Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.

P0DJD3

- RBY1A_HUMAN

UniProt

P0DJD3 - RBY1A_HUMAN

(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Protein

RNA-binding motif protein, Y chromosome, family 1 member A1

Gene

RBMY1A1

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

Functioni

RNA-binding protein involved in pre-mRNA splicing. Required for sperm development. Acts additively with TRA2B to promote exon 7 inclusion of the survival motor neuron SMN. Binds non-specifically to mRNAs.2 Publications

GO - Molecular functioni

  1. mRNA binding Source: UniProtKB
  2. nucleotide binding Source: InterPro

GO - Biological processi

  1. mRNA processing Source: UniProtKB-KW
  2. regulation of alternative mRNA splicing, via spliceosome Source: UniProtKB
  3. RNA splicing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding motif protein, Y chromosome, family 1 member A1
Alternative name(s):
RNA-binding motif protein 1
RNA-binding motif protein 2
Y chromosome RNA recognition motif 1
Short name:
hRBMY
Gene namesi
Name:RBMY1A1
Synonyms:RBM1, RBM2, YRRM1, YRRM2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome Y

Organism-specific databases

HGNCiHGNC:9912. RBMY1A1.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. nucleus Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

Orphaneti1646. Partial chromosome Y deletion.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 496496RNA-binding motif protein, Y chromosome, family 1 member A1PRO_0000081899Add
BLAST

Proteomic databases

PRIDEiP0DJD3.

Expressioni

Tissue specificityi

Testis-specific.1 Publication

Developmental stagei

Expressed in all of the transcriptionally active stages of germ cell development from spermatogonia through spermatocytes to round spermatids.1 Publication

Gene expression databases

BgeeiP0DJD3.
CleanExiHS_RBMY1A1.

Organism-specific databases

HPAiHPA001534.

Interactioni

Subunit structurei

Interacts with splicing factor proteins SFRS3/SRP20, TRA2B/SFRS10, KHDRBS1/SAM68 and KHDRBS3.5 Publications

Protein-protein interaction databases

IntActiP0DJD3. 1 interaction.

Structurei

Secondary structure

1
496
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi9 – 135Combined sources
Turni16 – 183Combined sources
Helixi21 – 299Combined sources
Beta strandi35 – 406Combined sources
Turni43 – 453Combined sources
Beta strandi50 – 545Combined sources
Helixi58 – 6710Combined sources
Beta strandi74 – 774Combined sources
Beta strandi79 – 824Combined sources
Beta strandi89 – 935Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2FY1NMR-A1-109[»]
ProteinModelPortaliP0DJD3.
SMRiP0DJD3. Positions 1-108.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini8 – 8578RRMPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi254 – 34087Arg-richAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

GeneTreeiENSGT00710000106295.
InParanoidiP0DJD3.
OrthoDBiEOG780RPD.
PhylomeDBiP0DJD3.
TreeFamiTF331833.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR012604. RBM1CTR.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF08081. RBM1CTR. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: P0DJD3-1) [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
MVEADHPGKL FIGGLNRETN EKMLKAVFGK HGPISEVLLI KDRTSKSRGF
60 70 80 90 100
AFITFENPAD AKNAAKDMNG KSLHGKAIKV EQAKKPSFQS GGRRRPPASS
110 120 130 140 150
RNRSPSGSLR SARGSRGGTR GWLPSHEGHL DDGGYTPDLK MSYSRGLIPV
160 170 180 190 200
KRGPSSRSGG PPPKKSAPSA VARSNSWMGS QGPMSQRREN YGVPPRRATI
210 220 230 240 250
SSWRNDRMST RHDGYATNDG NHPSCQETRD YAPPSRGYAY RDNGHSNRDE
260 270 280 290 300
HSSRGYRNHR SSRETRDYAP PSRGHAYRDY GHSRRDESYS RGYRNRRSSR
310 320 330 340 350
ETREYAPPSR GHGYRDYGHS RRHESYSRGY RNHPSSRETR DYAPPHRDYA
360 370 380 390 400
YRDYGHSSWD EHSSRGYSYH DGYGEALGRD HSEHLSGSSY RDALQRYGTS
410 420 430 440 450
HGAPPARGPR MSYGGSTCHA YSNTRDRYGR SWESYSSCGD FHYCDREHVC
460 470 480 490
RKDQRNPPSL GRVLPDPREA CGSSSYVASI VDGGESRSEK GDSSRY
Length:496
Mass (Da):55,784
Last modified:February 22, 2012 - v1
Checksum:i3E493C52C7BA9E7E
GO
Isoform 2 (identifier: P0DJD3-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     327-363: Missing.

