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Protein

RNA-binding protein 5

Gene

RBM5

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein 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. May both positively and negatively regulate apoptosis by regulating the alternative splicing of several genes involved in this process, including FAS and CASP2/caspase-2. In the case of FAS, promotes exclusion of exon 6 thereby producing a soluble form of FAS that inhibits apoptosis. In the case of CASP2/caspase-2, promotes exclusion of exon 9 thereby producing a catalytically active form of CASP2/Caspase-2 that induces apoptosis.7 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri181 – 210RanBP2-typePROSITE-ProRule annotationAdd BLAST30
Zinc fingeri647 – 677C2H2-type; atypicalPROSITE-ProRule annotationAdd BLAST31

GO - Molecular functioni

  • DNA binding Source: ProtInc
  • metal ion binding Source: UniProtKB-KW
  • mRNA binding Source: UniProtKB
  • RNA binding Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processApoptosis, mRNA processing, mRNA splicing
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-72163 mRNA Splicing - Major Pathway

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 5
Alternative name(s):
Protein G15
Putative tumor suppressor LUCA15
RNA-binding motif protein 5
Renal carcinoma antigen NY-REN-9
Gene namesi
Name:RBM5
ORF Names:H37, LUCA15
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

EuPathDBiHostDB:ENSG00000003756.16
HGNCiHGNC:9902 RBM5
MIMi606884 gene
neXtProtiNX_P52756

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

DisGeNETi10181
OpenTargetsiENSG00000003756
PharmGKBiPA34267

Polymorphism and mutation databases

BioMutaiRBM5
DMDMi13124794

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000817591 – 815RNA-binding protein 5Add BLAST815

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei18PhosphoserineCombined sources1
Modified residuei59PhosphoserineCombined sources1
Modified residuei69PhosphoserineCombined sources1
Modified residuei72PhosphoserineCombined sources1
Modified residuei78PhosphoserineCombined sources1
Modified residuei444PhosphoserineCombined sources1
Modified residuei621PhosphoserineCombined sources1
Modified residuei624PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiP52756
MaxQBiP52756
PaxDbiP52756
PeptideAtlasiP52756
PRIDEiP52756
ProteomicsDBi56524
56525 [P52756-2]
56526 [P52756-3]
56527 [P52756-4]
56528 [P52756-5]

PTM databases

iPTMnetiP52756
PhosphoSitePlusiP52756

Expressioni

Tissue specificityi

Isoform 5 is widely expressed in normal tissues and is expressed at increased levels in T-leukemic cell lines.

Gene expression databases

BgeeiENSG00000003756 Expressed in 232 organ(s), highest expression level in corpus callosum
ExpressionAtlasiP52756 baseline and differential
GenevisibleiP52756 HS

Organism-specific databases

HPAiHPA017335
HPA018011

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. Interacts with U2AF2; this interaction is direct. Also interacts with ACIN1, PRPF8, SFRS3, SNRPB, SNRPN, SNRNP70 and SNRNP200; these interactions may be indirect.2 Publications

Binary interactionsi

Protein-protein interaction databases

BioGridi115480, 53 interactors
DIPiDIP-47277N
IntActiP52756, 32 interactors
MINTiP52756
STRINGi9606.ENSP00000343054

Structurei

Secondary structure

1815
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP52756
SMRiP52756
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini98 – 178RRM 1PROSITE-ProRule annotationAdd BLAST81
Domaini231 – 315RRM 2PROSITE-ProRule annotationAdd BLAST85
Domaini743 – 789G-patchPROSITE-ProRule annotationAdd BLAST47

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni321 – 809Required for interaction with U2AF21 PublicationAdd BLAST489
Regioni452 – 535Sufficient for interaction with ACIN1, PRPF8, SFRS3, SNRPB, SNRPN, SNRNP70 and SNRNP2001 PublicationAdd BLAST84

Sequence similaritiesi

Belongs to the RBM5/RBM10 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri181 – 210RanBP2-typePROSITE-ProRule annotationAdd BLAST30
Zinc fingeri647 – 677C2H2-type; atypicalPROSITE-ProRule annotationAdd BLAST31

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG0154 Eukaryota
ENOG410YNFQ LUCA
GeneTreeiENSGT00510000046476
HOVERGENiHBG000318
InParanoidiP52756
KOiK13094
OMAiTADSYKD
OrthoDBiEOG091G01UT
PhylomeDBiP52756
TreeFamiTF315789

