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(-) Description

Title :  CRYSTAL STRUCTURE OF COMPOUND 10 IN COMPLEX WITH HTLV-1 PROTEASE
 
Authors :  M. Kuhnert, A. Blum, H. Steuber, W. E. Diederich
Date :  22 Feb 15  (Deposition) - 03 Feb 16  (Release) - 03 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Htlv-1 Protease, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Kuhnert, A. Blum, H. Steuber, W. E. Diederich
Privileged Structures Meet Human T-Cell Leukemia Virus-1 (Htlv-1): C2-Symmetric 3, 4-Disubstituted Pyrrolidines As Nonpeptidic Htlv-1 Protease Inhibitors.
J. Med. Chem. V. 58 4845 2015
PubMed-ID: 26000468  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00346

(-) Compounds

Molecule 1 - HTLV-1 PROTEASE
    Chains: A, B
    EC Number: 3.4.23.-, 2.7.7.49, 2.7.7.7, 3.1.26.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 450-565
    Gene: GAG-PRO-POL
    Mutation: YES
    Organism Common: HTLV-1
    Organism Scientific: HUMAN T-CELL LEUKEMIA VIRUS 1 (STRAIN JAPAN ATK-1 SUBTYPE A)
    Organism Taxid: 11926
    Other Details: PARTS OF THE FLAP REGION OMITTED FROM STRUCTURAL MODEL DUE TO TO DISORDER.
    Synonym: PR160GAG-PRO-POL

 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
1G3G1Ligand/IonN,N'-(3S,4S)-PYRROLIDINE-3,4-DIYLBIS(4-AMINO-N-BENZYLBENZENESULFONAMIDE)
2SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:9binding site for residue SO4 A 201
2AC2SOFTWARESER A:22 , HIS A:23 , LYS A:25binding site for residue SO4 A 202
3AC3SOFTWAREASP A:32 , ASP A:36 , TRP A:98 , ILE A:100 , ASP B:32 , GLY B:34 , ALA B:35 , ASP B:36 , MET B:37 , LEU B:57 , TRP B:98binding site for residue G3G B 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YDG)

(-) 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:108
                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee.......eeeeeee......eeeeeee.......eee.hhh......ee.....eee....eeee.......eee...eee......eehhhhhh....eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 4ydg A   1 PVIPLDPARRPVIKAQVDTQTSHPKTIEALLDTGADMTVIPIALFSSNTPLKNTTQDHFKLTSLPVLIRLPFRTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYLP 116
                                    10        20        30        40        50   ||   68        78        88        98       108        
                                                                                54|                                                     
                                                                                 63                                                     


Chain B from PDB  Type:PROTEIN  Length:111
                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.......eeeeeee......eeeeeee.......eee..........ee........eee....eeee.......eee...eee......eehhhhhhhh..eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 4ydg B   1 PVIPLDPARRPVIKAQVDTQTSHPKTIEALLDTGADMTVIPIALFSSNTPLKNTSVLTQDHFKLTSLPVLIRLPFRTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYLP 116
                                    10        20        30        40        50      ||65        75        85        95       105       115 
                                                                                   57|                                                     
                                                                                    63
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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)

(no "SCOP Domain" information available for 4YDG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (31, 31)

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
        POL_HTL1A | P03362: 1o0j 1tp1 2b7f

(-) Related Entries Specified in the PDB File

3lix 3wsj