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(-) Description

Title :  STRUCTURE OF THE N-TERMINAL RNA-BINDING DOMAIN OF THE SARS COV NUCLEOCAPSID PROTEIN
 
Authors :  Q. Huang, L. Yu, A. M. Petros, A. Gunasekera, Z. Liu, N. Xu, P. Hajduk, J. Mack, S. W. Fesik, E. T. Olejniczak
Date :  24 Mar 04  (Deposition) - 08 Jun 04  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A
Keywords :  Nucleocapsid Protein, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Huang, L. Yu, A. M. Petros, A. Gunasekera, Z. Liu, N. Xu, P. Hajduk, J. Mack, S. W. Fesik, E. T. Olejniczak
Structure Of The N-Terminal Rna-Binding Domain Of The Sars Cov Nucleocapsid Protein.
Biochemistry V. 43 6059 2004
PubMed-ID: 15147189  |  Reference-DOI: 10.1021/BI036155B
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NUCLEOCAPSID PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET21D+
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL DOMAIN
    Gene: N
    Organism Scientific: SARS CORONAVIRUS
    Organism Taxid: 227859
    Strain: SARS
    Synonym: N STRUCTURAL PROTEIN, NC

 Structural Features

(-) Chains, Units

  
NMR Structure : 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1SSK)

(-) Sites  (0, 0)

(no "Site" information available for 1SSK)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 2)

NMR Structure (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_NCAP_CVHSA_001 *T50INCAP_CVHSA  ---  ---AT27I
2UniProtVAR_NCAP_CVHSA_002 *N154YNCAP_CVHSA  ---  ---AN131Y
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SSK)

(-) Exons   (0, 0)

(no "Exon" information available for 1SSK)

(-) 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:158
 aligned with NCAP_CVHSA | P59595 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:164
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177    
           NCAP_CVHSA    18 FGGPTDSTDNNQNGGRNGARPKQRRPQGLPNNTASWFTALTQHGKEELRFPRGQGVPINTNSGPDDQIGYYRRATRRVRGGDGKMKELSPRWYFYYLGTGPEASLPYGANKEGIVWVATEGALNTPKDHIGTRNPNNNAATVLQLPQGTTLPKGFYAEGSRGGS 181
               SCOP domains d1    sska_ A:  Nucleo capsid protein                                                                                                                                SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------Corona_nucleoca-1sskA01 A:22-158                                                                                                          Pfam domains
         Sec.struct. author ..----.........-......-...............eeee.........................eeeeeee................eeeeeee................eeee.....................................ee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------I-------------------------------------------------------------------------------------------------------Y--------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ssk A   1 MG----SSHHHHHHS-SGLVPR-GSAMGLPNNTASWFTALTQHGKEELRFPRGQGVPINTNSGPDDQIGYYRRATRRVRGGDGKMKELSPRWYFYYLGTGPEASLPYGANKEGIVWVATEGALNTPKDHIGTRNPNNNAATVLQLPQGTTLPKGFYAEGSRGGS 158
                             |    |  6    | | 15 | |    24        34        44        54        64        74        84        94       104       114       124       134       144       154    
                             2    3      11 |   17 |                                                                                                                                            
                                           12     18
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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: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: Corona_nucleoca] (4)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A   (NCAP_CVHSA | P59595)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
cellular component
    GO:0044177    host cell Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic host cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack.
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0044172    host cell endoplasmic reticulum-Golgi intermediate compartment    A complex system of membrane-bounded compartments located between host cell endoplasmic reticulum (ER) and the host Golgi complex, with a distinctive membrane protein composition; involved in ER-to-Golgi transport.
    GO:0044220    host cell perinuclear region of cytoplasm    The host cell cytoplasm situated near, or occurring around, the host nucleus.
    GO:0019013    viral nucleocapsid    The complete protein-nucleic acid complex that is the packaged form of the genome in a virus particle.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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 Related Entries

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UniProtKB/Swiss-Prot
        NCAP_CVHSA | P59595: 1x7q 2cjr 2gib 2jw8 2ofz 2og3 3i6l

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