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Protein

RNA-binding protein 42

Gene

RBM42

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Binds (via the RRM domain) to the 3'-untranslated region (UTR) of CDKN1A mRNA.By similarity

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000126254-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 42
Alternative name(s):
RNA-binding motif protein 42
Gene namesi
Name:RBM42
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:28117. RBM42.

Subcellular locationi

  • Nucleus By similarity
  • Cytoplasm By similarity

  • Note: Upon stress response, localizes with HNRNPK in cytoplasmic aggregates of stalled translational preinitiation complexes called stress granules.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000126254.
PharmGKBiPA162400760.

Polymorphism and mutation databases

BioMutaiRBM42.
DMDMi74761247.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00003077502 – 480RNA-binding protein 42Add BLAST479

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1
Modified residuei135PhosphoserineCombined sources1
Modified residuei153Asymmetric dimethylarginineCombined sources1
Modified residuei158Asymmetric dimethylarginineCombined sources1
Modified residuei168Asymmetric dimethylarginineCombined sources1
Modified residuei181Asymmetric dimethylarginineCombined sources1

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

EPDiQ9BTD8.
MaxQBiQ9BTD8.
PaxDbiQ9BTD8.
PeptideAtlasiQ9BTD8.
PRIDEiQ9BTD8.
TopDownProteomicsiQ9BTD8-2. [Q9BTD8-2]

PTM databases

iPTMnetiQ9BTD8.
PhosphoSitePlusiQ9BTD8.

Expressioni

Gene expression databases

BgeeiENSG00000126254.
CleanExiHS_RBM42.
ExpressionAtlasiQ9BTD8. baseline and differential.
GenevisibleiQ9BTD8. HS.

Organism-specific databases

HPAiHPA043671.

Interactioni

Subunit structurei

Interacts with HNRNPK.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
PSMA3P257883EBI-746862,EBI-348380

Protein-protein interaction databases

BioGridi122588. 68 interactors.
IntActiQ9BTD8. 11 interactors.
MINTiMINT-8332604.
STRINGi9606.ENSP00000262633.

Structurei

3D structure databases

ProteinModelPortaliQ9BTD8.
SMRiQ9BTD8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini381 – 459RRMPROSITE-ProRule annotationAdd BLAST79

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni236 – 480Necessary for interaction with HNRNPKBy similarityAdd BLAST245

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi180 – 343Pro-richAdd BLAST164

Sequence similaritiesi

Belongs to the RRM RBM42 family.Curated
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0226. Eukaryota.
ENOG4111N9B. LUCA.
GeneTreeiENSGT00860000133749.
HOGENOMiHOG000154080.
HOVERGENiHBG060478.
InParanoidiQ9BTD8.
OMAiMQVPTAP.
OrthoDBiEOG091G0TWR.
PhylomeDBiQ9BTD8.
TreeFamiTF313946.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

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

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

Isoform 1 (identifier: Q9BTD8-1) [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
MAGAGPAPGL PGAGGPVVPG PGAGIPGKSG EERLKEMEAE MALFEQEVLG
60 70 80 90 100
APVPGIPTAV PAVPTVPTVP TVEAMQVPAA PVIRPIIATN TYQQVQQTLE
110 120 130 140 150
ARAAAAATVV PPMVGGPPFV GPVGFGPGDR SHLDSPEARE AMFLRRAAVA
160 170 180 190 200
PQRAPILRPA FVPHVLQRAD SALSSAAAGP RPMALRPPHQ ALVGPPLPGP
210 220 230 240 250
PGPPMMLPPM ARAPGPPLGS MAALRPPLEE PAAPRELGLG LGLGLKEKEE
260 270 280 290 300
AVVAAAAGLE EASAAVAVGA GGAPAGPAVI GPSLPLALAM PLPEPEPLPL
310 320 330 340 350
PLEVVRGLLP PLRIPELLSL RPRPRPPRPE PPPGLMALEV PEPLGEDKKK
360 370 380 390 400
GKPEKLKRCI RTAAGSSWED PSLLEWDADD FRIFCGDLGN EVNDDILARA
410 420 430 440 450
FSRFPSFLKA KVIRDKRTGK TKGYGFVSFK DPSDYVRAMR EMNGKYVGSR
460 470 480
PIKLRKSMWK DRNLDVVRKK QKEKKKLGLR
Length:480
Mass (Da):50,414
Last modified:June 1, 2001 - v1
Checksum:i865780E6D7615DBE
GO
Isoform 2 (identifier: Q9BTD8-2) [UniParc]FASTAAdd to basket
Also known as: RBM42a

The sequence of this isoform differs from the canonical sequence as follows:
     147-176: Missing.

