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(-) Description

Title :  NS3/NS4A PROTEASE WITH INHIBITOR
 
Authors :  H. Zhang, J. Ballard, G. P. A. Vigers, B. J. Brandhuber
Date :  20 May 13  (Deposition) - 07 Aug 13  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Protease, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Jiang, S. W. Andrews, K. R. Condroski, B. Buckman, V. Serebryany, S. Wenglowsky, A. L. Kennedy, M. R. Madduru, B. Wang, M. Lyon, G. A. Doherty, B. T. Woodard, C. Lemieux, M. G. Do, H. Zhang, J. Ballard, G. Vigers, B. J. Brandhuber, P. Stengel, J. A. Josey, L. Beigelman, L. Blatt, S. D. Seiwert
Discovery Of Danoprevir (Itmn-191/R7227), A Highly Selectiv And Potent Inhibitor Of Hepatitis C Virus (Hcv) Ns3/4A Protease.
J. Med. Chem. V. 57 1753 2014
PubMed-ID: 23672640  |  Reference-DOI: 10.1021/JM400164C

(-) Compounds

Molecule 1 - SERINE PROTEASE NS3
    Chains: A, C
    EC Number: 3.4.21.98, 3.6.1.15, 3.6.4.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HCV
    Organism Scientific: HEPATITIS C VIRUS (ISOLATE JAPANESE)
    Organism Taxid: 11116
    Synonym: HEPACIVIRIN, NS3P, P70
 
Molecule 2 - NS4A PEPTIDE
    Chains: B, D
    Engineered: YES
    Organism Scientific: SYNTHETIC
    Organism Taxid: 32630
    Other Details: SOLID-PHASE PEPTIDE SYNTHESIS
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
11X32Ligand/Ion(2R,6S,13AR,14AR,16AS)-6-{[(CYCLOPENTYLOXY)CARBONYL]AMINO}-14A-[(CYCLOPROPYLSULFONYL)CARBAMOYL]-5,16-DIOXOOCTADECAHYDROCYCLOPROPA[E]PYRROLO[1,2-A][1,4]DIAZACYCLOPENTADECIN-2-YL 3,4-DIHYDROISOQUINOLINE-2(1H)-CARBOXYLATE
2ZN2Ligand/IonZINC ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
11X31Ligand/Ion(2R,6S,13AR,14AR,16AS)-6-{[(CYCLOPENTYLOXY)CARBONYL]AMINO}-14A-[(CYCLOPROPYLSULFONYL)CARBAMOYL]-5,16-DIOXOOCTADECAHYDROCYCLOPROPA[E]PYRROLO[1,2-A][1,4]DIAZACYCLOPENTADECIN-2-YL 3,4-DIHYDROISOQUINOLINE-2(1H)-CARBOXYLATE
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
11X31Ligand/Ion(2R,6S,13AR,14AR,16AS)-6-{[(CYCLOPENTYLOXY)CARBONYL]AMINO}-14A-[(CYCLOPROPYLSULFONYL)CARBAMOYL]-5,16-DIOXOOCTADECAHYDROCYCLOPROPA[E]PYRROLO[1,2-A][1,4]DIAZACYCLOPENTADECIN-2-YL 3,4-DIHYDROISOQUINOLINE-2(1H)-CARBOXYLATE
2ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:97 , THR A:98 , CYS A:99 , CYS A:145 , SER A:147 , HOH A:310BINDING SITE FOR RESIDUE ZN A 201
2AC2SOFTWAREGLN A:41 , PHE A:43 , HIS A:57 , GLY A:58 , ASP A:79 , ASP A:81 , VAL A:132 , LEU A:135 , LYS A:136 , GLY A:137 , SER A:138 , SER A:139 , PHE A:154 , ARG A:155 , ALA A:156 , ALA A:157 , ASP A:168 , ASN C:49 , VAL C:51 , MET C:74 , TYR C:75 , MET C:179BINDING SITE FOR RESIDUE 1X3 A 202
3AC3SOFTWARECYS C:97 , CYS C:99 , CYS C:145BINDING SITE FOR RESIDUE ZN C 201
4AC4SOFTWAREPHE C:43 , HIS C:57 , GLY C:58 , ASP C:79 , ASP C:81 , ARG C:119 , VAL C:132 , LEU C:135 , LYS C:136 , GLY C:137 , SER C:138 , SER C:139 , PHE C:154 , ARG C:155 , ALA C:156 , ALA C:157BINDING SITE FOR RESIDUE 1X3 C 202

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KTC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KTC)

(-) 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:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee..hhhhhhhhhhhh.........eeeeee..eeeeeeee..eeeeehhhhh...eee..eee...eeehhh.eeeee................eeeee.....eeeeee....eeeeeeeeehhhhh.....eee.....eeeeeeeeeee..eeeeeeeee.hhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ktc A   1 APITAYSQQTRGLLGCIITSLTGRDKNQVDGEVQVLSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQDLVGWPAPPGARSMTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPVSYLKGSSGGPLLCPSGHVVGIFRAAVCTRGVAKAVDFIPVESM 175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     


Chain B from PDB  Type:PROTEIN  Length:13
                                             
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author ...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                 4ktc B 221 GSVVIVGRIILSG 233
                                   230   


Chain C from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..hhhhhhhhhhhh.........eeeee....eeeeeee..eeeeehhhhh..............eeehhh.eeeee................eeeee.....eeeeee....eeeeeeeeehhhhh.....eee.....eeeeeeeeeee..eeeeeeeeehhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ktc C   1 APITAYSQQTRGLLGCIITSLTGRDKNQVDGEVQVLSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQDLVGWPAPPGARSMTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPVSYLKGSSGGPLLCPSGHVVGIFRAAVCTRGVAKAVDFIPVESMETTM 179
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170         


Chain D from PDB  Type:PROTEIN  Length:13
                                             
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author ....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                 4ktc D 220 KGSVVIVGRIILS 232
                                   229
   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 4KTC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (74, 74)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        POLG_HCVJA | P26662: 1dxp 1dy8 1dy9 1w3c 2k8j 3oyp 3p8n 3p8o 4a1t 4a1v 4a1x 4i31 4i32 4i33 4jmy

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