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(-) Description

Title :  ZINC-MEDIATED ALLOSTERIC INHIBITON OF CASPASE-6
 
Authors :  E. M. Velazquez-Delgado, J. A. Hardy
Date :  03 Jul 12  (Deposition) - 22 Aug 12  (Release) - 07 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.85
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Heterotetramer, Hydrolase, Cytosol, Apoptosis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. M. Velazquez-Delgado, J. A. Hardy
Zinc-Mediated Allosteric Inhibition Of Caspase-6.
J. Biol. Chem. V. 287 36000 2012
PubMed-ID: 22891250  |  Reference-DOI: 10.1074/JBC.M112.397752

(-) Compounds

Molecule 1 - CASPASE-6
    Chains: A, B, C, D
    EC Number: 3.4.22.59
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)T7 EXPRESS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: CASP6, MCH2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CASP-6, APOPTOTIC PROTEASE MCH-2, CASPASE-6 SUBUNIT P18, CASPASE-6 SUBUNIT P11

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1ZN4Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:36 , GLU A:244 , HIS A:287 , HOH A:402BINDING SITE FOR RESIDUE ZN A 301
2AC2SOFTWARELYS B:36 , GLU B:244 , HIS B:287 , HOH B:402BINDING SITE FOR RESIDUE ZN B 301
3AC3SOFTWARELYS C:36 , GLU C:244 , HIS C:287 , PHE C:289 , HOH C:402BINDING SITE FOR RESIDUE ZN C 301
4AC4SOFTWARELEU D:243 , GLU D:244 , HIS D:287BINDING SITE FOR RESIDUE ZN D 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Trp A:57 -His A:58
2Trp B:57 -His B:58
3Ile B:270 -Gly B:271

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FXO)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeeeeeee........hhhhhhhhhhhhhhhhhhhhhh..eeeeee....hhhhhh....eeeeeeeee.....hhhhhhhhhhhhhhhhhh.............eeeee...............eeeee...............hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......eeee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fxo A  27 KREMFDPAEKYKMDHRRRGIALIFNHERFFWHLTLPERRGTCADRDNLTRRFSDLGFEVKCFNDLKIHEVSTVSHADADCFVCVFLSHGEGNHIYAYDAKIEIQTLTGLFKGDKCHSLVGKPKIFIIQACAASVYTLPAGADFLMCYSVAEGYYSHRETVNGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSQRRVKQVPCFASMLTKKLHFFPKSN 293
                                    36        46        56        66        76        86     ||103       113       123       133       143       153       163|      203       213       223       233       243       253       274       284         
                                                                                            92|                                                            163|                                                                261|                    
                                                                                            100                                                             194                                                                 273                    


Chain B from PDB  Type:PROTEIN  Length:227
                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeeee........hhhhhhhhhhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhh....eeeeeeeee.....hhhhhhhhhhhhhhhhhh.............eeeee...............eeeee...............hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.............eeee............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fxo B  30 MFDPAEKYKMDHRRRGIALIFNHERFFWHLTLPERRGTCADRDNLTRRFSDLGFEVKCFNDLKELLLKIHEVSTVSHADADCFVCVFLSHGEGNHIYAYDAKIEIQTLTGLFKGDKCHSLVGKPKIFIIQACAASVYTLPAGADFLMCYSVAEGYYSHRETVNGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSQRRVDPSAIGKKQVPCFASMLTKKLHFFPKS 292
                                    39        49        59        69        79        89  ||   101       111       121       131       141       151       161 ||    201       211       221       231       241       251       261||     275       285       
                                                                                         92|                                                                 163|                                                                 262|                         
                                                                                          95                                                                  194                                                                  267                         


Chain C from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeeeeee........hhhhhh.hhhhhhhhhhhh.....eeeeee........hhhhhh.....eeeeeeeee.....hhhhhhhhhhhhhhhhhhh............eeeee.............eeeee...............hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.......eeee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fxo C  29 EMFDPAEKYKMDHRRRGIALIFNHERFFWHLTLPERRGTCADRDNLTRRFSDLGFEVKCFNDLKELLLKIHEVSTVSHADADCFVCVFLSHGEGNHIYAYDAKIEIQTLTGLFKGDKCHSLVGKPKIFIIQACSVYTLPAGADFLMCYSVAEGYYSHRETVNGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSQRRVKKQVPCFASMLTKKLHFFPKS 292
                                    38        48        58        68        78        88   ||  100       110       120       130       140       150       160  ||   202       212       222       232       242       252       272       282       292
                                                                                          92|                                                                 163|                                                              261|                    
                                                                                           95                                                                  196                                                               272                    


Chain D from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeeee........hhhhhh.hhhhhhhhhhhh.....eeeeee.....hhhhhh.....eeeeeeeee.....hhhhhhhhhhhhhhhhhhh............eeeee...............eeeee...............hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.........eeee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fxo D  30 MFDPAEKYKMDHRRRGIALIFNHERFFWHLTLPERRGTCADRDNLTRRFSDLGFEVKCFNDLKLKIHEVSTVSHADADCFVCVFLSHGEGNHIYAYDAKIEIQTLTGLFKGDKCHSLVGKPKIFIIQACAASVYTLPAGADFLMCYSVAEGYYSHRETVNGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSQRRVDGKKQVPCFASMLTKKLHFFPKS 292
                                    39        49        59        69        79        89  ||   104       114       124       134       144       154       194       204       214       224       234       244       254       272       282       292
                                                                                         92|                                                              163|                                                                 262|                     
                                                                                          98                                                               194                                                                  271
   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 4FXO)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)

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    Ile B:270 - Gly B:271   [ RasMol ]  
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  CASP6_HUMAN | P55212
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 Related Entries

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

UniProtKB/Swiss-Prot
        CASP6_HUMAN | P55212: 1mi9 2wdp 3k7e 3nkf 3nr2 3od5 3p45 3p4u 3qnw 3s70 3s8e 3v6l 3v6m 4ejf 4hva 4iyr 4n5d 4n6g 4n7j 4n7m 4nbk 4nbl 4nbn

(-) Related Entries Specified in the PDB File

2wdp MATURE
3k7e MATURE
3nkf MATURE
3od5 ACTIVE
3s8e PHOSPHOMIMETIC