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(-) Description

Title :  HIV-1 WILD TYPE PROTEASE WITH GRL-100-13A (A CROWN-LIKE OXOTRICYCLIC CORE AS THE P2-LIGAND WITH THE SULFONAMIDE ISOSTERE AS THE P2' GROUP)
 
Authors :  Y. -F. Wang, J. Agniswamy, I. T. Weber
Date :  25 Jan 17  (Deposition) - 03 May 17  (Release) - 07 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.53
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Crown-Like Oxotricyclic Core, Hiv-1 Protease Inhibitor Grl-100-13A, Darunavir, Multidrug-Resistant, Hydrolase Inhibitor Complex, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. K. Ghosh, K. V. Rao, P. R. Nyalapatla, H. L. Osswald, C. D. Martyr, M. Aoki, H. Hayashi, J. Agniswamy, Y. F. Wang, H. Bulut, D. Das, I. T. Weber, H. Mitsuya
Design And Development Of Highly Potent Hiv-1 Protease Inhibitors With A Crown-Like Oxotricyclic Core As The P2-Ligand To Combat Multidrug-Resistant Hiv Variants.
J. Med. Chem. V. 60 4267 2017
PubMed-ID: 28418652  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.7B00172

(-) Compounds

Molecule 1 - PROTEASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: POL
    Mutation: YES
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
18FM1Ligand/Ion(3S,3AR,5R,7AS,8S)-HEXAHYDRO-4H-3,5-METHANOFURO[2,3-B]PYRAN-8-YL [(2S,3R)-3-HYDROXY-4-{[(4-METHOXYPHENYL)SULFONYL](2-METHYLPROPYL)AMINO}-1-PHENYLBUTAN-2-YL]CARBAMATE
2CL2Ligand/IonCHLORIDE ION
3NA1Ligand/IonSODIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:60 , HOH A:613 , HOH A:617 , HOH A:631 , HOH A:634binding site for residue NA A 501
2AC2SOFTWARETHR A:74 , ASN A:88 , ARG B:41binding site for residue CL A 502
3AC3SOFTWAREASP A:25 , GLY A:27 , ALA A:28 , ASP A:29 , ASP A:30 , ILE A:47 , GLY A:48 , GLY A:49 , ILE A:50 , PRO A:81 , VAL A:82 , ILE A:84 , HOH A:645 , LEU B:23 , ASP B:25 , GLY B:27 , ALA B:28 , ASP B:29 , ASP B:30 , ILE B:47 , GLY B:48 , GLY B:49 , ILE B:50 , PRO B:81 , VAL B:82 , ILE B:84 , HOH B:303 , HOH B:352binding site for residue 8FM B 201
4AC4SOFTWARETRP B:6 , HOH B:365binding site for residue CL B 202

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee......eeeeee..eeeeeee......eee........eeeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eehhhhhhhhh.eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5ult A  1 PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEIAGHKAIGTVLVGPTPVNIIGRNLLTQIGATLNF 99
                                    10        20        30        40        50        60        70        80        90         


Chain B from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee......eeeeee..eeeeeee......eee.........eeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eehhhhhh....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5ult B  1 PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEIAGHKAIGTVLVGPTPVNIIGRNLLTQIGATLNF 99
                                    10        20        30        40        50        60        70        80        90
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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)

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(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (4, 4)

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
        C8B467_9HIV1 | C8B467: 5ivt 5jfp 5jfu 5jg1 5uov 5upz

(-) Related Entries Specified in the PDB File

2ien 5tyr 5uov 5upz