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(-) Description

Title :  HERPES SIMPLEX VIRUS TYPE II PROTEASE
 
Authors :  S. Hoog, W. W. Smith, X. Qiu, S. S. Abdel-Meguid
Date :  16 Aug 97  (Deposition) - 14 Oct 98  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Biol. Unit 2:  A,B  (1x)
Keywords :  Serine Protease, Viral Protease, Hsv2 Protease (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. S. Hoog, W. W. Smith, X. Qiu, C. A. Janson, B. Hellmig, M. S. Mcqueney, K. O'Donnell, D. O'Shannessy, A. G. Dilella, C. Debouck, S. S. Abdel-Meguid
Active Site Cavity Of Herpesvirus Proteases Revealed By The Crystal Structure Of Herpes Simplex Virus Protease/Inhibito Complex.
Biochemistry V. 36 14023 1997
PubMed-ID: 9369473  |  Reference-DOI: 10.1021/BI9712697

(-) Compounds

Molecule 1 - HERPES SIMPLEX VIRUS TYPE II PROTEASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HERPES SIMPLEX VIRUS TYPE 2
    Organism Scientific: HUMAN HERPESVIRUS 2
    Organism Taxid: 10310
    Other Details: DIISOPROPYL PHOSPHATE COVALENTLY BOUND TO ACTIVE SITE SER 129

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB
Biological Unit 2 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1DFP2Ligand/IonDIISOPROPYL PHOSPHONATE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1DFP4Ligand/IonDIISOPROPYL PHOSPHONATE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1DFP2Ligand/IonDIISOPROPYL PHOSPHONATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:38 , SER A:129 , LEU A:130 , ARG A:156 , HOH A:303BINDING SITE FOR RESIDUE DFP A 300
2AC2SOFTWARELEU B:38 , HIS B:61 , SER B:129 , LEU B:130 , ARG B:156 , HOH B:330BINDING SITE FOR RESIDUE DFP B 300
3ACTUNKNOWNSER A:129 , HIS A:61 , HIS A:148NOVEL ACTIVE SITE TRIAD SER 129, HIS 61 AND HIS 148.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1AT3)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Leu A:49 -Pro A:50
2Leu B:49 -Pro B:50

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1AT3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1AT3)

(-) Exons   (0, 0)

(no "Exon" information available for 1AT3)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:217
 aligned with Q69527_HHV2 | Q69527 from UniProtKB/TrEMBL  Length:638

    Alignment length:231
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246 
          Q69527_HHV2    17 RAVPIYVAGFLALYDSGDPGELALDPDTVRAALPPENPLPINVDHRARCEVGRVLAVVNDPRGPFFVGLIACVQLERVLETAASAAIFERRGPALSREERLLYLITNYLPSVSLSTKRRGDEVPPDRTLFAHVALCAIGRRLGTIVTYDTSLDAAIAPFRHLDPATREGVRREAAEAELALAGRTWAPGVEALTHTLLSTAVNNMMLRDRWSLVAERRRQAGIAGHTYLQA 247
               SCOP domains d1at3a_ A: HSV-2 protease                                                                                                                                                                                                               SCOP domains
               CATH domains 1at3A00 A:17-247 Serine Protease, Human Cytomegalovirus Protease; Chain A                                                                                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee...............hhhhhhh......eeeee......eeeeeeeeeee..eeeeeeee..hhhhhhhhhh.....-------...hhhhhhhhhhh..eeeeee.-------.....eeeeeee..........eee..hhhhh.......hhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh.....hhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1at3 A  17 RAVPIYVAGFLALYDSGDPGELALDPDTVRAALPPENPLPINVDHRARCEVGRVLAVVNDPRGPFFVGLIACVQLERVLETAASAAI-------LSREERLLYLITNYLPSVSLSTK-------PDRTLFAHVALCAIGRRLGTIVTYDTSLDAAIAPFRHLDPATREGVRREAAEAELALAGRTWAPGVEALTHTLLSTAVNNMMLRDRWSLVAERRRQAGIAGHTYLQA 247
                                    26        36        46        56        66        76        86        96      |  -    |  116       126      |  -    |  146       156       166       176       186       196       206       216       226       236       246 
                                                                                                                103     111                   133     141                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:217
 aligned with Q69527_HHV2 | Q69527 from UniProtKB/TrEMBL  Length:638

    Alignment length:231
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246 
          Q69527_HHV2    17 RAVPIYVAGFLALYDSGDPGELALDPDTVRAALPPENPLPINVDHRARCEVGRVLAVVNDPRGPFFVGLIACVQLERVLETAASAAIFERRGPALSREERLLYLITNYLPSVSLSTKRRGDEVPPDRTLFAHVALCAIGRRLGTIVTYDTSLDAAIAPFRHLDPATREGVRREAAEAELALAGRTWAPGVEALTHTLLSTAVNNMMLRDRWSLVAERRRQAGIAGHTYLQA 247
               SCOP domains d1at3b_ B: HSV-2 protease                                                                                                                                                                                                               SCOP domains
               CATH domains 1at3B00 B:17-247 Serine Protease, Human Cytomegalovirus Protease; Chain A                                                                                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee...............hhhhhhh......eeeee......eeeeeeeeeee..eeeeeeee..hhhhhhhhhh.....-------...hhhhhhhhhhh..eeeeee.-------.....eeeeeee.........eeee..hhhhhh......hhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh.......hhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1at3 B  17 RAVPIYVAGFLALYDSGDPGELALDPDTVRAALPPENPLPINVDHRARCEVGRVLAVVNDPRGPFFVGLIACVQLERVLETAASAAI-------LSREERLLYLITNYLPSVSLSTK-------PDRTLFAHVALCAIGRRLGTIVTYDTSLDAAIAPFRHLDPATREGVRREAAEAELALAGRTWAPGVEALTHTLLSTAVNNMMLRDRWSLVAERRRQAGIAGHTYLQA 247
                                    26        36        46        56        66        76        86        96      |  -    |  116       126      |  -    |  146       156       166       176       186       196       206       216       226       236       246 
                                                                                                                103     111                   133     141
   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  (1, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1AT3)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q69527_HHV2 | Q69527)
molecular function
    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).
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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