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(-) Description

Title :  LASSA NUCLEOPROTEIN C-TERMINAL DOMAIN IN COMPLEX WITH TRIPHOSPHATED DSRNA SOAKING FOR 5 MIN
 
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 :  2.46
Chains :  Asym./Biol. Unit :  A,E,F
Keywords :  Deddh Family Enzyme, 3'-5' Exonuclease, Dsrna, 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: E
    Engineered: YES
    Fragment: UNP RESIDUES 364-569
    Other Details: TRIPHOSPHATED DSRNA
    Synthetic: YES
 
Molecule 2 - RNA (5'-R(P*CP*GP*CP*CP*C)-3')
    Chains: F
    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
    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 : AEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1GTP1Mod. NucleotideGUANOSINE-5'-TRIPHOSPHATE
2MN3Ligand/IonMANGANESE (II) ION
3ZN1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:389 , G E:10 , C E:11 , MN E:103BINDING SITE FOR RESIDUE MN E 101
2AC2SOFTWAREG E:9 , C F:1BINDING SITE FOR RESIDUE MN E 102
3AC3SOFTWAREASP A:389 , GLU A:391 , ASP A:533 , C E:11 , MN E:101BINDING SITE FOR RESIDUE MN E 103
4AC4SOFTWAREGLU A:399 , CYS A:506 , HIS A:509 , CYS A:529BINDING SITE FOR RESIDUE ZN A 601

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4GV9)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Arg A:566 -Val A:567

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GV9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GV9)

(-) Exons   (0, 0)

(no "Exon" information available for 4GV9)

(-) 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:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh......eeeeeee..eeeeeeee.....eeeeee....hhhhhhhhhhhh...hhhhhh....hhhhhhhhhh....eeee.hhhhhhhhhhhh.....eeee...hhhhhh.hhhhhhhhhhhhh......ee...ee...hhhhhhhhhhhhhhh.......ee..hhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gv9 A 363 FGLTYSQLMTLKDAMLQLDPNAKTWMDIEGRPEDPVEIALYQPSSGCYIHFFREPTDLKQFKQDAKYSHGIDVTDLFATQPGLTSAVIDALPRNMVITCQGSDDIRKLLESQGRKDIKLIDIALSKTDSRKYENAVWDQYKDLCHMHTGVVVEKEEITPHCALMDCIMFDAAVSGGLNTSVLRAVLPRDMVFRPRVVL 569
                                   372       382       392       402       412       422       432       442       452       462       472       482       492       502       512  ||   528       538       548       558  ||    
                                                                                                                                                                                  515|                                    561|    
                                                                                                                                                                                   522                                     565    


Chain E from PDB  Type:RNA  Length:4
                                    
                 4gv9 E   8 gGGC  11
                            |   
                            |   
                            8-GTP


Chain F from PDB  Type:RNA  Length:5
                                     
                 4gv9 F   1 CGCCC   5
   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  (0, 0)

(no "SCOP Domain" information available for 4GV9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GV9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GV9)

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:566 - Val A:567   [ RasMol ]  
 

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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 4gv6

(-) Related Entries Specified in the PDB File

3mwp DOMAIN
4gv3 SOAKING WITH MN2+ FOR 1.5 MIN
4gv6 SOAKING WITH MN2+ FOR 1 MIN