutation databases

BioMutaiRBM10.
DMDMi218512116.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000817671 – 930RNA-binding protein 10Add BLAST930

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei61PhosphoserineCombined sources1
Modified residuei89PhosphoserineCombined sources1
Modified residuei383N6-acetyllysineCombined sources1
Modified residuei718PhosphoserineCombined sources1
Modified residuei723PhosphoserineCombined sources1
Modified residuei733PhosphoserineCombined sources1
Modified residuei736PhosphoserineCombined sources1
Modified residuei738PhosphoserineCombined sources1
Modified residuei781PhosphoserineCombined sources1
Modified residuei797PhosphoserineCombined sources1
Modified residuei845PhosphoserineCombined sources1
Modified residuei902Omega-N-methylarginineCombined sources1

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

EPDiP98175.
MaxQBiP98175.
PaxDbiP98175.
PeptideAtlasiP98175.
PRIDEiP98175.

PTM databases

iPTMnetiP98175.
PhosphoSitePlusiP98175.

Expressioni

Gene expression databases

BgeeiENSG00000182872.
CleanExiHS_RBM10.
ExpressionAtlasiP98175. baseline and differential.
GenevisibleiP98175. HS.

Organism-specific databases

HPAiHPA034972.
HPA057372.

Interactioni

Subunit structurei

Associates with the spliceosome. Component of a large chromatin remodeling complex, at least composed of MYSM1, PCAF, RBM10 and KIF11/TRIP5.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
itself2EBI-721525,EBI-721525
AESQ081173EBI-721525,EBI-717810
DHX15O431432EBI-721525,EBI-1237044
DHX38Q926202EBI-721525,EBI-1043041
GPKOWQ929172EBI-721525,EBI-746309
IKQ131232EBI-721525,EBI-713456
PRPF19Q9UMS42EBI-721525,EBI-395746
SF3A1Q154592EBI-721525,EBI-1054743
SF3B4Q154274EBI-721525,EBI-348469
SNRPCP092342EBI-721525,EBI-766589
SUGP1Q8IWZ82EBI-721525,EBI-2691671
TBC1D22BQ9NU193EBI-721525,EBI-8787464
U2AF2P263682EBI-721525,EBI-742339
U2SURPO150422EBI-721525,EBI-310697

GO - Molecular functioni

  • protein complex binding Source: UniProtKB

Protein-protein interaction databases

BioGridi113869. 84 interactors.
IntActiP98175. 73 interactors.
MINTiMINT-2864879.
STRINGi9606.ENSP00000366829.

Structurei

Secondary structure

1930
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi130 – 134Combined sources5
Helixi142 – 152Combined sources11
Beta strandi161 – 163Combined sources3
Beta strandi165 – 167Combined sources3
Beta strandi171 – 177Combined sources7
Helixi181 – 189Combined sources9
Turni190 – 193Combined sources4
Beta strandi194 – 197Combined sources4
Beta strandi200 – 205Combined sources6
Beta strandi220 – 222Combined sources3
Beta strandi234 – 236Combined sources3
Beta strandi301 – 304Combined sources4
Helixi314 – 320Combined sources7
Helixi321 – 323Combined sources3
Turni328 – 330Combined sources3
Beta strandi337 – 342Combined sources6
Beta strandi346 – 349Combined sources4
Helixi354 – 363Combined sources10
Helixi372 – 374Combined sources3
Helixi569 – 571Combined sources3
Beta strandi572 – 574Combined sources3
Turni576 – 578Combined sources3
Turni584 – 586Combined sources3
Beta strandi597 – 599Combined sources3
Turni600 – 603Combined sources4
Beta strandi604 – 608Combined sources5
Turni610 – 612Combined sources3
Beta strandi614 – 617Combined sources4
Beta strandi622 – 624Combined sources3
Beta strandi627 – 630Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LXINMR-A128-218[»]
2M2BNMR-A277-408[»]
2MXVNMR-A211-250[»]
2MXWNMR-A558-646[»]
ProteinModelPortaliP98175.
SMRiP98175.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini129 – 209RRM 1PROSITE-ProRule annotationAdd BLAST81
Domaini300 – 384RRM 2PROSITE-ProRule annotationAdd BLAST85
Domaini858 – 904G-patchPROSITE-ProRule annotationAdd BLAST47

