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Protein

Splicing regulator RBM11

Gene

RBM11

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

Functioni

Tissue-specific splicing factor with potential implication in the regulation of alternative splicing during neuron and germ cell differentiation. Antagonizes SRSF1-mediated BCL-X splicing. May affect the choice of alternative 5' splice sites by binding to specific sequences in exons and antagonizing the SR protein SRSF1.1 Publication

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • poly(U) RNA binding Source: MGI
  • protein homodimerization activity Source: MGI

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Splicing regulator RBM11
Alternative name(s):
RNA-binding motif protein 11
Gene namesi
Name:RBM11
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 21

Organism-specific databases

HGNCiHGNC:9897. RBM11.

Subcellular locationi

GO - Cellular componenti

  • nuclear speck Source: MGI
  • nucleoplasm Source: HPA
  • nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA34260.

Polymorphism and mutation databases

BioMutaiRBM11.
DMDMi9978670.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 281281Splicing regulator RBM11PRO_0000081769Add
BLAST

Proteomic databases

PaxDbiP57052.
PRIDEiP57052.

Expressioni

Tissue specificityi

Expressed in brain, hippocampus, prefrontal cortex, cerebellum, spinal cord, testis, mammary gland, spleen and kidney. Also expressed in fetal brain.3 Publications

Gene expression databases

BgeeiP57052.
CleanExiHS_RBM11.
GenevisibleiP57052. HS.

Organism-specific databases

HPAiHPA045885.

Interactioni

Subunit structurei

Homodimer.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
GABPB1Q065473EBI-741332,EBI-618165
QKIQ96PU83EBI-741332,EBI-945792
SNRPCQ5TAL43EBI-741332,EBI-10246938
ZNF774Q6NX453EBI-741332,EBI-10251462

GO - Molecular functioni

  • protein homodimerization activity Source: MGI

Protein-protein interaction databases

BioGridi119845. 16 interactions.
IntActiP57052. 7 interactions.
MINTiMINT-1452231.
STRINGi9606.ENSP00000383421.

Structurei

Secondary structure

1
281
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi8 – 103Combined sources
Beta strandi11 – 155Combined sources
Helixi23 – 308Combined sources
Helixi31 – 333Combined sources
Beta strandi36 – 438Combined sources
Beta strandi49 – 5911Combined sources
Helixi61 – 7010Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2YWKX-ray1.54A1-82[»]
ProteinModelPortaliP57052.
SMRiP57052. Positions 5-82.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP57052.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini10 – 8778RRMPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi245 – 28036Bipartite nuclear localization signalCuratedAdd
BLAST

Sequence similaritiesi

Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG410IY0E. Eukaryota.
ENOG4111UDH. LUCA.
GeneTreeiENSGT00840000129882.
HOGENOMiHOG000146448.
HOVERGENiHBG061506.
InParanoidiP57052.
OMAiKFRKCKK.
OrthoDBiEOG7HB5BD.
PhylomeDBiP57052.
TreeFamiTF323596.

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 (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P57052-1) [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
MFPAQEEADR TVFVGNLEAR VREEILYELF LQAGPLTKVT ICKDREGKPK
60 70 80 90 100
SFGFVCFKHP ESVSYAIALL NGIRLYGRPI NVQYRFGSSR SSEPANQSFE
110 120 130 140 150
SCVKINSHNY RNEEMLVGRS SFPMQYFPIN NTSLPQEYFL FQKMQWHVYN
160 170 180 190 200
PVLQLPYYEM TAPLPNSASV SSSLNHVPDL EAGPSSYKWT HQQPSDSDLY
210 220 230 240 250
QMTAPLPNSA SVSSSLNHVP DLEAGPSSYK WTHQQPSDSD LYQMNKRKRQ
260 270 280
KQTSDSDSST DNNRGNECSQ KFRKSKKKKR Y
Length:281
Mass (Da):32,179
Last modified:December 1, 2000 - v1
Checksum:i0F9478888F6F1D98
GO
Isoform 2 (identifier: P57052-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-86: MFPAQEEADR...GRPINVQYRF → LRPRPEDVPC...GRDSVRAVPS

Note: Incomplete sequence.
Show »
Length:233
Mass (Da):26,465
Checksum:i891A5E9130B95FEC
GO

Sequence cautioni

The sequence AAH30196.2 differs from that shown. Reason: Erroneous initiation. Curated
The sequence AAL82535.1 differs from that shown. Reason: Frameshift at position 33. Curated
The sequence BAC03638.1 differs from that shown. Reason: Frameshift at position 33. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti32 – 321Q → QFLIG in BAC03638 (PubMed:14702039).Curated
Sequence conflicti32 – 321Q → QFLIG in AAL82535 (PubMed:12036298).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti116 – 1161L → V.2 Publications
Corresponds to variant rs409782 [ dbSNP | Ensembl ].
VAR_024621

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 8686MFPAQ…VQYRF → LRPRPEDVPCSGGGRQDRVC WEFRGPSSGRDSVRAVPS in isoform 2. 1 PublicationVSP_027371Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP001660 Genomic DNA. Translation: BAA95545.1.
AK091331 mRNA. Translation: BAC03638.1. Frameshift.
BC030196 mRNA. Translation: AAH30196.2. Different initiation.
AY077695 mRNA. Translation: AAL82535.1. Frameshift.
AF519623 mRNA. Translation: AAM75350.1.
CCDSiCCDS46635.1. [P57052-1]
RefSeqiNP_001307531.1. NM_001320602.1.
NP_658983.3. NM_144770.4. [P57052-1]
XP_011527920.1. XM_011529618.1.
UniGeneiHs.283828.