Family and domain databases

CDDicd12752 RRM1_RBM5, 1 hit
cd12755 RRM2_RBM5, 1 hit
Gene3Di3.30.70.330, 2 hits
InterProiView protein in InterPro
IPR000467 G_patch_dom
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR033094 RBM5
IPR034991 RBM5_RRM1
IPR034993 RBM5_RRM2
IPR000504 RRM_dom
IPR013087 Znf_C2H2_type
IPR001876 Znf_RanBP2
IPR036443 Znf_RanBP2_sf
PANTHERiPTHR13948:SF21 PTHR13948:SF21, 1 hit
PfamiView protein in Pfam
PF01585 G-patch, 1 hit
PF00076 RRM_1, 1 hit
PF00641 zf-RanBP, 1 hit
SMARTiView protein in SMART
SM00443 G_patch, 1 hit
SM00360 RRM, 2 hits
SM00547 ZnF_RBZ, 1 hit
SUPFAMiSSF54928 SSF54928, 2 hits
SSF90209 SSF90209, 1 hit
PROSITEiView protein in PROSITE
PS50174 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

Sequences (5+)i

Sequence statusi: Complete.

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

This entry has 5 described isoforms and 6 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P52756-1) [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
MGSDKRVSRT ERSGRYGSII DRDDRDERES RSRRRDSDYK RSSDDRRGDR
60 70 80 90 100
YDDYRDYDSP ERERERRNSD RSEDGYHSDG DYGEHDYRHD ISDERESKTI
110 120 130 140 150
MLRGLPITIT ESDIREMMES FEGPQPADVR LMKRKTGVSR GFAFVEFYHL
160 170 180 190 200
QDATSWMEAN QKKLVIQGKH IAMHYSNPRP KFEDWLCNKC CLNNFRKRLK
210 220 230 240 250
CFRCGADKFD SEQEVPPGTT ESVQSVDYYC DTIILRNIAP HTVVDSIMTA
260 270 280 290 300
LSPYASLAVN NIRLIKDKQT QQNRGFAFVQ LSSAMDASQL LQILQSLHPP
310 320 330 340 350
LKIDGKTIGV DFAKSARKDL VLSDGNRVSA FSVASTAIAA AQWSSTQSQS
360 370 380 390 400
GEGGSVDYSY LQPGQDGYAQ YAQYSQDYQQ FYQQQAGGLE SDASSASGTA
410 420 430 440 450
VTTTSAAVVS QSPQLYNQTS NPPGSPTEEA QPSTSTSTQA PAASPTGVVP
460 470 480 490 500
GTKYAVPDTS TYQYDESSGY YYDPTTGLYY DPNSQYYYNS LTQQYLYWDG
510 520 530 540 550
EKETYVPAAE SSSHQQSGLP PAKEGKEKKE KPKSKTAQQI AKDMERWAKS
560 570 580 590 600
LNKQKENFKN SFQPVNSLRE EERRESAAAD AGFALFEKKG ALAERQQLIP
610 620 630 640 650
ELVRNGDEEN PLKRGLVAAY SGDSDNEEEL VERLESEEEK LADWKKMACL
660 670 680 690 700
LCRRQFPNKD ALVRHQQLSD LHKQNMDIYR RSRLSEQELE ALELREREMK
710 720 730 740 750
YRDRAAERRE KYGIPEPPEP KRKKQFDAGT VNYEQPTKDG IDHSNIGNKM
760 770 780 790 800
LQAMGWREGS GLGRKCQGIT APIEAQVRLK GAGLGAKGSA YGLSGADSYK
810
DAVRKAMFAR FTEME
Length:815
Mass (Da):92,154
Last modified:February 21, 2001 - v2
Checksum:iAA79962D13405479
GO
Isoform 2 (identifier: P52756-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     138-143: VSRGFA → ESLLSS
     144-815: Missing.

Show »
Length:143
Mass (Da):17,055
Checksum:i9D5FC205E7B15147
GO
Isoform 3 (identifier: P52756-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     65-126: ERRNSDRSED...MMESFEGPQP → YSRNDGVLRR...DSRKAHCNAL
     127-815: Missing.

Note: No experimental confirmation available.
Show »
Length:126
Mass (Da):14,897
Checksum:iDCF25D0B05DD2BF6
GO
Isoform 4 (identifier: P52756-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     142-815: Missing.

