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(-) Description

Title :  CASPASE-7 VARIANT 1 (V1) WITH REPROGRAMMED SUBSTRATE SPECIFICITY DUE TO Y230A/W232M/S234N SUBSTITUTIONS, BOUND TO DEVD INHIBITOR.
 
Authors :  D. J. Macpherson, M. E. Hill, J. A. Hardy
Date :  18 May 15  (Deposition) - 20 Apr 16  (Release) - 06 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Directed Evolution, Protease, Peptide Inhibitor, Designed Active Site Specificity, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. E. Hill, D. J. Macpherson, P. Wu, O. Julien, J. A. Wells, J. A. Hardy
Reprogramming Caspase-7 Specificity By Regio-Specific Mutations And Selection Provides Alternate Solutions For Substrate Recognition.
Acs Chem. Biol. V. 11 1603 2016
PubMed-ID: 27032039  |  Reference-DOI: 10.1021/ACSCHEMBIO.5B00971

(-) Compounds

Molecule 1 - CASPASE-7
    ChainsA, C
    EC Number3.4.22.60
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Taxid469008
    FragmentUNP RESIDUES 34-231
    GeneCASP7, MCH3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCASP-7,APOPTOTIC PROTEASE MCH-3,CMH-1,ICE-LIKE APOPTOTIC PROTEASE 3,ICE-LAP3
 
Molecule 2 - CASPASE-7
    ChainsB, D
    EC Number3.4.22.60
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Taxid469008
    FragmentUNP RESIDUES 232-336
    GeneCASP7, MCH3
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCASP-7,APOPTOTIC PROTEASE MCH-3,CMH-1,ICE-LIKE APOPTOTIC PROTEASE 3,ICE-LAP3
 
Molecule 3 - DEVD INHIBITOR
    ChainsE, F
    EngineeredYES
    Organism ScientificSYNTHETIC CONSTRUCT
    Organism Taxid32630
    SyntheticYES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2ASJ2Mod. Amino Acid(3S)-3-AMINO-4-HYDROXYBUTANOIC ACID

(-) Sites  (0, 0)

(no "Site" information available for 4ZVS)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZVS)

(-) 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:139
                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeeee....hhhhh.....hhhhhhhhhhhhhhhhheeeeeee..hhhhhhhhhhhhhhh....eeeeeeeee..ee..eee....eeehhhhhhhhh...hhhhh...eeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zvs A  58 YQYNMNFEKLGKCIIINNKNFDKVTGMGVRNGTDKDAEALFKCFRSLGFDVIVYNDCSCAKMQDLLKKASEEDHTNAACFACILLSHGEENVIYGKDGVTPIKDLTAHFRGDRCKTLLEKPKLFFIQACRGTELDDGIQ 196
                                    67        77        87        97       107       117       127       137       147       157       167       177       187         

Chain B from PDB  Type:PROTEIN  Length:93
                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee........eee...eehhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhh......eeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 4zvs B 211 YKIPVEADFLFAYSTVPGYASMRNPGRGSWFVQALCSILEEHGKDLEIMQILTRVNDRVARHFESQSDDPHFHEKKQIPCVVSMLTKELYFSQ 303
                                   220       230       240       250       260       270       280       290       300   

Chain C from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeeee....hhhhh.....hhhhhhhhhhhhhhhhheeeeeee..hhhhhhhhhhhhhhh....eeeeeeeee..ee..eeee..eeeehhhhhhh.....hhhhh...eeeeee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zvs C 357 TYQYNMNFEKLGKCIIINNKNFDKVTGMGVRNGTDKDAEALFKCFRSLGFDVIVYNDCSCAKMQDLLKKASEEDHTNAACFACILLSHGEENVIYGKDGVTPIKDLTAHFRGDRCKTLLEKPKLFFIQACRGTELDDGIQ 496
                                   366       376       386       396       406       416       426       436       446       456       466       476       486       496

Chain D from PDB  Type:PROTEIN  Length:93
                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee........eee...eehhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhh......eeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 4zvs D 511 YKIPVEADFLFAYSTVPGYASMRNPGRGSWFVQALCSILEEHGKDLEIMQILTRVNDRVARHFESQSDDPHFHEKKQIPCVVSMLTKELYFSQ 603
                                   520       530       540       550       560       570       580       590       600   

Chain E from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..ee. Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 4zvs E   0 xDEVx   4
                            |   |
                            0-ACE
                                4-ASJ

Chain F from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..ee. Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 4zvs F   0 xDEVx   4
                            |   |
                            |   |
                            0-ACE
                                4-ASJ

   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 4ZVS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (15, 15)

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
        CASP7_HUMAN | P552101f1j 1gqf 1i4o 1i51 1k86 1k88 1kmc 1mia 1shj 1shl 2ql5 2ql7 2ql9 2qlb 2qlf 2qlj 3edr 3h1p 3ibc 3ibf 3r5k 4fdl 4fea 4hq0 4hqr 4jb8 4jj8 4jr1 4jr2 4lsz 4zvo 4zvp 4zvq 4zvr 4zvt 4zvu 5ic6 5k20

(-) Related Entries Specified in the PDB File

1f1j WILD-TYPE CASPASE-7 BOUND TO DEVD INHIBITOR
3edr WILD-TYPE CASPASE-7 BOUND TO LDESD INBIBITOR
4zvo CASPASE-7 Y230V/W232Y/S234V/Q276D BOUND TO VEID INHIBITOR
4zvp CASPASE-7 Y230V/W232M/Q276C BOUND TO DEVD INHIBITOR
4zvq CASPASE-7 Y230V/W232M/Q276C BOUND TO VEID INHIBITOR
4zvr CASPASE-7 Y230V/W232Y/S234V/Q276D BOUND TO DEVD INHIBITOR
4zvt CASPASE-7 Y230A/W232M/S234N BOUND TO VEID INHIBITOR
4zvu CASPASE-7 WILD-TYPE BOUND TO TETRAPEPTIDE INHIBITOR AC-VEID-CHO