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(-) Description

Title :  CRYSTAL STRUCTURE OF HTLV PROTEASE COMPLEXED WITH THE INHIBITOR KNI-10683
 
Authors :  T. Satoh, M. Li, J. Nguyen, Y. Kiso, A. Wlodawer, A. Gustchina
Date :  25 Jan 10  (Deposition) - 14 Jul 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.59
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Satoh, M. Li, J. T. Nguyen, Y. Kiso, A. Gustchina, A. Wlodawer
Crystal Structures Of Inhibitor Complexes Of Human T-Cell Leukemia Virus (Htlv-1) Protease.
J. Mol. Biol. V. 401 626 2010
PubMed-ID: 20600105  |  Reference-DOI: 10.1016/J.JMB.2010.06.052

(-) Compounds

Molecule 1 - PROTEASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PHTLVDELTA9
    Expression System Strain: ROSETTA2(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PRT
    Mutation: YES
    Organism Scientific: HUMAN T-LYMPHOTROPIC VIRUS 1
    Organism Taxid: 11908

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1E161Ligand/Ion(4R)-3-[(2S,3S)-3-[[(2S)-2-[[(2S)-2-AZANYL-2-PHENYL-ETHANOYL]AMINO]-3,3-DIMETHYL-BUTANOYL]AMINO]-2-HYDROXY-4-PHENYL-BUTANOYL]-N-[(2R)-3,3-DIMETHYLBUTAN-2-YL]-5,5-DIMETHYL-1,3-THIAZOLIDINE-4-CARBOXAMIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:10 , ASP A:32 , GLY A:34 , ALA A:35 , VAL A:56 , LEU A:57 , ALA A:59 , TRP A:98 , HOH A:118 , LEU B:30 , ASP B:32 , GLY B:34 , ALA B:35 , ASP B:36 , MET B:37 , VAL B:56 , LEU B:57 , GLY B:58 , ALA B:59 , HOH B:137BINDING SITE FOR RESIDUE E16 B 117

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LIV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3LIV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LIV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LIV)

(-) Exons   (0, 0)

(no "Exon" information available for 3LIV)

(-) 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:116
 aligned with Q82134_9DELA | Q82134 from UniProtKB/TrEMBL  Length:125

    Alignment length:116
                                    10        20        30        40        50        60        70        80        90       100       110      
         Q82134_9DELA     1 PVIPLDPARRPVIKAQVDTQTSHPKTIEALLDTGADMTVLPIALFSSNTPLKNTSVLGAGGQTQDHFKLTSLPVLIRLPFRTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYLP 116
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.......eeeeeee......eeeeeee.......eee.hhh......ee..eee..eee...eee....eeee.......eee...eee......eehhhhhhhh..eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 3liv A   1 PVIPLDPARRPVIKAQVDTQTSHPKTIEALLDTGADMTVIPIALFSSNTPLKNTSVLGAGGQTQDHFKLTSLPVLIRLPFRTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYLP 116
                                    10        20        30        40        50        60        70        80        90       100       110      


Chain B from PDB  Type:PROTEIN  Length:116
 aligned with Q82134_9DELA | Q82134 from UniProtKB/TrEMBL  Length:125

    Alignment length:116
                                    10        20        30        40        50        60        70        80        90       100       110      
         Q82134_9DELA     1 PVIPLDPARRPVIKAQVDTQTSHPKTIEALLDTGADMTVLPIALFSSNTPLKNTSVLGAGGQTQDHFKLTSLPVLIRLPFRTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYLP 116
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----RVP-3livB01 B:6-114                                                                                          -- Pfam domains (1)
           Pfam domains (2) -----RVP-3livB02 B:6-114                                                                                          -- Pfam domains (2)
         Sec.struct. author .eee.......eeeeeee......eeeeeee.......eee.hhh......ee..eee..eee...eee....eeee.......eee...eee......eehhhhhhhh..eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 3liv B   1 PVIPLDPARRPVIKAQVDTQTSHPKTIEALLDTGADMTVIPIALFSSNTPLKNTSVLGAGGQTQDHFKLTSLPVLIRLPFRTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYLP 116
                                    10        20        30        40        50        60        70        80        90       100       110
   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  (0, 0)

(no "SCOP Domain" information available for 3LIV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LIV)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Peptidase_AA (368)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q82134_9DELA | Q82134)
molecular function
    GO:0004190    aspartic-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which a water molecule bound by the side chains of aspartic residues at the active center acts as a nucleophile.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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  3liv
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  Q82134_9DELA | Q82134
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 Related Entries

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

UniProtKB/TrEMBL
        Q82134_9DELA | Q82134: 3lin 3liq 3lit 3lix 3liy 3wsj 4ydf

(-) Related Entries Specified in the PDB File

2b7f 3lin 3liq 3lit 3lix 3liy