Note: No experimental confirmation available.
Show »
Length:141
Mass (Da):16,838
Checksum:i2D46C7A88147A429
GO
Isoform 5 (identifier: P52756-5) [UniParc]FASTAAdd to basket
Also known as: delta-6

The sequence of this isoform differs from the canonical sequence as follows:
     137-150: GVSRGFAFVEFYHL → EKVGDSRKAHCNAL
     151-815: Missing.

Show »
Length:150
Mass (Da):17,891
Checksum:iEC00925B099F81DC
GO

Computationally mapped potential isoform sequencesi

There are 6 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
C9JFQ5C9JFQ5_HUMAN
RNA-binding protein 5
RBM5
137Annotation score:
C9J9P7C9J9P7_HUMAN
RNA-binding protein 5
RBM5
120Annotation score:
C9JR02C9JR02_HUMAN
RNA-binding protein 5
RBM5
105Annotation score:
F8WE23F8WE23_HUMAN
RNA-binding protein 5
RBM5
81Annotation score:
F8W910F8W910_HUMAN
RNA-binding protein 5
RBM5
138Annotation score:
H7BYM9H7BYM9_HUMAN
RNA-binding protein 5
RBM5
56Annotation score:

Sequence cautioni

The sequence BAG59728 differs from that shown. Reason: Erroneous translation. Wrong choice of CDS.Curated
The sequence BAG59871 differs from that shown. Reason: Erroneous translation. Wrong choice of CDS.Curated
The sequence BAG63975 differs from that shown. Reason: Erroneous translation. Wrong choice of CDS.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti53 – 54DY → GS in AAA99715 (Ref. 1) Curated2
Sequence conflicti354G → V in AAA99715 (Ref. 1) Curated1
Sequence conflicti455Missing in AAB42216 (Ref. 8) Curated1
Sequence conflicti788G → A in AAB42216 (Ref. 8) Curated1
Sequence conflicti812T → I in AAA99715 (Ref. 1) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_061831163K → N. Corresponds to variant dbSNP:rs56783610Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_03742965 – 126ERRNS…EGPQP → YSRNDGVLRRPSACGCEADE EENRCKPWFRLRGVLSLARC YQLDGSQSEKVGDSRKAHCN AL in isoform 3. 1 PublicationAdd BLAST62
Alternative sequenceiVSP_037430127 – 815Missing in isoform 3. 1 PublicationAdd BLAST689
Alternative sequenceiVSP_037431137 – 150GVSRG…EFYHL → EKVGDSRKAHCNAL in isoform 5. 1 PublicationAdd BLAST14
Alternative sequenceiVSP_037432138 – 143VSRGFA → ESLLSS in isoform 2. 1 Publication6
Alternative sequenceiVSP_037433142 – 815Missing in isoform 4. 1 PublicationAdd BLAST674
Alternative sequenceiVSP_037434144 – 815Missing in isoform 2. 1 PublicationAdd BLAST672
Alternative sequenceiVSP_037435151 – 815Missing in isoform 5. 1 PublicationAdd BLAST665

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U23946 mRNA Translation: AAA99715.1
AF091263 mRNA Translation: AAD04159.1
AF103802 mRNA Translation: AAF02422.2
AF107493 mRNA Translation: AAF99551.1
AK297249 mRNA Translation: BAG59728.1 Sequence problems.
AK297445 mRNA Translation: BAG59871.1 Sequence problems.
AK302766 mRNA Translation: BAG63975.1 Sequence problems.
AK314032 mRNA Translation: BAG36742.1
CH471055 Genomic DNA Translation: EAW65040.1
CH471055 Genomic DNA Translation: EAW65041.1
U73168 Genomic DNA Translation: AAB42216.1
CCDSiCCDS2810.1 [P52756-1]
RefSeqiNP_005769.1, NM_005778.3 [P52756-1]
XP_016860992.1, XM_017005503.1 [P52756-1]
UniGeneiHs.439480

Genome annotation databases

EnsembliENST00000347869; ENSP00000343054; ENSG00000003756 [P52756-1]
ENST00000469838; ENSP00000419534; ENSG00000003756 [P52756-2]
GeneIDi10181
KEGGihsa:10181
UCSCiuc003cyf.4 human [P52756-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Web resourcesi

