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(-) Description

Title :  CRYSTAL STRUCTURE OF HEPATITIS C VIRUS NS3 HELICASE INHIBITOR CO-COMPLEX WITH COMPOUND 19 [[6-(3,5-DIAMINOPHENYL)-1-(2-METHOXY-5-NITROBENZYL)-1H-INDOL-3-YL]ACETIC ACID]
 
Authors :  A. K. Padyana
Date :  22 Jan 14  (Deposition) - 05 Mar 14  (Release) - 02 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hepatitis, Atpase, Ntpase, Ns3 Helicase, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. R. Laplante, A. K. Padyana, A. Abeywardane, P. Bonneau, M. Cartier, R. Coulombe, A. Jakalian, J. Wildeson-Jones, X. Li, S. Liang, G. Mckercher, P. White, Q. Zhang, S. J. Taylor
Integrated Strategies For Identifying Leads That Target The Ns3 Helicase Of The Hepatitis C Virus.
J. Med. Chem. V. 57 2074 2014
PubMed-ID: 24467709  |  Reference-DOI: 10.1021/JM401432C

(-) Compounds

Molecule 1 - SERINE PROTEASE NS3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1206-1656
    Gene: NS3
    Organism Scientific: HEPATITIS C VIRUS
    Organism Taxid: 11103

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
12T91Ligand/Ion[6-(3,5-DIAMINOPHENYL)-1-(2-METHOXY-5-NITROBENZYL)-1H-INDOL-3-YL]ACETIC ACID
2CA2Ligand/IonCALCIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:232 , THR A:254 , GLY A:255 , THR A:269 , GLY A:271 , LYS A:272 , ALA A:275 , ALA A:297 , THR A:298 , ALA A:497 , TRP A:501 , TYR A:502 , HOH A:829BINDING SITE FOR RESIDUE 2T9 A 701
2AC2SOFTWAREASP A:437 , ASP B:437 , HOH B:707 , HOH B:739BINDING SITE FOR RESIDUE CA A 702
3AC3SOFTWAREASP A:437 , GLU A:447 , HOH A:926 , ASP B:437BINDING SITE FOR RESIDUE CA A 703

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asp A:441 -Pro A:442
2Asp B:441 -Pro B:442

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OKS)

(-) Sequences/Alignments

Asymmetric/Biological 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:440
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4oksa1 A:184-325 HCV helicase domain                                                                                                         ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..........eeeeee........hhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhh...eee....ee.....eeeeehhhhhhh.........eeee......hhhhhhhhhhhhhhh......eeeeee.............eeeee......eee..eee......eeeee..hhhhhhhhhhhhhhh...eeee....hhhhh.....eeeee........eeee..eeeeeeee.......eeeeeeee.hhhhhhhhhhh......eeeee...........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh........hhhhhhhhhhh....hhhhhhhhhhh...hhhhhhhhhhhhhhh.......hhhhhhhh.........ee...........ee..hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oks A 184 FTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPITYSTYGKFLADGGCSGGAYDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLATATPPGSVTVSHPNIEEVALSTTGEIPFYGKAIPLEVIGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTNGDVVVVSTDALGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTLPQDAVSRTQRRGRTGRGKPGIYRFVAPGERPSGMFDSSVLCECYDAGCAWYELMPAETTVRLRAYMNTPGLPVCQDHLEFWEGVFTGLTHIDAHFLSQTKQSGENFPYLVAYQATVCARAQAPPPSWDQMWKCLIRLKPTLHGPTPLLYRLGAVQNEVTLTHPITKYIMTCMSADLEVV 630
                                   193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353     ||365       375       385       395       405       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630
                                                                                                                                                                                                         359|                                                 414|                                                                                                                                                                                                                  
                                                                                                                                                                                                          362                                                  420                                                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:427
                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4oksb1 B:187-325 HCV helicase domain                                                                                         d4oksb2 B:326-630 HCV helicase domain                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeee.........hhhhhhhh....eeeee......................eeeeehhhhhhh.........eeeee.....hhhhhhhhhhhhhhh......eeeeee.............eeeee......eee..eeehhhhh...eeeee..hhhhhhhhhhhhhh....eeee..............eeeee.........eeee..eeeeeeee.......eeeeeeee.hhhhhhhhhh.......eeeee...........hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh........hhhhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhhhhhhhh.......hhhhhhhh..hhhhh..ee...........ee..hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oks B 187 NSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGTGSPITYSTYGKFLADGGCSGGAYDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLATATPPGSVTVSHPNIEEVALSTTGEIPFYGKAIPLEVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTNGDVVVVSTDALMGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTLPQDAVSRTQRRGRTGRGKPGIYRFVAPGERPSGMFDSSVLCECYDAGCAWYELMPAETTVRLRAYMNTPGLPVCQDHLEFWEGVFTGLTHIDAHFLSQTKQSGENFPYLVAYQATVCARAQAPPPSWDQMWKCLIRLKPTLHGPTPLLYRLGAVQNEVTLTHPITKYIMTCMSADLEVV 630
                                   196       206       216       226       236       246||     269       279       289       299       309       319       329       339       349       359       369       379       389       399       409     ||423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       
                                                                                      247|                                                                                                                                                       415|                                                                                                                                                                                                                  
                                                                                       261                                                                                                                                                        420
   Legend:   → Mismatch (orange background)
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  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, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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  4oks
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  K4KA16_9HEPC | K4KA16
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        K4KA16_9HEPC | K4KA16: 4cl1 4ojq 4ok3 4ok5 4ok6

(-) Related Entries Specified in the PDB File

4ojq 4ok3 4ok5 4ok6