Show »
Length:450
Mass (Da):47,321
Checksum:i9C72140612708FDB
GO
Isoform 3 (identifier: Q9BTD8-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     147-175: Missing.

Show »
Length:451
Mass (Da):47,393
Checksum:i0E5C8F8230006299
GO
Isoform 4 (identifier: Q9BTD8-4) [UniParc]FASTAAdd to basket
Also known as: RBM42b

The sequence of this isoform differs from the canonical sequence as follows:
     147-180: Missing.

Note: No experimental confirmation available.
Show »
Length:446
Mass (Da):47,025
Checksum:iD5B2729A3A13FA81
GO

Sequence cautioni

The sequence AAB57629 differs from that shown. Reason: Erroneous gene model prediction.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_037256147 – 180Missing in isoform 4. CuratedAdd BLAST34
Alternative sequenceiVSP_028817147 – 176Missing in isoform 2. 1 PublicationAdd BLAST30
Alternative sequenceiVSP_028818147 – 175Missing in isoform 3. 1 PublicationAdd BLAST29

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC002115 Genomic DNA. Translation: AAB57629.1. Sequence problems.
BC002868 mRNA. Translation: AAH02868.1.
BC004204 mRNA. Translation: AAH04204.1.
BC031682 mRNA. Translation: AAH31682.1.
CCDSiCCDS12468.1. [Q9BTD8-1]
RefSeqiNP_001306042.1. NM_001319113.1. [Q9BTD8-3]
NP_077297.2. NM_024321.4. [Q9BTD8-1]
UniGeneiHs.5086.

Genome annotation databases

EnsembliENST00000262633; ENSP00000262633; ENSG00000126254. [Q9BTD8-1]
ENST00000588161; ENSP00000466044; ENSG00000126254. [Q9BTD8-2]
GeneIDi79171.
KEGGihsa:79171.
UCSCiuc002oan.4. human. [Q9BTD8-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC002115 Genomic DNA. Translation: AAB57629.1. Sequence problems.
BC002868 mRNA. Translation: AAH02868.1.
BC004204 mRNA. Translation: AAH04204.1.
BC031682 mRNA. Translation: AAH31682.1.
CCDSiCCDS12468.1. [Q9BTD8-1]
RefSeqiNP_001306042.1. NM_001319113.1. [Q9BTD8-3]
NP_077297.2. NM_024321.4. [Q9BTD8-1]
UniGeneiHs.5086.

3D structure databases

ProteinModelPortaliQ9BTD8.
SMRiQ9BTD8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122588. 68 interactors.
IntActiQ9BTD8. 11 interactors.
MINTiMINT-8332604.
STRINGi9606.ENSP00000262633.

PTM databases

iPTMnetiQ9BTD8.
PhosphoSitePlusiQ9BTD8.

Polymorphism and mutation databases

BioMutaiRBM42.
DMDMi74761247.

Proteomic databases

EPDiQ9BTD8.
MaxQBiQ9BTD8.
PaxDbiQ9BTD8.
PeptideAtlasiQ9BTD8.
PRIDEiQ9BTD8.
TopDownProteomicsiQ9BTD8-2. [Q9BTD8-2]

Protocols and materials databases

DNASUi79171.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000262633; ENSP00000262633; ENSG00000126254. [Q9BTD8-1]
ENST00000588161; ENSP00000466044; ENSG00000126254. [Q9BTD8-2]
GeneIDi79171.
KEGGihsa:79171.
UCSCiuc002oan.4. human. [Q9BTD8-1]

Organism-specific databases

CTDi79171.
GeneCardsiRBM42.
HGNCiHGNC:28117. RBM42.
HPAiHPA043671.
MIMi613232. gene.
neXtProtiNX_Q9BTD8.
OpenTargetsiENSG00000126254.
PharmGKBiPA162400760.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0226. Eukaryota.
ENOG4111N9B. LUCA.
GeneTreeiENSGT00860000133749.
HOGENOMiHOG000154080.
HOVERGENiHBG060478.
InParanoidiQ9BTD8.
OMAiMQVPTAP.
OrthoDBiEOG091G0TWR.
PhylomeDBiQ9BTD8.
TreeFamiTF313946.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000126254-MONOMER.

Miscellaneous databases

ChiTaRSiRBM42. human.
GenomeRNAii79171.
PROiQ9BTD8.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000126254.
CleanExiHS_RBM42.
ExpressionAtlasiQ9BTD8. baseline and differential.
GenevisibleiQ9BTD8. HS.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRBM42_HUMAN
AccessioniPrimary (citable) accession number: Q9BTD8
Secondary accession number(s): O00320, Q8N5R7, Q9BU66
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 23, 2007
Last sequence update: June 1, 2001
Last modified: November 30, 2016
This is version 124 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: 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. 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.