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi80 – 87Poly-Arg8
Compositional biasi113 – 125Poly-GluAdd BLAST13
Compositional biasi561 – 607Tyr-richAdd BLAST47

Sequence similaritiesi

Contains 1 C2H2-type zinc finger.PROSITE-ProRule annotation
Contains 1 G-patch domain.PROSITE-ProRule annotation
Contains 1 RanBP2-type zinc finger.PROSITE-ProRule annotation
Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri212 – 242RanBP2-typePROSITE-ProRule annotationAdd BLAST31
Zinc fingeri759 – 784C2H2-type; atypicalPROSITE-ProRule annotationAdd BLAST26

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG0154. Eukaryota.
ENOG410YNFQ. LUCA.
GeneTreeiENSGT00510000046476.
HOVERGENiHBG000318.
InParanoidiP98175.
KOiK13094.
PhylomeDBiP98175.
TreeFamiTF315789.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
4.10.1060.10. 1 hit.
InterProiIPR000467. G_patch_dom.
IPR012677. Nucleotide-bd_a/b_plait.
IPR033095. RBM10.
IPR000504. RRM_dom.
IPR007087. Znf_C2H2.
IPR001876. Znf_RanBP2.
[Graphical view]
PANTHERiPTHR13948:SF4. PTHR13948:SF4. 2 hits.
PfamiPF01585. G-patch. 1 hit.
PF00076. RRM_1. 1 hit.
PF00641. zf-RanBP. 1 hit.
[Graphical view]
SMARTiSM00443. G_patch. 1 hit.
SM00360. RRM. 2 hits.
SM00547. ZnF_RBZ. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 3 hits.
SSF90209. SSF90209. 1 hit.
PROSITEiPS50174. G_PATCH. 1 hit.
PS50102. RRM. 2 hits.
PS01358. ZF_RANBP2_1. 1 hit.
PS50199. ZF_RANBP2_2. 1 hit.
PS50157. ZINC_FINGER_C2H2_2. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P98175-1) [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
MEYERRGGRG DRTGRYGATD RSQDDGGENR SRDHDYRDMD YRSYPREYGS
60 70 80 90 100
QEGKHDYDDS SEEQSAEDSY EASPGSETQR RRRRRHRHSP TGPPGFPRDG
110 120 130 140 150
DYRDQDYRTE QGEEEEEEED EEEEEKASNI VMLRMLPQAA TEDDIRGQLQ
160 170 180 190 200
SHGVQAREVR LMRNKSSGQS RGFAFVEFSH LQDATRWMEA NQHSLNILGQ
210 220 230 240 250
KVSMHYSDPK PKINEDWLCN KCGVQNFKRR EKCFKCGVPK SEAEQKLPLG
260 270 280 290 300
TRLDQQTLPL GGRELSQGLL PLPQPYQAQG VLASQALSQG SEPSSENAND
310 320 330 340 350
TIILRNLNPH STMDSILGAL APYAVLSSSN VRVIKDKQTQ LNRGFAFIQL
360 370 380 390 400
STIVEAAQLL QILQALHPPL TIDGKTINVE FAKGSKRDMA SNEGSRISAA
410 420 430 440 450
SVASTAIAAA QWAISQASQG GEGTWATSEE PPVDYSYYQQ DEGYGNSQGT
460 470 480 490 500
ESSLYAHGYL KGTKGPGITG TKGDPTGAGP EASLEPGADS VSMQAFSRAQ
510 520 530 540 550
PGAAPGIYQQ SAEASSSQGT AANSQSYTIM SPAVLKSELQ SPTHPSSALP
560 570 580 590 600
PATSPTAQES YSQYPVPDVS TYQYDETSGY YYDPQTGLYY DPNSQYYYNA
610 620 630 640 650
QSQQYLYWDG ERRTYVPALE QSADGHKETG APSKEGKEKK EKHKTKTAQQ
660 670 680 690 700
IAKDMERWAR SLNKQKENFK NSFQPISSLR DDERRESATA DAGYAILEKK
710 720 730 740 750
GALAERQHTS MDLPKLASDD RPSPPRGLVA AYSGESDSEE EQERGGPERE
760 770 780 790 800
EKLTDWQKLA CLLCRRQFPS KEALIRHQQL SGLHKQNLEI HRRAHLSENE
810 820 830 840 850
LEALEKNDME QMKYRDRAAE RREKYGIPEP PEPKRRKYGG ISTASVDFEQ
860 870 880 890 900
PTRDGLGSDN IGSRMLQAMG WKEGSGLGRK KQGIVTPIEA QTRVRGSGLG
910 920 930
ARGSSYGVTS TESYKETLHK TMVTRFNEAQ
Length:930
Mass (Da):103,533
Last modified:December 16, 2008 - v3
Checksum:i472E68F085CA5744
GO
Isoform 2 (identifier: P98175-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     354-354: Missing.