Genome annotation databases

EnsembliENST00000400577; ENSP00000383421; ENSG00000185272. [P57052-1]
GeneIDi54033.
KEGGihsa:54033.
UCSCiuc002yjo.5. human. [P57052-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP001660 Genomic DNA. Translation: BAA95545.1.
AK091331 mRNA. Translation: BAC03638.1. Frameshift.
BC030196 mRNA. Translation: AAH30196.2. Different initiation.
AY077695 mRNA. Translation: AAL82535.1. Frameshift.
AF519623 mRNA. Translation: AAM75350.1.
CCDSiCCDS46635.1. [P57052-1]
RefSeqiNP_001307531.1. NM_001320602.1.
NP_658983.3. NM_144770.4. [P57052-1]
XP_011527920.1. XM_011529618.1.
UniGeneiHs.283828.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2YWKX-ray1.54A1-82[»]
ProteinModelPortaliP57052.
SMRiP57052. Positions 5-82.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119845. 16 interactions.
IntActiP57052. 7 interactions.
MINTiMINT-1452231.
STRINGi9606.ENSP00000383421.

Polymorphism and mutation databases

BioMutaiRBM11.
DMDMi9978670.

Proteomic databases

PaxDbiP57052.
PRIDEiP57052.

Protocols and materials databases

DNASUi54033.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000400577; ENSP00000383421; ENSG00000185272. [P57052-1]
GeneIDi54033.
KEGGihsa:54033.
UCSCiuc002yjo.5. human. [P57052-1]

Organism-specific databases

CTDi54033.
GeneCardsiRBM11.
HGNCiHGNC:9897. RBM11.
HPAiHPA045885.
neXtProtiNX_P57052.
PharmGKBiPA34260.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IY0E. Eukaryota.
ENOG4111UDH. LUCA.
GeneTreeiENSGT00840000129882.
HOGENOMiHOG000146448.
HOVERGENiHBG061506.
InParanoidiP57052.
OMAiKFRKCKK.
OrthoDBiEOG7HB5BD.
PhylomeDBiP57052.
TreeFamiTF323596.

Miscellaneous databases

ChiTaRSiRBM11. human.
EvolutionaryTraceiP57052.
GeneWikiiRBM11.
GenomeRNAii54033.
NextBioi56316.
PROiP57052.

Gene expression databases

BgeeiP57052.
CleanExiHS_RBM11.
GenevisibleiP57052. 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...

Publicationsi

« Hide 'large scale' publications
  1. "The DNA sequence of human chromosome 21."
    Hattori M., Fujiyama A., Taylor T.D., Watanabe H., Yada T., Park H.-S., Toyoda A., Ishii K., Totoki Y., Choi D.-K., Groner Y., Soeda E., Ohki M., Takagi T., Sakaki Y., Taudien S., Blechschmidt K., Polley A.
    , Menzel U., Delabar J., Kumpf K., Lehmann R., Patterson D., Reichwald K., Rump A., Schillhabel M., Schudy A., Zimmermann W., Rosenthal A., Kudoh J., Shibuya K., Kawasaki K., Asakawa S., Shintani A., Sasaki T., Nagamine K., Mitsuyama S., Antonarakis S.E., Minoshima S., Shimizu N., Nordsiek G., Hornischer K., Brandt P., Scharfe M., Schoen O., Desario A., Reichelt J., Kauer G., Bloecker H., Ramser J., Beck A., Klages S., Hennig S., Riesselmann L., Dagand E., Wehrmeyer S., Borzym K., Gardiner K., Nizetic D., Francis F., Lehrach H., Reinhardt R., Yaspo M.-L.
    Nature 405:311-319(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "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] (ISOFORM 1).
    Tissue: Fetal brain.
  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] (ISOFORM 1).
    Tissue: Brain.
  4. "Annotation of human chromosome 21 for relevance to Down syndrome: gene structure and expression analysis."
    Gardiner K., Slavov D., Bechtel L., Davisson M.
    Genomics 79:833-843(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 9-281 (ISOFORM 1), TISSUE SPECIFICITY, VARIANT VAL-116.
  5. "Juxtacentromeric region of human chromosome 21: a boundary between centromeric heterochromatin and euchromatic chromosome arms."
    Brun M.-E., Ruault M., Ventura M., Roizes G., De Sario A.
    Gene 312:41-50(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY, VARIANT VAL-116.
    Tissue: Hypothalamus.
  6. "The RNA recognition motif protein RBM11 is a novel tissue-specific splicing regulator."
    Pedrotti S., Busa R., Compagnucci C., Sette C.
    Nucleic Acids Res. 40:1021-1032(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, SUBCELLULAR LOCATION, RNA-BINDING, SUBUNIT.
  7. "Crystal structure of RRM-domain derived from human putative RNA-binding protein 11."
    RIKEN structural genomics initiative (RSGI)
    Submitted (FEB-2009) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (1.54 ANGSTROMS) OF 1-82.

Entry informationi

Entry nameiRBM11_HUMAN
AccessioniPrimary (citable) accession number: P57052
Secondary accession number(s): Q6YNC2, Q8NBA1, Q8NFF6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: December 1, 2000
Last modified: May 11, 2016
This is version 127 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, Reference proteome

Documents

  1. Human chromosome 21
    Human chromosome 21: 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.