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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL 2',5'-PHOSPHODIESTERASE DOMAIN OF GROUP A ROTAVIRUS PROTEIN VP3
 
Authors :  T. Brandmann, M. Jinek
Date :  16 Jan 15  (Deposition) - 18 Mar 15  (Release) - 29 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.39
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Hydrolase, Phosphodiesterase, 2-5A, 2H Phosphoesterase, Rnase L, Oligoadenylate Synthase, Innate Immunity, Immune Evasion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Brandmann, M. Jinek
Crystal Structure Of The C-Terminal 2', 5'-Phosphodiesterase Domain Of Group A Rotavirus Protein Vp3.
Proteins V. 83 997 2015
PubMed-ID: 25758703  |  Reference-DOI: 10.1002/PROT.24794

(-) Compounds

Molecule 1 - VP3
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: 1M
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: ROSETTA 2
    Expression System Vector Type: PLASMID
    Fragment: PHOSPHODIESTERASE DOMAIN, RESIDUES 696-835
    Organism Scientific: ROTAVIRUS A
    Organism Taxid: 28875
    Strain: SA11

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
115P1Ligand/IonPOLYETHYLENE GLYCOL (N=34)
2K2Ligand/IonPOTASSIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
115P1Ligand/IonPOLYETHYLENE GLYCOL (N=34)
2K-1Ligand/IonPOTASSIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
115P-1Ligand/IonPOLYETHYLENE GLYCOL (N=34)
2K-1Ligand/IonPOTASSIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
115P-1Ligand/IonPOLYETHYLENE GLYCOL (N=34)
2K-1Ligand/IonPOTASSIUM ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
115P-1Ligand/IonPOLYETHYLENE GLYCOL (N=34)
2K-1Ligand/IonPOTASSIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:775 , TYR A:778 , GLN A:790 , ARG A:792 , MET A:793 , PHE A:794 , K A:1837 , K A:1838 , HOH A:2114 , HOH A:2167 , HOH A:2168 , PHE B:775 , TYR B:778 , GLN B:790 , ARG B:792 , MET B:793 , HOH B:2125 , TYR C:754 , ARG C:809BINDING SITE FOR RESIDUE 15P A1836
2AC2SOFTWARE15P A:1836BINDING SITE FOR RESIDUE K A1837
3AC3SOFTWARE15P A:1836BINDING SITE FOR RESIDUE K A1838

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5AF2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5AF2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5AF2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5AF2)

(-) Exons   (0, 0)

(no "Exon" information available for 5AF2)

(-) Sequences/Alignments

Asymmetric 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:141
                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee............eeeeeeee.hhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeee...hhhhhhhhhhhhhhh..ee........eeeee.......eeeeee..eeeeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5af2 A 695 ADPNYFIGIQFRNIPYKYDVKIPHLTFGVLHISDNMVPDVIDILKIMKNELFKMDITTSYTYMLSDGIYVANVSGVLSTYFKIYNVFYKNQITFGQSRMFIPHITLSFNNMRTVRIETTKLQIKSIYLRKIKGDTVFDMVE 835
                                   704       714       724       734       744       754       764       774       784       794       804       814       824       834 


Chain B from PDB  Type:PROTEIN  Length:141
                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.............eeeeeee.hhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeee...hhhhhhhhhhhhhhh..ee........eeeee.......eeeeee..eeeeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5af2 B 695 ADPNYFIGIQFRNIPYKYDVKIPHLTFGVLHISDNMVPDVIDILKIMKNELFKMDITTSYTYMLSDGIYVANVSGVLSTYFKIYNVFYKNQITFGQSRMFIPHITLSFNNMRTVRIETTKLQIKSIYLRKIKGDTVFDMVE 835
                                   704       714       724       734       744       754       764       774       784       794       804       814       824       834 


Chain C from PDB  Type:PROTEIN  Length:141
                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.............eeeeeee.hhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeee...hhhhhhhhhhhhhhh..ee........eeeee.......eeeeee..eeeeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5af2 C 695 ADPNYFIGIQFRNIPYKYDVKIPHLTFGVLHISDNMVPDVIDILKIMKNELFKMDITTSYTYMLSDGIYVANVSGVLSTYFKIYNVFYKNQITFGQSRMFIPHITLSFNNMRTVRIETTKLQIKSIYLRKIKGDTVFDMVE 835
                                   704       714       724       734       744       754       764       774       784       794       804       814       824       834 


Chain D from PDB  Type:PROTEIN  Length:141
                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.............eeeeeee.hhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeee...hhhhhhhhhhhhhhh..ee........eeeee.......eeeeee..eeeeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5af2 D 695 ADPNYFIGIQFRNIPYKYDVKIPHLTFGVLHISDNMVPDVIDILKIMKNELFKMDITTSYTYMLSDGIYVANVSGVLSTYFKIYNVFYKNQITFGQSRMFIPHITLSFNNMRTVRIETTKLQIKSIYLRKIKGDTVFDMVE 835
                                   704       714       724       734       744       754       764       774       784       794       804       814       824       834
   Legend:   → Mismatch (orange background)
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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 5AF2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5AF2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5AF2)

(-) Gene Ontology  (17, 32)

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