Show »
Length:929
Mass (Da):103,433
Checksum:i43D8E086250E441B
GO
Isoform 3 (identifier: P98175-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     68-144: Missing.

Show »
Length:853
Mass (Da):94,469
Checksum:iBF5689F0C926EDA8
GO
Isoform 4 (identifier: P98175-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     68-144: Missing.
     354-354: Missing.

Show »
Length:852
Mass (Da):94,370
Checksum:iBB39E0CAC9B4A8A3
GO

Sequence cautioni

The sequence AAB33572 differs from that shown. Reason: Frameshift at position 696.Curated
The sequence BAA09471 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAB70731 differs from that shown. Reason: Frameshift at several positions.Curated
The sequence CAB70731 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti499A → P in BAA09471 (PubMed:8590280).Curated1
Sequence conflicti672S → T in CAB70731 (PubMed:17974005).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_035486396R → H in a colorectal cancer sample; somatic mutation. 1 Publication1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_03617368 – 144Missing in isoform 3 and isoform 4. 2 PublicationsAdd BLAST77
Alternative sequenceiVSP_036035354Missing in isoform 2 and isoform 4. 2 Publications1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50912 mRNA. Translation: BAA09471.1. Different initiation.
AK292758 mRNA. Translation: BAF85447.1.
AL137421 mRNA. Translation: CAB70731.1. Sequence problems.
AL513366 Genomic DNA. Translation: CAI41700.1.
CH471164 Genomic DNA. Translation: EAW59284.1.
CH471164 Genomic DNA. Translation: EAW59285.1.
CH471164 Genomic DNA. Translation: EAW59287.1.
CH471164 Genomic DNA. Translation: EAW59283.1.
BC003089 mRNA. Translation: AAH03089.1.
BC004181 mRNA. Translation: AAH04181.1.
BC008733 mRNA. Translation: AAH08733.1.
BC024153 mRNA. Translation: AAH24153.1.
U35373 mRNA. Translation: AAB33572.1. Frameshift.
CCDSiCCDS14274.1. [P98175-1]
CCDS56600.1. [P98175-3]
CCDS78478.1. [P98175-4]
RefSeqiNP_001191395.1. NM_001204466.1. [P98175-3]
NP_001191396.1. NM_001204467.1. [P98175-2]
NP_005667.2. NM_005676.4. [P98175-1]
NP_690595.1. NM_152856.2. [P98175-4]
UniGeneiHs.401509.

