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Protein

RNA-binding protein 4B

Gene

RBM4B

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

Functioni

Required for the translational activation of PER1 mRNA in response to circadian clock. Binds directly to the 3'-UTR of the PER1 mRNA (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri160 – 17718CCHC-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

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

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 4B
Alternative name(s):
RNA-binding motif protein 30
RNA-binding motif protein 4B
RNA-binding protein 30
Gene namesi
Name:RBM4B
Synonyms:RBM30
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 11

Organism-specific databases

HGNCiHGNC:28842. RBM4B.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134977404.

Polymorphism and mutation databases

DMDMi62511129.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 359359RNA-binding protein 4BPRO_0000081787Add
BLAST

Proteomic databases

EPDiQ9BQ04.
MaxQBiQ9BQ04.
PaxDbiQ9BQ04.
PeptideAtlasiQ9BQ04.
PRIDEiQ9BQ04.

2D gel databases

SWISS-2DPAGEQ9BQ04.

PTM databases

iPTMnetiQ9BQ04.
PhosphoSiteiQ9BQ04.

Expressioni

Tissue specificityi

Expressed in liver and kidney (at protein level). Ubiquitously expressed.2 Publications

Gene expression databases

BgeeiQ9BQ04.
CleanExiHS_RBM4B.
ExpressionAtlasiQ9BQ04. baseline and differential.
GenevisibleiQ9BQ04. HS.

Organism-specific databases

HPAiHPA042174.
HPA047849.

Interactioni

Subunit structurei

Interacts with TNPO3, which may mediate nuclear import of the protein.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
DZIP3Q86Y133EBI-715531,EBI-948630
HNRNPUL1Q9BUJ23EBI-715531,EBI-1018153
SMYD1Q8NB122EBI-715531,EBI-8463848

Protein-protein interaction databases

BioGridi123760. 60 interactions.
IntActiQ9BQ04. 10 interactions.
MINTiMINT-1379498.
STRINGi9606.ENSP00000310471.

Structurei

Secondary structure

1
359
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi76 – 849Combined sources
Helixi91 – 999Combined sources
Beta strandi106 – 1094Combined sources
Beta strandi111 – 1199Combined sources
Helixi121 – 13111Combined sources
Beta strandi134 – 1363Combined sources
Beta strandi139 – 1479Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DGTNMR-A75-153[»]
ProteinModelPortaliQ9BQ04.
SMRiQ9BQ04. Positions 1-155.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9BQ04.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 7271RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini78 – 14871RRM 2PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni196 – 359164Interaction with TNPO3By similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi231 – 24010Poly-Ala
Compositional biasi286 – 2938Poly-Ala

Sequence similaritiesi

Contains 1 CCHC-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 fingeri160 – 17718CCHC-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG0109. Eukaryota.
ENOG41105PP. LUCA.
GeneTreeiENSGT00390000020883.
HOGENOMiHOG000026790.
HOVERGENiHBG062217.
InParanoidiQ9BQ04.
KOiK13187.
OMAiVYYNDAY.
OrthoDBiEOG7SFJ0M.
PhylomeDBiQ9BQ04.
TreeFamiTF320661.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
4.10.60.10. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00076. RRM_1. 2 hits.
PF00098. zf-CCHC. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
SM00343. ZnF_C2HC. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
PS50158. ZF_CCHC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9BQ04-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVKLFIGNLP REATEQEIRS LFEQYGKVLE CDIIKNYGFV HIEDKTAAED
60 70 80 90 100
AIRNLHHYKL HGVNINVEAS KNKSKASTKL HVGNISPTCT NQELRAKFEE
110 120 130 140 150
YGPVIECDIV KDYAFVHMER AEDAVEAIRG LDNTEFQGKR MHVQLSTSRL
160 170 180 190 200
RTAPGMGDQS GCYRCGKEGH WSKECPVDRT GRVADFTEQY NEQYGAVRTP
210 220 230 240 250
YTMGYGESMY YNDAYGALDY YKRYRVRSYE AVAAAAAASA YNYAEQTMSH
260 270 280 290 300
LPQVQSTTVT SHLNSTSVDP YDRHLLPNSG AAATSAAMAA AAATTSSYYG
310 320 330 340 350
RDRSPLRRAA AMLPTVGEGY GYGPESELSQ ASAATRNSLY DMARYEREQY

VDRARYSAF
Length:359
Mass (Da):40,150
Last modified:June 1, 2001 - v1
Checksum:iC336DF80460BD474
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti93 – 931E → V.1 Publication
VAR_064766

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK095158 mRNA. Translation: BAG52995.1.
CH471076 Genomic DNA. Translation: EAW74558.1.
BC003503 mRNA. Translation: AAH03503.1.
BC004951 mRNA. Translation: AAH04951.1.
CCDSiCCDS8149.1.
RefSeqiNP_001273064.1. NM_001286135.1.
NP_113680.1. NM_031492.3.
XP_011543599.1. XM_011545297.1.
UniGeneiHs.618713.

