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(-) Description

Title :  SOLUTION STRUCTURE OF SURP DOMAIN IN BAB30904
 
Authors :  F. He, Y. Muto, R. Ushikoshi, S. Koshiba, M. Shirouzu, T. Terada, T. Kigawa, M. Inoue, T. Yabuki, M. Aoki, E. Seki, T. Matsuda, H. Hirota, M. Yoshida, N. Kobayashi, A. Tanaka, T. Osanai, Y. Matsuo, Y. Hayashizaki, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  11 Jun 03  (Deposition) - 03 Aug 04  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Nmr, Surp Domain, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. He, Y. Muto, R. Ushikoshi, S. Koshiba, M. Shirouzu, T. Terada, T. Kigawa, M. Inoue, T. Yabuki, M. Aoki, E. Seki, T. Matsuda, H. Hirota, M. Yoshida, N. Kobayashi, A. Tanaka, T. Osanai, Y. Matsuo, Y. Hayashizaki, S. Yokoyama
Solution Structure Of Surp Domain In Bab30904
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SPLICING FACTOR 4
    Chains: A
    Engineered: YES
    Expression System Plasmid: P020924-06
    Expression System Vector Type: PLASMID
    Fragment: SURP DOMAIN
    Gene: RIKEN CDNA 5730496N02
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    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 1UG0)

(-) Sites  (0, 0)

(no "Site" information available for 1UG0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UG0)

(-) Cis Peptide Bonds  (1, 20)

NMR Structure
No.ModelResidues
11, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20Ser A:20 -Pro A:21

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1UG0)

(-) PROSITE Motifs  (1, 2)

NMR Structure (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SURPPS50128 SURP motif repeat profile.SUGP1_MOUSE187-229
262-305		  2A:30-72
A:84-88

(-) Exons   (0, 0)

(no "Exon" information available for 1UG0)

(-) 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:88
 aligned with SUGP1_MOUSE | Q8CH02 from UniProtKB/Swiss-Prot  Length:643

    Alignment length:171
                                   140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300 
          SUGP1_MOUSE   131 GLSSPTGPVKNYSHAKQLPVAHRPSVFQSPDDDEEEDYEQWLEIKVSPPEGAETRRVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRKVAEIRKEAQKPQAATQKVSPPEDEEAKNLAEKLARFIADGGPEVETIALQNNRENQAFSFLYDPNSQG 301
               SCOP domains d1ug0a_                            A: Splicing factor 4                                                                                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----------------------------------------------------Surp-1ug0A01 A:27-81                                   --------------------------------------------------------------- Pfam domains
         Sec.struct. author .......---------------------------..hhhhhh.........hhhhhhhhhhhhhhhhh.hhhhhhhhhh.......hhhh....hhhhhhhhhhhhhhh.---------------------------------..-----------------------... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------SURP  PDB: A:30-72 UniProt: 187-229        --------------------------------SURP  PDB: A:84-88 UniProt: 262-305      PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ug0 A   1 GSSGSSG---------------------------EEDYEQWLEIKVSPPEGAETRRVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRKVAEIRKS---------------------------------GP-----------------------SSG  88
                                  |  -         -         -    |   13        23        33        43        53        63        73        83         -         -         -   ||    -         -        87 
                                  7                           8                                                                         83                                84|                      86  
                                                                                                                                                                           85
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1UG0)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: Surp] (3)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A   (SUGP1_MOUSE | Q8CH02)
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.
biological process
    GO:0006396    RNA processing    Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
    GO:0008380    RNA splicing    The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.
    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: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.
    GO:0005681    spliceosomal complex    Any of a series of ribonucleoprotein complexes that contain snRNA(s) and small nuclear ribonucleoproteins (snRNPs), and are formed sequentially during the spliceosomal splicing of one or more substrate RNAs, and which also contain the RNA substrate(s) from the initial target RNAs of splicing, the splicing intermediate RNA(s), to the final RNA products. During cis-splicing, the initial target RNA is a single, contiguous RNA transcript, whether mRNA, snoRNA, etc., and the released products are a spliced RNA and an excised intron, generally as a lariat structure. During trans-splicing, there are two initial substrate RNAs, the spliced leader RNA and a pre-mRNA.

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    Ser A:20 - Pro A:21   [ RasMol ]  
 

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  1ug0
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        SUGP1_MOUSE | Q8CH02: 1x4o

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