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(-) Description

Title :  SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN RNA BINDING MOTIF PROTEIN 23
 
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 In Rna Binding Motif Protein 23
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA BINDING MOTIF PROTEIN 23
    Chains: A
    Engineered: YES
    Expression System Plasmid: P050131-08
    Expression System Vector Type: PLASMID
    Fragment: RNA RECOGNITION MOTIF
    Gene: RBM23
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: CELL-FREE PROTEIN SYNTHESIS

 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 2CQ4)

(-) Sites  (0, 0)

(no "Site" information available for 2CQ4)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CQ4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2CQ4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_052221D184NRBM23_HUMANPolymorphism34246954AD168N
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 2)

NMR Structure (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RRMPS50102 Eukaryotic RNA Recognition Motif (RRM) profile.RBM23_HUMAN263-341
166-243		  2A:234-238
A:150-227

(-) Exons   (6, 6)

NMR Structure (6, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003598901ENSE00001423747chr14:23388396-23388208189RBM23_HUMAN-00--
1.2ENST000003598902ENSE00002198998chr14:23380612-2338053776RBM23_HUMAN1-22220--
1.3ENST000003598903ENSE00001759900chr14:23378804-23378692113RBM23_HUMAN23-60381A:125-130 (gaps)8
1.4ENST000003598904ENSE00001688900chr14:23377589-2337754248RBM23_HUMAN60-76170--
1.5bENST000003598905bENSE00001149981chr14:23375577-23375404174RBM23_HUMAN76-134590--
1.6ENST000003598906ENSE00001149977chr14:23374868-2337481554RBM23_HUMAN134-152191A:132-1365
1.7ENST000003598907ENSE00000653785chr14:23374662-23374545118RBM23_HUMAN152-191401A:136-17540
1.8ENST000003598908ENSE00001149963chr14:23374455-23374303153RBM23_HUMAN192-242511A:176-22651
1.9ENST000003598909ENSE00001099497chr14:23374221-23374084138RBM23_HUMAN243-288461A:227-2337
1.10ENST0000035989010ENSE00001099492chr14:23373535-2337347066RBM23_HUMAN289-310221A:234-2385
1.12ENST0000035989012ENSE00001099495chr14:23371591-23371396196RBM23_HUMAN311-376660--
1.13ENST0000035989013ENSE00001099490chr14:23371308-23371189120RBM23_HUMAN376-416410--
1.14ENST0000035989014ENSE00001432222chr14:23371092-2337102370RBM23_HUMAN416-439240--
1.15ENST0000035989015ENSE00001413847chr14:23370942-233698551088RBM23_HUMAN439-43910--

(-) 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 RBM23_HUMAN | Q86U06 from UniProtKB/Swiss-Prot  Length:439

    Alignment length:260
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305
          RBM23_HUMAN    46 GNETSGSSTIGETSKKKRSRSHNKSRDRKRSRSRDRDRYRRRNSRSRSPGRQCRHRSRSWDRRHGSESRSRDHRREDRVHYRSPPLATGYRYGHSKSPHFREKSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQAEKNRLAAMANNLQKGNGGPMRLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKG 305
               SCOP domains ------------------------------------------------------------------------------------------------------d2cq4a1 A:132-232 RNA binding protein 23                                                             --------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .--.....--------------------------------------------------------.-------------------------------------.............hhhhhheeeee......hhhhhhhhhh....eeeeee............eeeee.hhhhhhhhhhhh.eee..eeeeeeehhhhhhhhh---------------------------------------------------..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------N------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------RRM  PDB: A:150-227 UniProt: 166-243                                          -------------------RRM  PDB: A:234-238 UniProt: 263-341        PROSITE
           Transcript 1 (1) Exon 1.3       ---------------Exon 1.5b  PDB: - UniProt: 76-134                          -----------------Exon 1.7  PDB: A:136-175                Exon 1.8  PDB: A:176-226 UniProt: 192-242          Exon 1.9  PDB: A:227-233 UniProt: 243-288     Exon 1.10         Transcript 1 (1)
           Transcript 1 (2) --------------Exon 1.4  PDB: - ---------------------------------------------------------Exon 1.6           --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2cq4 A 125 G--SSGSS--------------------------------------------------------G-------------------------------------KSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQAEKNRLS---------------------------------------------------GPSSG 238
                            |  |   | -         -         -         -         -         -    |    -         -         -         -  |    139       149       159       169       179       189       199       209       219       229   |     -         -         -         -         -     | 238
                            |  | 130                                                      131                                   132                                                                                                  233                                                 234    
                          125  |                                                                                                                                                                                                                                                                
                             126
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 2CQ4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CQ4)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A   (RBM23_HUMAN | Q86U06)
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.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0006397    mRNA processing    Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    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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 Related Entries

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        RBM23_HUMAN | Q86U06: 2dnz

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