Genome annotation databases

EnsembliENST00000310046; ENSP00000310471; ENSG00000173914.
ENST00000525754; ENSP00000433071; ENSG00000173914.
GeneIDi83759.
KEGGihsa:83759.
UCSCiuc001oja.5. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK095158 mRNA. Translation: BAG52995.1.
CH471076 Genomic DNA. Translation: EAW74558.1.
BC003503 mRNA. Translation: AAH03503.1.
BC004951 mRNA. Translation: AAH04951.1.
CCDSiCCDS8149.1.
RefSeqiNP_001273064.1. NM_001286135.1.
NP_113680.1. NM_031492.3.
XP_011543599.1. XM_011545297.1.
UniGeneiHs.618713.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2DGTNMR-A75-153[»]
ProteinModelPortaliQ9BQ04.
SMRiQ9BQ04. Positions 1-155.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi123760. 60 interactions.
IntActiQ9BQ04. 10 interactions.
MINTiMINT-1379498.
STRINGi9606.ENSP00000310471.

PTM databases

iPTMnetiQ9BQ04.
PhosphoSiteiQ9BQ04.

Polymorphism and mutation databases

DMDMi62511129.

2D gel databases

SWISS-2DPAGEQ9BQ04.

Proteomic databases

EPDiQ9BQ04.
MaxQBiQ9BQ04.
PaxDbiQ9BQ04.
PeptideAtlasiQ9BQ04.
PRIDEiQ9BQ04.

Protocols and materials databases

DNASUi83759.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000310046; ENSP00000310471; ENSG00000173914.
ENST00000525754; ENSP00000433071; ENSG00000173914.
GeneIDi83759.
KEGGihsa:83759.
UCSCiuc001oja.5. human.

Organism-specific databases

CTDi83759.
GeneCardsiRBM4B.
HGNCiHGNC:28842. RBM4B.
HPAiHPA042174.
HPA047849.
neXtProtiNX_Q9BQ04.
PharmGKBiPA134977404.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0109. Eukaryota.
ENOG41105PP. LUCA.
GeneTreeiENSGT00390000020883.
HOGENOMiHOG000026790.
HOVERGENiHBG062217.
InParanoidiQ9BQ04.
KOiK13187.
OMAiVYYNDAY.
OrthoDBiEOG7SFJ0M.
PhylomeDBiQ9BQ04.
TreeFamiTF320661.

Miscellaneous databases

ChiTaRSiRBM4B. human.
EvolutionaryTraceiQ9BQ04.
GenomeRNAii83759.
PROiQ9BQ04.

Gene expression databases

BgeeiQ9BQ04.
CleanExiHS_RBM4B.
ExpressionAtlasiQ9BQ04. baseline and differential.
GenevisibleiQ9BQ04. HS.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
4.10.60.10. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00076. RRM_1. 2 hits.
PF00098. zf-CCHC. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
SM00343. ZnF_C2HC. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
PS50158. ZF_CCHC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Substantia nigra.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Lymph.
  4. Lubec G., Chen W.-Q., Sun Y.
    Submitted (DEC-2008) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 4-11; 80-95; 98-111; 130-139; 183-198 AND 309-336, IDENTIFICATION BY MASS SPECTROMETRY.
    Tissue: Fetal brain cortex.
  5. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  6. "A novel splicing regulator shares a nuclear import pathway with SR proteins."
    Lai M.-C., Kuo H.-W., Chang W.-C., Tarn W.-Y.
    EMBO J. 22:1359-1369(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH TNPO3, TISSUE SPECIFICITY.
  7. Cited for: SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  8. "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
    Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
    Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  9. "Solution structure of the second RNA binding domain in RNA-binding protein 30."
    RIKEN structural genomics initiative (RSGI)
    Submitted (SEP-2006) to the PDB data bank
    Cited for: STRUCTURE BY NMR OF 69-155.
  10. Cited for: VARIANT VAL-93.

Entry informationi

Entry nameiRBM4B_HUMAN
AccessioniPrimary (citable) accession number: Q9BQ04
Secondary accession number(s): B3KT83
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 12, 2005
Last sequence update: June 1, 2001
Last modified: June 8, 2016
This is version 135 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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 11
    Human chromosome 11: 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.