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(-) Description

Title :  SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN NP_006038
 
Authors :  T. Someya, Y. Muto, T. Nagata, S. Suzuki, M. Inoue, T. Kigawa, T. Terada, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  25 May 04  (Deposition) - 23 Aug 05  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Rna Binding Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Someya, Y. Muto, T. Nagata, S. Suzuki, M. Inoue, T. Kigawa, T. Terada, M. Shirouzu, S. Yokoyama
Solution Structure Of Rna Binding Domain In Np_006038
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: P040126-04
    Expression System Vector Type: PLASMID
    Fragment: RNA BINDING DOMAIN
    Gene: RIKEN CDNA HK04803S1
    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 1WEL)

(-) Sites  (0, 0)

(no "Site" information available for 1WEL)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1WEL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1WEL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1WEL)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RRMPS50102 Eukaryotic RNA Recognition Motif (RRM) profile.RBM12_HUMAN304-379
430-507
856-932		  1-
A:430-507
-

(-) 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:405-528 (gaps)271

(-) 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:124
 aligned with RBM12_HUMAN | Q9NTZ6 from UniProtKB/Swiss-Prot  Length:932

    Alignment length:271
                                   405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665 
          RBM12_HUMAN   396 GPSGQTHPPPQTLPRSKSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQNFSYDQREMILNPEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKKGLKMPVPGNPAVPGMPNAGLPGVGLPSAG 666
               SCOP domains ----------------d1wela1 A:412-523 RNA-binding protein 12                                                                                                                                  ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------RRM_6-1welA01 A:432-501                                               --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......---------....................eeeee......hhhhhhhhh..........eeee.....eeeeeeee...hhhhhhhhh...eee..eeeeeeeehhhhhhhhhhhhhhhhh----------------------------------------------------------..--------------------------------------------------------------------------------.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------RRM  PDB: A:430-507 UniProt: 430-507                                          --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.3f  PDB: A:405-528 (gaps) UniProt: 1-940 [INCOMPLETE]                                                                                                                                                                                                                    Transcript 1
                 1wel A 405 GSSGSS---------GKSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQ----------------------------------------------------------SG--------------------------------------------------------------------------------PSSG 528
                                 |   -     | 415       425       435       445       455       465       475       485       495       505       515      |  -         -         -         -         -         -     ||  -         -         -         -         -         -         -         -       527 
                               410       411                                                                                                            522                                                        523|                                                                              525   
                                                                                                                                                                                                                    524
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 1WEL)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: RRM (206)

(-) 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: 2cpy 2dnn 2ek1 2ek6

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