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(-) Description

Title :  STRUCTURES OF LASSA AND TACARIBE VIRAL NUCLEOPROTEINS WITH OR WITHOUT 5 TRIPHOSPHATE DSRNA SUBSTRATE REVEAL A UNIQUE 3 -5 EXORIBONUCLEASE MECHANISM TO SUPPRESS TYPE I INTERFERON PRODUCTION
 
Authors :  X. Jiang, Q. Huang, W. Wang, H. Dong, H. Ly, Y. Liang, C. Dong
Date :  30 Aug 12  (Deposition) - 01 May 13  (Release) - 10 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Deddh Family Enzyme, 3'-5' Exonuclease, Rna Binding Protein-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Jiang, Q. Huang, W. Wang, H. Dong, H. Ly, Y. Liang, C. Dong
Structures Of Arenaviral Nucleoproteins With Triphosphate Dsrna Reveal A Unique Mechanism Of Immune Suppression.
J. Biol. Chem. V. 288 16949 2013
PubMed-ID: 23615902  |  Reference-DOI: 10.1074/JBC.M112.420521

(-) Compounds

Molecule 1 - RNA (5'-R(*(GTP)P*GP*GP*C)-3')
    Chains: B
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - RNA (5'-R(P*CP*GP*CP*CP*C)-3')
    Chains: C
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - NUCLEOPROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PLOU3
    Expression System Strain: ROSSETTA
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 364-570
    Gene: N
    Organism Common: LASV
    Organism Scientific: LASSA VIRUS
    Organism Taxid: 11622
    Strain: JOSIAH
    Synonym: NUCLEOCAPSID PROTEIN, PROTEIN N

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1GTP1Mod. NucleotideGUANOSINE-5'-TRIPHOSPHATE
2MN1Ligand/IonMANGANESE (II) ION
3ZN1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:399 , CYS A:506 , HIS A:509 , CYS A:529BINDING SITE FOR RESIDUE ZN A 601
2AC2SOFTWAREASP A:389 , HOH A:707 , HOH A:708 , HOH A:739 , G B:10 , C B:11BINDING SITE FOR RESIDUE MN B 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4GV6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4GV6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GV6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GV6)

(-) Exons   (0, 0)

(no "Exon" information available for 4GV6)

(-) 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    
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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:207
                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhh......eeeeeee..eeeeeeee.....eeeeee....hhhhhhhhhhhh...hhhhhh....hhhhhhhhh.....eeee.hhhhhhhhhhhh.....eeee...hhhhhh.hhhhhhhhhhhhh......ee...ee...hhhhhhhhhhhhhhh.......ee..hhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gv6 A 356 GAMDHVEFGLTYSQLMTLKDAMLQLDPNAKTWMDIEGRPEDPVEIALYQPSSGCYIHFFREPTDLKQFKQDAKYSHGIDVTDLFATQPGLTSAVIDALPRNMVITCQGSDDIRKLLESQGRKDIKLIDIALSKTDSRKYENAVWDQYKDLCHMHTGVVVEKEEITPHCALMDCIMFDAAVSGGLNTSVLRAVLPRDMVFRTSPRVVL 569
                                   365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515|      531       541       551       561 ||    
                                                                                                                                                                                         515|                                      563|    
                                                                                                                                                                                          522                                       565    


Chain B from PDB  Type:RNA  Length:4
                                    
                 4gv6 B   8 gGGC  11
                            |   
                            |   
                            8-GTP


Chain C from PDB  Type:RNA  Length:4
                                    
                 4gv6 C   2 GCCC   5
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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  (0, 0)

(no "SCOP Domain" information available for 4GV6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GV6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GV6)

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        NCAP_LASSJ | P13699: 3mwp 3mwt 3mx2 3mx5 3q7b 3q7c 4fvu 4g9z 4gv3 4gv9

(-) Related Entries Specified in the PDB File

3mwp DOMAIN
4g9z SOAKING EXPERIMENT WITH MN2+ FOR 1.5 MIN
4gv3 SOAKING FOR 1.5 MIN