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(-) Description

Title :  TOMATO SPOTTED WILT TOSPOVIRUS NUCLEOCAPSID PROTEIN
 
Authors :  K. Komoda, M. Narita, K. Yamashita, I. Tanaka, M. Yao
Date :  09 Mar 16  (Deposition) - 22 Mar 17  (Release) - 22 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Viral Protein, Nucleocapsid Protein, Bunyavirus, Tospovirus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Komoda, M. Narita, K. Yamashita, I. Tanaka, M. Yao
Crystal Structure Of Tswv Nucleocapsid Protein
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NUCLEOPROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: B834 (DE3) PRARE2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: TSWV
    Organism Scientific: TOMATO SPOTTED WILT VIRUS
    Organism Taxid: 11613
    Synonym: NUCLEOCAPSID PROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 24)

Asymmetric/Biological Unit (1, 24)
No.NameCountTypeFull Name
1MSE24Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 5IP1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5IP1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5IP1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IP1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5IP1)

(-) Exons   (0, 0)

(no "Exon" information available for 5IP1)

(-) 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:246
                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee..hhhhhhhhhhh....ee.........hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.eee..eee............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhh....hhhhhhhhhhh..hhhhhh....hhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ip1 A   2 SKVKLTKENIVALLTQGKDLEFEENQNLVAFNFKTFCLENLDQIKKmSIISCLTFLKNRQSImKVIKQSDFTFGKITIKKTSDRIGATDmTFRRLDSLIRVRLVEETGNSENLNTIKSKIASHPLIQAYGLPLDDAKSVRLAImLGGSLPLIASVDSFEmISVVLAIYQDAKYKDLGIDPKKYDTKEALGKVCTVLKSKAFEmNEDQVKKGKEYAAILSSSNPNAKGSVAmEHYSETLNKFYEmFG 247
                                    11        21        31        41      | 51        61  |     71        81        91       101       111       121       131       141   |   151       161       171       181       191       201  |    211       221       231|      241   |  
                                                                         48-MSE          64-MSE                     91-MSE                                               145-MSE         161-MSE                                    204-MSE                     232-MSE      245-MSE


Chain B from PDB  Type:PROTEIN  Length:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhh...............hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.eee..eee............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhh....hhhhhhhhhhh..hhhhhh....hhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ip1 B   2 SKVKLTKENIVALLTQGKDLEFEENQNLVAFNFKTFCLENLDQIKKmSIISCLTFLKNRQSImKVIKQSDFTFGKITIKKTSDRIGATDmTFRRLDSLIRVRLVEETGNSENLNTIKSKIASHPLIQAYGLPLDDAKSVRLAImLGGSLPLIASVDSFEmISVVLAIYQDAKYKDLGIDPKKYDTKEALGKVCTVLKSKAFEmNEDQVKKGKEYAAILSSSNPNAKGSVAmEHYSETLNKFYEmFGVKKQAKLAELA 258
                                    11        21        31        41      | 51        61  |     71        81        91       101       111       121       131       141   |   151       161       171       181       191       201  |    211       221       231|      241   |   251       
                                                                         48-MSE          64-MSE                     91-MSE                                               145-MSE         161-MSE                                    204-MSE                     232-MSE      245-MSE         


Chain C from PDB  Type:PROTEIN  Length:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..hhhhhhhhhhh....ee.........hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.eee..eee............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhh....hhhhhhhhhhh..hhhhhh....hhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ip1 C   2 SKVKLTKENIVALLTQGKDLEFEENQNLVAFNFKTFCLENLDQIKKmSIISCLTFLKNRQSImKVIKQSDFTFGKITIKKTSDRIGATDmTFRRLDSLIRVRLVEETGNSENLNTIKSKIASHPLIQAYGLPLDDAKSVRLAImLGGSLPLIASVDSFEmISVVLAIYQDAKYKDLGIDPKKYDTKEALGKVCTVLKSKAFEmNEDQVKKGKEYAAILSSSNPNAKGSVAmEHYSETLNKFYEmFGVKKQAKLAELA 258
                                    11        21        31        41      | 51        61  |     71        81        91       101       111       121       131       141   |   151       161       171       181       191       201  |    211       221       231|      241   |   251       
                                                                         48-MSE          64-MSE                     91-MSE                                               145-MSE         161-MSE                                    204-MSE                     232-MSE      245-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 5IP1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IP1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5IP1)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        F4ZD19_TSWV | F4ZD19: 5ip2 5ip3

(-) Related Entries Specified in the PDB File

4ybx 4yby 5ip2 5ip3