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(-) Description

Title :  1.0A RESOLUTION STRUCTURE OF NOROVIRUS 3CL PROTEASE IN COMPLEX AN OXADIAZOLE-BASED, CELL PERMEABLE MACROCYCLIC (20-MER) INHIBITOR
 
Authors :  S. Lovell, K. P. Battaile, N. Mehzabeen, V. C. Damalanka, Y. Kim, K. R. Al P. M. Weerawarna, A. C. G. Kankanamalage, G. H. Lushington, K. -O. Chan W. C. Groutas
Date :  27 Aug 15  (Deposition) - 10 Feb 16  (Release) - 23 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Protease, Norovirus, Norwalk Virus, Antiviral Inhibitors, Oxadiazole Inhibitor, Cell Permeable, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. C. Damalanka, Y. Kim, K. R. Alliston, P. M. Weerawarna, A. C. Galasiti Kankanamalage, G. H. Lushington, N. Mehzabeen, K. P. Battaile, S. Lovell, K. O. Chang, W. C. Groutas
Oxadiazole-Based Cell Permeable Macrocyclic Transition Stat Inhibitors Of Norovirus 3Cl Protease.
J. Med. Chem. V. 59 1899 2016
PubMed-ID: 26823007  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01464

(-) Compounds

Molecule 1 - 3C-LIKE PROTEASE
    Chains: A
    EC Number: 3.4.22.66
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1101-1281
    Gene: ORF1
    Organism Common: HU/NV/NV/1968/US
    Organism Scientific: NORWALK VIRUS
    Organism Taxid: 524364
    Strain: GI/HUMAN/UNITED STATES/NORWALK/1968

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1V641Ligand/IonTERT-BUTYL [(4S,7S,10S)-7-(CYCLOHEXYLMETHYL)-10-(HYDROXYMETHYL)-5,8,13-TRIOXO-22-OXA-6,9,14,20,21-PENTAAZABICYCLO[17.2.1]DOCOSA-1(21),19-DIEN-4-YL]CARBAMATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:30 , GLU A:54 , ILE A:109 , GLN A:110 , GLY A:137 , ASP A:138 , CYS A:139 , HIS A:157 , ALA A:158 , ALA A:159 , ALA A:160 , HOH A:341binding site for residue V64 A 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5DGJ)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:168
                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhh.eeee..eeeee....eeeee.hhh.....ee..ee...eeeeee..eeeeee...........ee........eeeeeee.....eeeeeeeeeeeeeeee..eeeeeeeeee.hhhh...........eeeeee..eeeeeeeeeee..eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5dgj A  -1 HHAPPTLWSRVTKFGSGWGFWVSPTVFITTTHVVPTGVKEFFGEPLSSIAIHQAGEFTQFRFSKKMRPDLTGMVLEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRIQGRLVHGQSGMLLTGANAKGMDLGDCGAPYVHKRGNDWVVCGVHAAATNTVVCAVQA 173
                                     8        18        28        38        48        58        68        78        88        98       108       118       128   ||  142       152       165        
                                                                                                                                                               132|                     161|        
                                                                                                                                                                137                      165
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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 5DGJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (22, 22)

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
        POLG_NVN68 | Q83883: 2fyq 2fyr 2lnc 3ur6 3ur9 4imq 4imz 4in1 4in2 4inh 4xbb 4xbc 4xbd 5dg6 5e0g 5e0h 5e0j 5t6d 5t6f 5t6g 5tg1 5tg2

(-) Related Entries Specified in the PDB File

5dg6