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(-) Description

Title :  STRUCTURE OF VARICELLA-ZOSTER VIRUS PROTEASE
 
Authors :  X. Qiu, C. A. Jason, J. S. Culp, S. B. Richardson, C. Debouck, W. W. Smith, S. S. Abdel-Meguid
Date :  10 Feb 97  (Deposition) - 16 Sep 98  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Hydrolase, Serine Protease, Viral Protease, Varicella-Zoster Virus, Coat Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Qiu, C. A. Janson, J. S. Culp, S. B. Richardson, C. Debouck, W. W. Smith, S. S. Abdel-Meguid
Crystal Structure Of Varicella-Zoster Virus Protease.
Proc. Natl. Acad. Sci. Usa V. 94 2874 1997
PubMed-ID: 9096314  |  Reference-DOI: 10.1073/PNAS.94.7.2874
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VARICELLA-ZOSTER VIRUS PROTEASE
    Chains: A
    EC Number: 3.4.21.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 10 - 236
    Mutation: YES
    Organism Common: VARICELLA-ZOSTER VIRUS
    Organism Scientific: HUMAN HERPESVIRUS 3
    Organism Taxid: 10335
    Strain: ACYCLOVIR-RESISTANT STRAIN 40A2
    Synonym: ASSEMBLIN

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1CATUNKNOWNSER A:120 , HIS A:52 , HIS A:139CATALYTIC TRIAD

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu A:40 -Pro A:41

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1VZV)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1VZV)

(-) 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:211
 aligned with SCAF_VZVD | P09286 from UniProtKB/Swiss-Prot  Length:605

    Alignment length:221
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230 
            SCAF_VZVD    11 EALYVAGYLALYSKDEGELNITPEIVRSALPPTSKIPINIDHRKDCVVGEVIAIIEDIRGPFFLGIVRCPQLHAVLFEAAHSNFFGNRDSVLSPLERALYLVTNYLPSVSLSSKRLSPNEIPDGNFFTHVALCVVGRRVGTVVNYDCTPESSIEPFRVLSMESKARLLSLVKDYAGLNKVWKVSEDKLAKVLLSTAVNNMLLRDRWDVVAKRRREAGIMGH 231
               SCOP domains d1vzva_ A: VZV protease                                                                                                                                                                                                       SCOP domains
               CATH domains 1vzvA00 A:11-231 Serine Protease, Human Cytomegalovirus Protease; Chain A                                                                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.............hhhhhhh.......eeee.....eeeeeeeeeeee..eeeeeeee..hhhhhhhhhh.......hhhh.....hhhhhhhhhh..eeeeee...----------.eeeeeee......eeeeeee.hhhh........hhhhhhhhhhhhh...........hhhhhhhhhhhhh.......hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vzv A  11 EALYVAGYLALYSKDEGELNITPEIVRSALPPTSKIPINIDHRKDCVVGEVIAIIEDIRGPFFLGIVRCPQLHAVLFEAAHSNFFGNRDSVLSPLERALYLVTNYLPSVSLSSKRL----------FTHVALCVVGRRVGTVVNYDCTPESSIEPFRVLSMESKARLLSLVKDYAGLNKVWKVSEDKLAKVLLSTAVNNMLLRDRWDVVAKRRREAGIMGH 231
                                    20        30        40        50        60        70        80        90       100       110       120     |   -      |140       150       160       170       180       190       200       210       220       230 
                                                                                                                                             126        137
   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  (1, 1)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1VZV)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (SCAF_VZVD | P09286)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0039708    nuclear capsid assembly    The assembly of a virus capsid that occurs in the nucleus. The assembly of large icosahedral shells for herpesviridae and adenoviridae requires structural proteins that act as chaperones for assembly.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0019076    viral release from host cell    The dissemination of mature viral particles from the host cell, e.g. by cell lysis or the budding of virus particles from the cell membrane.
cellular component
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.

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