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(-) Description

Title :  STRUCTURE OF THE EXTENDED DIARRHEA-INDUCING DOMAIN OF ROTAVIRUS ENTEROTOXIGENIC PROTEIN NSP4
 
Authors :  K. Suguna, C. Durga Rao, R. Deepa
Date :  29 Nov 06  (Deposition) - 26 Dec 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Rotavirus Enterotoxin, Non Structural Protein, Nsp4, Tetrameric Coiled Coil, Virulence, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Deepa, C. Durga Rao, K. Suguna
Structure Of The Extended Diarrhea-Inducing Domain Of Rotavirus Enterotoxigenic Protein Nsp4
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NONSTRUCTURAL PROTEIN NSP4
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET22B+
    Expression System Strain: BL21 DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: DIARRHEA-INDUCING DOMAIN (RESIDUES 95-146)
    Gene: G10
    Organism Scientific: ROTAVIRUS STR.
    Organism Taxid: 12578
    Strain: I321

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:123 , GLU B:120 , GLN B:123 , GLN C:123 , GLU D:120 , GLN D:123BINDING SITE FOR RESIDUE CA B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O1J)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O1J)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O1J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O1J)

(-) Exons   (0, 0)

(no "Exon" information available for 2O1J)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   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:44
 aligned with Q9PYC1_9REOV | Q9PYC1 from UniProtKB/TrEMBL  Length:175

    Alignment length:44
                                   104       114       124       134    
         Q9PYC1_9REOV    95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKCIYDKLMVRT 138
               SCOP domains d2o1ja_ A: automated matches                 SCOP domains
               CATH domains 2o1jA00 A:95-138                             CATH domains
               Pfam domains -------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------- PROSITE
                 Transcript -------------------------------------------- Transcript
                 2o1j A  95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKRIYDKLTVRT 138
                                   104       114       124       134    


Chain B from PDB  Type:PROTEIN  Length:43
 aligned with Q9PYC1_9REOV | Q9PYC1 from UniProtKB/TrEMBL  Length:175

    Alignment length:43
                                   104       114       124       134   
         Q9PYC1_9REOV    95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKCIYDKLMVR 137
               SCOP domains d2o1jb_ B: automated matches                SCOP domains
               CATH domains 2o1jB00 B:95-137                            CATH domains
               Pfam domains ------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                 2o1j B  95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKRIYDKLTVR 137
                                   104       114       124       134   


Chain C from PDB  Type:PROTEIN  Length:44
 aligned with Q9PYC1_9REOV | Q9PYC1 from UniProtKB/TrEMBL  Length:175

    Alignment length:44
                                   104       114       124       134    
         Q9PYC1_9REOV    95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKCIYDKLMVRT 138
               SCOP domains d2o1jc_ C: automated matches                 SCOP domains
               CATH domains 2o1jC00 C:95-138                             CATH domains
               Pfam domains -------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------- PROSITE
                 Transcript -------------------------------------------- Transcript
                 2o1j C  95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKRIYDKLTVRT 138
                                   104       114       124       134    


Chain D from PDB  Type:PROTEIN  Length:43
 aligned with Q9PYC1_9REOV | Q9PYC1 from UniProtKB/TrEMBL  Length:175

    Alignment length:43
                                   104       114       124       134   
         Q9PYC1_9REOV    95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKCIYDKLMVR 137
               SCOP domains d2o1jd_ D: automated matches                SCOP domains
               CATH domains 2o1jD00 D:95-137                            CATH domains
           Pfam domains (1) Rota_NSP4-2o1jD01 D:95-137                  Pfam domains (1)
           Pfam domains (2) Rota_NSP4-2o1jD02 D:95-137                  Pfam domains (2)
           Pfam domains (3) Rota_NSP4-2o1jD03 D:95-137                  Pfam domains (3)
           Pfam domains (4) Rota_NSP4-2o1jD04 D:95-137                  Pfam domains (4)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                 2o1j D  95 IETQMDRVVKEMRRQLEMIDKLTTREIEQVELLKRIYDKLTVR 137
                                   104       114       124       134
   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, 4)

Asymmetric/Biological Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Rota_NSP4] (3)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q9PYC1_9REOV | Q9PYC1)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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(-) Related Entries Specified in the PDB File

2o1k NON-STRUCTURAL GLYCOPROTEIN NSP4(SIMILAR PROTEIN)