Show »
Length:459
Mass (Da):51,292
Checksum:iF3C0267BBEF99E55
GO
Isoform 3 (identifier: P0DJD3-3) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-140: Missing.

Show »
Length:356
Mass (Da):40,651
Checksum:i96D4EAB0E82A3C1C
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 140140Missing in isoform 3. 1 PublicationVSP_042315Add
BLAST
Alternative sequencei327 – 36337Missing in isoform 2. 1 PublicationVSP_042316Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X76059 mRNA. Translation: CAA53659.1.
BC047768 mRNA. Translation: AAH47768.1.
BC070298 mRNA. Translation: AAH70298.1.
AC010141 Genomic DNA. No translation available.
CCDSiCCDS14796.1. [P0DJD3-1]
PIRiA49418.
RefSeqiNP_005049.1. NM_005058.2. [P0DJD3-1]
XP_005262573.1. XM_005262516.1. [P0DJD3-2]
UniGeneiHs.380450.

Genome annotation databases

EnsembliENST00000303902; ENSP00000303712; ENSG00000234414. [P0DJD3-2]
ENST00000382707; ENSP00000372154; ENSG00000234414. [P0DJD3-1]
ENST00000439108; ENSP00000388006; ENSG00000234414. [P0DJD3-1]
ENST00000624020; ENSP00000485190; ENSG00000279934. [P0DJD3-1]
GeneIDi5940.
KEGGihsa:5940.
UCSCiuc004fur.4. human. [P0DJD3-1]
uc010nxa.3. human. [P0DJD3-2]

Polymorphism databases

DMDMi378522864.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X76059 mRNA. Translation: CAA53659.1 .
BC047768 mRNA. Translation: AAH47768.1 .
BC070298 mRNA. Translation: AAH70298.1 .
AC010141 Genomic DNA. No translation available.
CCDSi CCDS14796.1. [P0DJD3-1 ]
PIRi A49418.
RefSeqi NP_005049.1. NM_005058.2. [P0DJD3-1 ]
XP_005262573.1. XM_005262516.1. [P0DJD3-2 ]
UniGenei Hs.380450.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2FY1 NMR - A 1-109 [» ]
ProteinModelPortali P0DJD3.
SMRi P0DJD3. Positions 1-108.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi P0DJD3. 1 interaction.

Polymorphism databases

DMDMi 378522864.

Proteomic databases

PRIDEi P0DJD3.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000303902 ; ENSP00000303712 ; ENSG00000234414 . [P0DJD3-2 ]
ENST00000382707 ; ENSP00000372154 ; ENSG00000234414 . [P0DJD3-1 ]
ENST00000439108 ; ENSP00000388006 ; ENSG00000234414 . [P0DJD3-1 ]
ENST00000624020 ; ENSP00000485190 ; ENSG00000279934 . [P0DJD3-1 ]
GeneIDi 5940.
KEGGi hsa:5940.
UCSCi uc004fur.4. human. [P0DJD3-1 ]
uc010nxa.3. human. [P0DJD3-2 ]

Organism-specific databases

CTDi 5940.
GeneCardsi GC0YP023680.
GeneReviewsi RBMY1A1.
HGNCi HGNC:9912. RBMY1A1.
HPAi HPA001534.
MIMi 400006. gene.
neXtProti NX_P0DJD3.
Orphaneti 1646. Partial chromosome Y deletion.
GenAtlasi Search...

Phylogenomic databases

GeneTreei ENSGT00710000106295.
InParanoidi P0DJD3.
OrthoDBi EOG780RPD.
PhylomeDBi P0DJD3.
TreeFami TF331833.

Miscellaneous databases

GenomeRNAii 5940.
NextBioi 23158.
PROi P0DJD3.
SOURCEi Search...