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U23946 mRNA Translation: AAA99715.1
AF091263 mRNA Translation: AAD04159.1
AF103802 mRNA Translation: AAF02422.2
AF107493 mRNA Translation: AAF99551.1
AK297249 mRNA Translation: BAG59728.1 Sequence problems.
AK297445 mRNA Translation: BAG59871.1 Sequence problems.
AK302766 mRNA Translation: BAG63975.1 Sequence problems.
AK314032 mRNA Translation: BAG36742.1
CH471055 Genomic DNA Translation: EAW65040.1
CH471055 Genomic DNA Translation: EAW65041.1
U73168 Genomic DNA Translation: AAB42216.1
CCDSiCCDS2810.1 [P52756-1]
RefSeqiNP_005769.1, NM_005778.3 [P52756-1]
XP_016860992.1, XM_017005503.1 [P52756-1]
UniGeneiHs.439480

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LK0NMR-A181-210[»]
2LK1NMR-A181-210[»]
2LKZNMR-A231-316[»]
5MF9NMR-A451-511[»]
5MFYNMR-A451-511[»]
ProteinModelPortaliP52756
SMRiP52756
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115480, 53 interactors
DIPiDIP-47277N
IntActiP52756, 32 interactors
MINTiP52756
STRINGi9606.ENSP00000343054

PTM databases

iPTMnetiP52756
PhosphoSitePlusiP52756

Polymorphism and mutation databases

BioMutaiRBM5
DMDMi13124794

Proteomic databases

EPDiP52756
MaxQBiP52756
PaxDbiP52756
PeptideAtlasiP52756
PRIDEiP52756
ProteomicsDBi56524
56525 [P52756-2]
56526 [P52756-3]
56527 [P52756-4]
56528 [P52756-5]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000347869; ENSP00000343054; ENSG00000003756 [P52756-1]
ENST00000469838; ENSP00000419534; ENSG00000003756 [P52756-2]
GeneIDi10181
KEGGihsa:10181
UCSCiuc003cyf.4 human [P52756-1]

Organism-specific databases

CTDi10181
DisGeNETi10181
EuPathDBiHostDB:ENSG00000003756.16
GeneCardsiRBM5
HGNCiHGNC:9902 RBM5
HPAiHPA017335
HPA018011
MIMi606884 gene
neXtProtiNX_P52756
OpenTargetsiENSG00000003756
PharmGKBiPA34267
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0154 Eukaryota
ENOG410YNFQ LUCA
GeneTreeiENSGT00510000046476
HOVERGENiHBG000318
InParanoidiP52756
KOiK13094
OMAiTADSYKD
OrthoDBiEOG091G01UT
PhylomeDBiP52756
TreeFamiTF315789

Enzyme and pathway databases

ReactomeiR-HSA-72163 mRNA Splicing - Major Pathway

Miscellaneous databases

ChiTaRSiRBM5 human
GeneWikiiRBM5
GenomeRNAii10181
PROiPR:P52756
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000003756 Expressed in 232 organ(s), highest expression level in corpus callosum
ExpressionAtlasiP52756 baseline and differential
GenevisibleiP52756 HS

Family and domain databases

CDDicd12752 RRM1_RBM5, 1 hit
cd12755 RRM2_RBM5, 1 hit
Gene3Di3.30.70.330, 2 hits
InterProiView protein in InterPro
IPR000467 G_patch_dom
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR033094 RBM5
IPR034991 RBM5_RRM1
IPR034993 RBM5_RRM2
IPR000504 RRM_dom
IPR013087 Znf_C2H2_type
IPR001876 Znf_RanBP2
IPR036443 Znf_RanBP2_sf
PANTHERiPTHR13948:SF21 PTHR13948:SF21, 1 hit
PfamiView protein in Pfam
PF01585 G-patch, 1 hit
PF00076 RRM_1, 1 hit
PF00641 zf-RanBP, 1 hit
SMARTiView protein in SMART
SM00443 G_patch, 1 hit
SM00360 RRM, 2 hits
SM00547 ZnF_RBZ, 1 hit
SUPFAMiSSF54928 SSF54928, 2 hits
SSF90209 SSF90209, 1 hit
PROSITEiView protein in PROSITE
PS50174 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
ProtoNetiSearch...

Entry informationi

Entry nameiRBM5_HUMAN
AccessioniPrimary (citable) accession number: P52756
Secondary accession number(s): B2RA45
, B4DM16, B4DMF9, B4DZ63, Q93021, Q9BU14, Q9HDA6, Q9UKY8, Q9UL24
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: February 21, 2001
Last modified: September 12, 2018
This is version 178 of the entry and version 2 of the sequence. See 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Human chromosome 3
    Human chromosome 3: entries, gene names and cross-references to MIM
  4. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
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