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(-) Description

Title :  SOLUTION STRUCTURE OF RNA BINDING DOMAIN 3 IN RNA BINDING MOTIF PROTEIN 12
 
Authors :  K. Tsuda, Y. Muto, M. Inoue, T. Kigawa, T. Terada, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  19 May 05  (Deposition) - 19 Nov 05  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Rrm Domain, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tsuda, Y. Muto, M. Inoue, T. Kigawa, T. Terada, M. Shirouzu, S. Yokoyama
Solution Structure Of Rna Binding Domain 3 In Rna Binding Motif Protein 12
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA-BINDING PROTEIN 12
    Chains: A
    Engineered: YES
    Expression System Plasmid: P040719-13
    Expression System Vector Type: PLASMID
    Fragment: RNA RECOGNITION MOTIF
    Gene: RBM12
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: CELL-FREE PROTEIN SYNTHESIS
    Synonym: RNA BINDING MOTIF PROTEIN 12, SH3/WW DOMAIN ANCHOR PROTEIN IN THE NUCLEUS, SWAN, HRIHFB2091

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2CPY)

(-) Sites  (0, 0)

(no "Site" information available for 2CPY)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CPY)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2CPY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_052217N572SRBM12_HUMANPolymorphism17092928AN572S
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CPY)

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1cENST000003741141cENSE00002160337chr20:34252838-34252682157RBM12_HUMAN-00--
1.2aENST000003741142aENSE00002144940chr20:34246936-3424685285RBM12_HUMAN-00--
1.3fENST000003741143fENSE00001462525chr20:34243266-342368476420RBM12_HUMAN1-9409401A:529-642 (gaps)202

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:114
 aligned with RBM12_HUMAN | Q9NTZ6 from UniProtKB/Swiss-Prot  Length:932

    Alignment length:202
                                   474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664  
          RBM12_HUMAN   465 GPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQNFSYDQREMILNPEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKKGLKMPVPGNPAVPGMPNAGLPGVGLPSAG 666
               SCOP domains --------d                                                               2cpya1 A:536-638 RNA-binding protein 12                                                               ---------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....-....---------------------------------------------------------------........eeeee......hhhhhhhhh.........eee...........eeee..hhhhhhhhhhhh.eee..eeeeeeeehhhhhhhhhhh........------------------------.... Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------S---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.3f  PDB: A:529-642 (gaps) UniProt: 1-940 [INCOMPLETE]                                                                                                                                               Transcript 1
                 2cpy A 529 GSSG-SSGE---------------------------------------------------------------GDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKSG------------------------PSSG 642
                               | |  |-         -         -         -         -         -         -  |    544       554       564       574       584       594       604       614       624       634   |     -         -       640  
                             532 |  |                                                             537                                                                                                  638                      639   
                               533  |                                                                                                                                                                                                 
                                  536
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2CPY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CPY)

(-) Gene Ontology  (5, 5)

NMR Structure(hide GO term definitions)
Chain A   (RBM12_HUMAN | Q9NTZ6)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
cellular component
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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        RBM12_HUMAN | Q9NTZ6: 1wel 2dnn 2ek1 2ek6

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