Genome annotation databases

EnsembliENST00000345781; ENSP00000329659; ENSG00000182872. [P98175-3]
ENST00000377604; ENSP00000366829; ENSG00000182872. [P98175-1]
ENST00000628161; ENSP00000486115; ENSG00000182872. [P98175-4]
GeneIDi8241.
KEGGihsa:8241.
UCSCiuc004dhf.4. human. [P98175-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50912 mRNA. Translation: BAA09471.1. Different initiation.
AK292758 mRNA. Translation: BAF85447.1.
AL137421 mRNA. Translation: CAB70731.1. Sequence problems.
AL513366 Genomic DNA. Translation: CAI41700.1.
CH471164 Genomic DNA. Translation: EAW59284.1.
CH471164 Genomic DNA. Translation: EAW59285.1.
CH471164 Genomic DNA. Translation: EAW59287.1.
CH471164 Genomic DNA. Translation: EAW59283.1.
BC003089 mRNA. Translation: AAH03089.1.
BC004181 mRNA. Translation: AAH04181.1.
BC008733 mRNA. Translation: AAH08733.1.
BC024153 mRNA. Translation: AAH24153.1.
U35373 mRNA. Translation: AAB33572.1. Frameshift.
CCDSiCCDS14274.1. [P98175-1]
CCDS56600.1. [P98175-3]
CCDS78478.1. [P98175-4]
RefSeqiNP_001191395.1. NM_001204466.1. [P98175-3]
NP_001191396.1. NM_001204467.1. [P98175-2]
NP_005667.2. NM_005676.4. [P98175-1]
NP_690595.1. NM_152856.2. [P98175-4]
UniGeneiHs.401509.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LXINMR-A128-218[»]
2M2BNMR-A277-408[»]
2MXVNMR-A211-250[»]
2MXWNMR-A558-646[»]
ProteinModelPortaliP98175.
SMRiP98175.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi113869. 84 interactors.
IntActiP98175. 73 interactors.
MINTiMINT-2864879.
STRINGi9606.ENSP00000366829.

PTM databases

iPTMnetiP98175.
PhosphoSitePlusiP98175.

Polymorphism and mutation databases

BioMutaiRBM10.
DMDMi218512116.

Proteomic databases

EPDiP98175.
MaxQBiP98175.
PaxDbiP98175.
PeptideAtlasiP98175.
PRIDEiP98175.

Protocols and materials databases

DNASUi8241.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000345781; ENSP00000329659; ENSG00000182872. [P98175-3]
ENST00000377604; ENSP00000366829; ENSG00000182872. [P98175-1]
ENST00000628161; ENSP00000486115; ENSG00000182872. [P98175-4]
GeneIDi8241.
KEGGihsa:8241.
UCSCiuc004dhf.4. human. [P98175-1]

Organism-specific databases

CTDi8241.
DisGeNETi8241.
GeneCardsiRBM10.
HGNCiHGNC:9896. RBM10.
HPAiHPA034972.
HPA057372.
MalaCardsiRBM10.
MIMi300080. gene.
311900. phenotype.
neXtProtiNX_P98175.
OpenTargetsiENSG00000182872.
Orphaneti2886. TARP syndrome.
PharmGKBiPA34259.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0154. Eukaryota.
ENOG410YNFQ. LUCA.
GeneTreeiENSGT00510000046476.
HOVERGENiHBG000318.
InParanoidiP98175.
KOiK13094.
PhylomeDBiP98175.
TreeFamiTF315789.

Enzyme and pathway databases

BioCyciZFISH:G66-32255-MONOMER.

Miscellaneous databases

ChiTaRSiRBM10. human.
GeneWikiiRBM10.
GenomeRNAii8241.
PROiP98175.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000182872.
CleanExiHS_RBM10.
ExpressionAtlasiP98175. baseline and differential.
GenevisibleiP98175. HS.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
4.10.1060.10. 1 hit.
InterProiIPR000467. G_patch_dom.
IPR012677. Nucleotide-bd_a/b_plait.
IPR033095. RBM10.
IPR000504. RRM_dom.
IPR007087. Znf_C2H2.
IPR001876. Znf_RanBP2.
[Graphical view]
PANTHERiPTHR13948:SF4. PTHR13948:SF4. 2 hits.
PfamiPF01585. G-patch. 1 hit.
PF00076. RRM_1. 1 hit.
PF00641. zf-RanBP. 1 hit.
[Graphical view]
SMARTiSM00443. G_patch. 1 hit.
SM00360. RRM. 2 hits.
SM00547. ZnF_RBZ. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 3 hits.
SSF90209. SSF90209. 1 hit.
PROSITEiPS50174. G_PATCH. 1 hit.
PS50102. RRM. 2 hits.
PS01358. ZF_RANBP2_1. 1 hit.
PS50199. ZF_RANBP2_2. 1 hit.
PS50157. ZINC_FINGER_C2H2_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRBM10_HUMAN
AccessioniPrimary (citable) accession number: P98175
Secondary accession number(s): C4AM81
, Q14136, Q5JRR2, Q9BTE4, Q9BTX0, Q9NTB1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: December 16, 2008
Last modified: November 30, 2016
This is version 167 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 X
    Human chromosome X: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.