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(-) Description

Title :  HIV PROTEASE IN COMPLEX WITH SA499
 
Authors :  A. K. Ganguly, S. S. Alluri, C. Wang, A. Antropow, A. White, D. Caroccia, E. Kang, L. Zhang, S. S. Carroll, C. Burlein, V. Munshi, P. Orth, C. Stri
Date :  21 Aug 13  (Deposition) - 02 Apr 14  (Release) - 02 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.31
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Carbamates, Drug Design, Hiv Protease Inhibitors, Protein Binding, Stereoisomerism, Structure-Activity Relationship, Thiazepines, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. K. Ganguly, S. S. Alluri, C. H. Wang, A. Antropow, A. White, D. Caroccia, D. Biswas, E. Kang, L. K. Zhang, S. S. Carroll, C. Burlein, J. Fay, P. Orth, C. Strickland
Structural Optimization Of Cyclic Sulfonamide Based Novel Hiv-1 Protease Inhibitors To Pico Molar Affinities Guided B X-Ray Crystallographic Analysis
Tetrahedron 2014
PubMed: search  |  Reference-DOI: 10.1016/J.TET.2014.03.038

(-) Compounds

Molecule 1 - PROTEASE
    Chains: A, B
    EC Number: 3.4.23.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 489-587
    Gene: GAG-POL
    Mutation: YES
    Organism Common: HIV-1
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
    Synonym: PR, RETROPEPSIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
123K1Ligand/Ion1-TERT-BUTYL-3-{(2S,3R)-4-[(4R)-7-FLUORO-1,1-DIOXIDO-4-(PROPAN-2-YL)-4,5-DIHYDRO-1,2-BENZOTHIAZEPIN-2(3H)-YL]-3-HYDROXY-1-PHENYLBUTAN-2-YL}UREA
2CL3Ligand/IonCHLORIDE ION
3EDO1Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:8 , LEU A:23 , ASP A:25 , GLY A:27 , ALA A:28 , ASP A:29 , ASP A:30 , GLY A:48 , GLY A:49 , ILE A:50 , PRO A:81 , VAL A:82 , ILE A:84 , HOH A:266 , HOH A:271 , HOH A:306 , HOH A:321 , HOH A:323 , ARG B:8 , 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 , VAL B:82 , ILE B:84 , HOH B:231BINDING SITE FOR RESIDUE 23K A 101
2AC2SOFTWAREGLN A:18 , MET A:36 , SER A:37 , THR B:12 , GLU B:65 , CYS B:67 , GLY B:68BINDING SITE FOR RESIDUE EDO A 102
3AC3SOFTWARETHR A:74 , ASN A:88 , HOH A:252 , ARG B:41BINDING SITE FOR RESIDUE CL A 103
4AC4SOFTWARETRP B:6BINDING SITE FOR RESIDUE CL B 101
5AC5SOFTWARETHR B:74 , ASN B:88 , HOH B:226BINDING SITE FOR RESIDUE CL B 102

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MC6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MC6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MC6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MC6)

(-) Exons   (0, 0)

(no "Exon" information available for 4MC6)

(-) 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 d4mc6a_ A: Human immunodeficiency virus type 1 protease                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee......eeeeee..eeeeeee.......ee........eeeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eehhhhhh....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  4mc6 A  1 PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNF 99
                                    10        20        30        40        50        60        70        80        90         


Chain B from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains d4mc6b_ B: Human immunodeficiency virus type 1 protease                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee......eeeeee..eeeeeee.......ee.........eeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eehhhhhh....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  4mc6 B  1 PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNF 99
                                    10        20        30        40        50        60        70        80        90
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MC6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MC6)

(-) Gene Ontology  (45, 45)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4mc6
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  POL_HV1LW | P0C6F2
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 Related Entries

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

UniProtKB/Swiss-Prot
        POL_HV1LW | P0C6F2: 3lp3 3th9 3vfa 4i8w 4i8z 4mc1 4mc2 4mc9 4nyf 4qgi 5k14

(-) Related Entries Specified in the PDB File

3th9 CRYSTAL STRUCTURE OF HIV-1 PROTEASE MUTANT Q7K V32I L63I WITH A CYCLIC SULFONAMIDE INHIBITOR
4mc1
4mc2
4mc9