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Protein

RNA-binding protein 5

Gene

rbm5

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Component of the spliceosome A complex. Regulates alternative splicing of a number of mRNAs. May modulate splice site pairing after recruitment of the U1 and U2 snRNPs to the 5' and 3' splice sites of the intron (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri186 – 21530RanBP2-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri671 – 69626C2H2-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 5
Alternative name(s):
RNA-binding motif protein 5
Gene namesi
Name:rbm5
ORF Names:TGas113j08.1
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
Proteomesi
  • UP000008143 Componenti: Unassembled WGS sequence

Organism-specific databases

XenbaseiXB-GENE-494987. rbm5.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 838838RNA-binding protein 5PRO_0000376808Add
BLAST

Expressioni

Gene expression databases

BgeeiA4IGK4.
ExpressionAtlasiA4IGK4. baseline.

Interactioni

Subunit structurei

Component of the spliceosome A complex (also known as the prespliceosome). Appears to dissociate from the spliceosome upon formation of the spliceosome B complex (also known as the precatalytic spliceosome), in which the heterotrimeric U4/U6.U5 snRNPs are bound (By similarity).By similarity

Structurei

3D structure databases

ProteinModelPortaliA4IGK4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini103 – 18381RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini242 – 32685RRM 2PROSITE-ProRule annotationAdd
BLAST
Domaini766 – 81247G-patchPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi6 – 7570Arg-richAdd
BLAST
Compositional biasi478 – 51336Tyr-richAdd
BLAST

Sequence similaritiesi

Belongs to the RBM5/RBM10 family.Curated
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)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri186 – 21530RanBP2-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri671 – 69626C2H2-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00510000046476.
HOGENOMiHOG000046285.
InParanoidiA4IGK4.
KOiK13094.
OMAiDHGRYAP.

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.
IPR033094. RBM5.
IPR000504. RRM_dom.
IPR007087. Znf_C2H2.
IPR001876. Znf_RanBP2.
[Graphical view]
PANTHERiPTHR13948:SF21. PTHR13948:SF21. 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. 2 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]

Sequencei

Sequence statusi: Complete.

A4IGK4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGSDKRVSRS ERSGRYGSAF DRDDRDDRDT RSRRRDSEYK RYRDERSSER
60 70 80 90 100
YDDYRDYDSP ERDRMRDRER RNSDRSEDGY HSDGDYMDHD YRQDYYMDEK
110 120 130 140 150
ESKTIMLRGL PININENDIR ELVESFEGPQ PADVRLMKRK TGLSRGFAFV
160 170 180 190 200
EFYHLQDATR WMEANQKKLV IQGKTIAMHY SNPRPKFEDW LCNKCGLYNF
210 220 230 240 250
RRRLKCFRCG AAKAESDLEA PSGSSDAPQS TDYYSDSGYV SSAIILRNIG
260 270 280 290 300
PHTVVDSILS ALAPYVSLVV SNIRLIKDKQ TQQNRGFAFV QLPSTLEASQ
310 320 330 340 350
LLQILQTLHP PLKIDGKTVG VDFAKSARKD LVLPDGHRVS AFSVASTAIA
360 370 380 390 400
AAQWSSTQQA QQSGEGGEYA YLQPGQEGYA NYGQCSQDYQ PFYQAQTGAA
410 420 430 440 450
EQSTAPQAEG SAPVPATTSA VVCQSPQMYQ QPGSPTQSGT STAANTTPAS
460 470 480 490 500
TTSTTEEAAP PNAVIPGVKY SVPDTSTYQY DESSGYYYDP QTGLYYDPNS
510 520 530 540 550
QYYYNSLTQQ YLYWDGEKQT YLPAADGAGQ SGAQPNGANA GSSKEGKEKK
560 570 580 590 600
EKPKSKTAQQ IAKDMERWAK SLNKQKENFK NSFQPLSARD EERKESAAAD
610 620 630 640 650
AGFALFEKKQ GALLERQFMP DMMMMVNTEE EEKPPNKALV AAYSGDSDNE
660 670 680 690 700
EESERLLGAV DEEKLLDWKK LACLLCRRQF PNKDALTRHQ QLSDLHKQNL
710 720 730 740 750
EVYRRSKMSE QELEALELKE REAKYRDRAA ERREKYGIPE PPEPKRKRFD
760 770 780 790 800
PTVVNYEQPT KDGIDNSNIG NKMLQAMGWK EGSGLGRKSQ GITAPIQAQV
810 820 830
RMRGAGLGAK GSSYGVNTSD SYKDAVRKAM FARFSEME
Length:838
Mass (Da):94,499
Last modified:May 1, 2007 - v1
Checksum:iEB0586C08496D8BB
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti192 – 1921C → S in CAJ81574 (Ref. 1) Curated
Sequence conflicti237 – 2437SGYVSSA → T in CAJ81574 (Ref. 1) Curated
Sequence conflicti610 – 6101Missing in CAJ81574 (Ref. 1) Curated
Sequence conflicti659 – 6591A → V in CAJ81574 (Ref. 1) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR855749 mRNA. Translation: CAJ81574.1.
BC135140 mRNA. Translation: AAI35141.1.
RefSeqiNP_001017278.1. NM_001017278.2.
XP_012820244.1. XM_012964790.1.
UniGeneiStr.11018.

Genome annotation databases

EnsembliENSXETT00000015911; ENSXETP00000015911; ENSXETG00000007303.
GeneIDi550032.
KEGGixtr:550032.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR855749 mRNA. Translation: CAJ81574.1.
BC135140 mRNA. Translation: AAI35141.1.
RefSeqiNP_001017278.1. NM_001017278.2.
XP_012820244.1. XM_012964790.1.
UniGeneiStr.11018.

3D structure databases

ProteinModelPortaliA4IGK4.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSXETT00000015911; ENSXETP00000015911; ENSXETG00000007303.
GeneIDi550032.
KEGGixtr:550032.

Organism-specific databases

CTDi10181.
XenbaseiXB-GENE-494987. rbm5.

Phylogenomic databases

GeneTreeiENSGT00510000046476.
HOGENOMiHOG000046285.
InParanoidiA4IGK4.
KOiK13094.
OMAiDHGRYAP.

Gene expression databases

BgeeiA4IGK4.
ExpressionAtlasiA4IGK4. baseline.

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.
IPR033094. RBM5.
IPR000504. RRM_dom.
IPR007087. Znf_C2H2.
IPR001876. Znf_RanBP2.
[Graphical view]
PANTHERiPTHR13948:SF21. PTHR13948:SF21. 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. 2 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...

Publicationsi

  1. Sanger Xenopus tropicalis EST/cDNA project
    Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Gastrula.
  2. NIH - Xenopus Gene Collection (XGC) project
    Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Embryo.

Entry informationi

Entry nameiRBM5_XENTR
AccessioniPrimary (citable) accession number: A4IGK4
Secondary accession number(s): Q28D22
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 26, 2009
Last sequence update: May 1, 2007
Last modified: May 11, 2016
This is version 50 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.