Gene expression databases

Bgeei P0DJD3.
CleanExi HS_RBMY1A1.

Family and domain databases

Gene3Di 3.30.70.330. 1 hit.
InterProi IPR012677. Nucleotide-bd_a/b_plait.
IPR012604. RBM1CTR.
IPR000504. RRM_dom.
[Graphical view ]
Pfami PF08081. RBM1CTR. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view ]
SMARTi SM00360. RRM. 1 hit.
[Graphical view ]
PROSITEi PS50102. RRM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "A Y chromosome gene family with RNA-binding protein homology: candidates for the azoospermia factor AZF controlling human spermatogenesis."
    Ma K., Inglis J.D., Sharkey A., Bickmore W.A., Hill R.E., Prosser E.J., Speedson R.M., Thomson E.J., Jobling M.
    Cell 75:1287-1295(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY.
    Tissue: Testis.
  2. "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] (ISOFORMS 2 AND 3).
    Tissue: Brain and Testis.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "Structure and organization of the RBMY genes on the human Y chromosome: transposition and amplification of an ancestral autosomal hnRNPG gene."
    Chai N.-N., Zhou H., Hernandez J., Najmabadi H., Bhasin S., Yen P.H.
    Genomics 49:283-289(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION.
  5. "Expression of RBM in the nuclei of human germ cells is dependent on a critical region of the Y chromosome long arm."
    Elliott D.J., Millar M.R., Oghene K., Ross A., Kiesewetter F., Pryor J., McIntyre M., Hargreave T.B., Saunders P.T.K., Vogt P.H., Chandley A.C., Cooke H.
    Proc. Natl. Acad. Sci. U.S.A. 94:3848-3853(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE.
  6. "T-STAR/ETOILE: a novel relative of SAM68 that interacts with an RNA-binding protein implicated in spermatogenesis."
    Venables J.P., Vernet C., Chew S.L., Elliott D.J., Cowmeadow R.B., Wu J., Cooke H.J., Artzt K., Eperon I.C.
    Hum. Mol. Genet. 8:959-969(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH KHDRBS3.
  7. "RBMY, a probable human spermatogenesis factor, and other hnRNP G proteins interact with Tra2beta and affect splicing."
    Venables J.P., Elliott D.J., Makarova O.V., Makarov E.M., Cooke H.J., Eperon E.C.
    Hum. Mol. Genet. 9:685-694(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH TRA2B.
    Tissue: Testis.
  8. "hnRNP-G promotes exon 7 inclusion of survival motor neuron (SMN) via direct interaction with Htra2-beta1."
    Hofmann Y., Wirth B.
    Hum. Mol. Genet. 11:2037-2049(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH TRA2B, RNA-BINDING.
  9. "The role of potential splicing factors including RBMY, RBMX, hnRNPG-T and STAR proteins in spermatogenesis."
    Elliott D.J.
    Int. J. Androl. 27:328-334(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH KHDRBS1.
  10. "The testis-specific human protein RBMY recognizes RNA through a novel mode of interaction."
    Skrisovska L., Bourgeois C.F., Stefl R., Grellscheid S.-N., Kister L., Wenter P., Elliott D.J., Stevenin J., Allain F.H.-T.
    EMBO Rep. 8:372-379(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 1-109 IN COMPLEX WITH RNA.

Entry informationi

Entry nameiRBY1A_HUMAN
AccessioniPrimary (citable) accession number: P0DJD3
Secondary accession number(s): Q15376
, Q15377, Q15414, Q6NSB5, Q86VU6, Q8NHR0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 22, 2012
Last sequence update: February 22, 2012
Last modified: November 26, 2014
This is version 27 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

Miscellaneous

The RBMY1 proteins are encoded by repeated regions of the Y chromosome, mostly within the AZFb region. The exact number of functional copies is unclear and may vary between individuals, and some of them may represent pseudogenes. The proteins are very similar, which makes the characterization of each protein difficult. Thus, most experiments do not discriminate between the different members. One can therefore suppose that reported interactions with a RBMY1 protein involve all the proteins.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome Y
    Human chromosome Y: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3