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(-) Description

Title :  CRYSTAL STRUCTURE OF ADENOVIRUS 8 PROTEASE IN COMPLEX WITH A NITRILE INHIBITOR
 
Authors :  P. Grosche, F. Sirockin, A. Mac Sweeney, P. Ramage, P. Erbel, S. Melkko A. Bernardi, N. Hughes, D. Ellis, K. Combrink, N. Jarousse, E. Altmann
Date :  13 Nov 14  (Deposition) - 14 Jan 15  (Release) - 28 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.03
Chains :  Asym./Biol. Unit :  A,C
Keywords :  Cysteine Protease, Inhibitor, Cofactor, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Grosche, F. Sirockin, A. Mac Sweeney, P. Ramage, P. Erbel, S. Melkko, A. Bernardi, N. Hughes, D. Ellis, K. D. Combrink, N. Jarousse, E. Altmann
Structure-Based Design And Optimization Of Potent Inhibitor Of The Adenoviral Protease.
Bioorg. Med. Chem. Lett. V. 25 438 2015
PubMed-ID: 25571794  |  Reference-DOI: 10.1016/J.BMCL.2014.12.057

(-) Compounds

Molecule 1 - PROTEASE
    Chains: A
    Organism Common: HADV-8
    Organism Scientific: HUMAN ADENOVIRUS D SEROTYPE 8
    Organism Taxid: 31545
 
Molecule 2 - PEPTIDE
    Chains: C
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AC

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
13VF1Ligand/IonN-[(2-CYANOPYRIMIDIN-4-YL)METHYL]-3-[2-(3,5-DICHLOROPHENYL)-2-METHYLPROPANOYL]-4-METHOXYBENZAMIDE
2EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3GLY1Mod. Amino AcidGLYCINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:1 , SER A:3 , SER A:4 , GLU A:5 , THR A:24 , HIS A:25 , ASP A:26 , ASN A:44 , ALA A:46 , GLY A:47 , ARG A:48 , GLY A:51 , GLY A:52 , VAL A:53 , TRP A:55 , GLN A:115 , SER A:119 , ALA A:120 , ALA A:121 , CYS A:122 , EPE A:302binding site for residue 3VF A 301
2AC2SOFTWARELEU A:22 , GLY A:23 , THR A:24 , HIS A:25 , ASP A:26 , ARG A:48 , 3VF A:301 , HOH A:569 , HOH A:599binding site for residue EPE A 302
3AC3SOFTWAREMET A:141 , ASP A:142 , MET A:147 , LEU A:150 , GLY A:152 , VAL C:301 , HOH C:512binding site for residue GLY C 401

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:104 -C:309

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4WX4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4WX4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4WX4)

(-) Exons   (0, 0)

(no "Exon" information available for 4WX4)

(-) 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:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh.hhh.eeeee.............eeeeee..hhhhh...eeeeeee....eeeee.....hhhhhhhhhh..hhhhhhhhhhhhh...eeeeeee.ee.......hhhhhhhhhhhhhhhh.........hhhhh..ee.hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wx4 A   1 SGSSEQELAAIVRDLGCGPYFLGTHDKRFPGFLAGNKLACAIVNTAGRETGGVHWLAFGWNPRSRTCYMFDPFGFSDRRLKQIYSFEYEAMLRRSALALSPDRCLSLEQSTQTVQGPDSAACGLFCCMFLHAFVHWPDRPMDGNPTMNLLTGVPNGMLQSPQVLPTLRRNQEKLYRFLAHHSPYFRSHRAAIEHATAFDKM 201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 


Chain C from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author ..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 4wx4 C 301 VKSLKRRRCY 310
                                   310
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4WX4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4WX4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4WX4)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4wx4
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 Related Entries

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

UniProtKB/TrEMBL
        B9A5C1_ADE08 | B9A5C1: 4piq 4pis 4wx6 4wx7

(-) Related Entries Specified in the PDB File

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