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(-) Description

Title :  CRYSTAL STRUCTURE OF CASPASE-3 DEVE PEPTIDE COMPLEX
 
Authors :  J. E. Seaman, O. Julien, P. S. Lee, T. J. Rettenmaier, N. D. Thomsen, J. A.
Date :  22 Feb 16  (Deposition) - 20 Jul 16  (Release) - 05 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C,D,I,J  (1x)
Biol. Unit 2:  E,F,G,H,K,L  (1x)
Keywords :  Apoptosis, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. E. Seaman, O. Julien, P. S. Lee, T. J. Rettenmaier, N. D. Thomsen, J. A. Wells
Cacidases: Caspases Can Cleave After Aspartate, Glutamate And Phosphoserine Residues.
Cell Death Differ. V. 23 1717 2016
PubMed-ID: 27367566  |  Reference-DOI: 10.1038/CDD.2016.62

(-) Compounds

Molecule 1 - CASPASE-3 SUBUNIT P17
    ChainsA, C, E, G
    EC Number3.4.22.56
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneCASP3, CPP32
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCASP-3,APOPAIN,CYSTEINE PROTEASE CPP32,CPP-32,PROTEIN YAMA, SREBP CLEAVAGE ACTIVITY 1,SCA-1
 
Molecule 2 - CASPASE-3 SUBUNIT P12
    ChainsB, D, F, H
    EC Number3.4.22.56
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneCASP3, CPP32
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCASP-3,APOPAIN,CYSTEINE PROTEASE CPP32,CPP-32,PROTEIN YAMA, SREBP CLEAVAGE ACTIVITY 1,SCA-1
 
Molecule 3 - DEVE PEPTIDE
    ChainsI, J, K, L
    EngineeredYES
    Organism ScientificSYNTHETIC CONSTRUCT
    Organism Taxid32630
    SyntheticYES

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit ABCDEFGHIJKL
Biological Unit 1 (1x)ABCD    IJ  
Biological Unit 2 (1x)    EFGH  KL

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1MKE4Mod. Amino Acid(4S)-4-AMINO-5-OXOHEXANOIC ACID
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MKE2Mod. Amino Acid(4S)-4-AMINO-5-OXOHEXANOIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1MKE2Mod. Amino Acid(4S)-4-AMINO-5-OXOHEXANOIC ACID

(-) Sites  (0, 0)

(no "Site" information available for 5IC4)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5IC4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5IC4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IC4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5IC4)

(-) Exons   (0, 0)

(no "Exon" information available for 5IC4)

(-) Sequences/Alignments

Asymmetric 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.....hhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhh.....eeeeeeeee..ee..eeee..eeeehhhhhhhhh...hhhhh...eeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ic4 A  35 NSYKMDYPEMGLCIIINNKNFHKSTGMTSRSGTDVDAANLRETFRNLKYEVRNKNDLTREEIVELMRDVSKEDHSKRSSFVCVLLSHGEEGIIFGTNGPVDLKKITNFFRGDRCRSLTGKPKLFIIQACRGTELDCGIE 173
                                    44        54        64        74        84        94       104       114       124       134       144       154       164         

Chain B from PDB  Type:PROTEIN  Length:92
                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee........eee...eehhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhh......eeeee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                 5ic4 B 185 HKIPVEADFLYAYSTAPGYYSWRNSKDGSWFIQSLCAMLKQYADKLEFMHILTRVNRKVATEFESFSFDATFHAKKQIPCIVSMLTKELYFY 276
                                   194       204       214       224       234       244       254       264       274  

Chain C from PDB  Type:PROTEIN  Length:139
                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeeee..............hhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhh.....eeeeeeeee..ee..eeee..eeeehhhhhhh.....hhhhh...eeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ic4 C  35 NSYKMDYPEMGLCIIINNKNFHKSTGMTSRSGTDVDAANLRETFRNLKYEVRNKNDLTREEIVELMRDVSKEDHSKRSSFVCVLLSHGEEGIIFGTNGPVDLKKITNFFRGDRCRSLTGKPKLFIIQACRGTELDCGIE 173
                                    44        54        64        74        84        94       104       114       124       134       144       154       164         

Chain D from PDB  Type:PROTEIN  Length:91
                                                                                                                           
               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
                 5ic4 D 186 KIPVEADFLYAYSTAPGYYSWRNSKDGSWFIQSLCAMLKQYADKLEFMHILTRVNRKVATEFESFSFDATFHAKKQIPCIVSMLTKELYFY 276
                                   195       205       215       225       235       245       255       265       275 

Chain E from PDB  Type:PROTEIN  Length:139
                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeeee..............hhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhh.....eeeeeeeee..ee..eeee..eeeehhhhhhh.....hhhhh...eeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ic4 E  35 NSYKMDYPEMGLCIIINNKNFHKSTGMTSRSGTDVDAANLRETFRNLKYEVRNKNDLTREEIVELMRDVSKEDHSKRSSFVCVLLSHGEEGIIFGTNGPVDLKKITNFFRGDRCRSLTGKPKLFIIQACRGTELDCGIE 173
                                    44        54        64        74        84        94       104       114       124       134       144       154       164         

Chain F from PDB  Type:PROTEIN  Length:91
                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee........eee...eehhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhh......eeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------- Transcript
                 5ic4 F 186 KIPVEADFLYAYSTAPGYYSWRNSKDGSWFIQSLCAMLKQYADKLEFMHILTRVNRKVATEFESFSFDATFHAKKQIPCIVSMLTKELYFY 276
                                   195       205       215       225       235       245       255       265       275 

Chain G from PDB  Type:PROTEIN  Length:139
                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeee..............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhh.....eeeeeeeee..ee..eeee..eeeehhhhhhh.....hhhhh...eeeeee............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ic4 G  36 SYKMDYPEMGLCIIINNKNFHKSTGMTSRSGTDVDAANLRETFRNLKYEVRNKNDLTREEIVELMRDVSKEDHSKRSSFVCVLLSHGEEGIIFGTNGPVDLKKITNFFRGDRCRSLTGKPKLFIIQACRGTELDCGIET 174
                                    45        55        65        75        85        95       105       115       125       135       145       155       165         

Chain H from PDB  Type:PROTEIN  Length:92
                                                                                                                            
               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
                 5ic4 H 185 HKIPVEADFLYAYSTAPGYYSWRNSKDGSWFIQSLCAMLKQYADKLEFMHILTRVNRKVATEFESFSFDATFHAKKQIPCIVSMLTKELYFY 276
                                   194       204       214       224       234       244       254       264       274  

Chain I from PDB  Type:PROTEIN  Length:4
                                    
               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
                 5ic4 I   1 DEVx   4
                               |
                               4-MKE

Chain J from PDB  Type:PROTEIN  Length:4
                                    
               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
                 5ic4 J   1 DEVx   4
                               |
                               |
                               4-MKE

Chain K from PDB  Type:PROTEIN  Length:4
                                    
               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
                 5ic4 K   1 DEVx   4
                               |
                               |
                               4-MKE

Chain L from PDB  Type:PROTEIN  Length:4
                                    
               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
                 5ic4 L   1 DEVx   4
                               |
                               |
                               4-MKE

   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 5IC4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IC4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5IC4)

(-) Gene Ontology  (78, 78)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CASP3_HUMAN | P425741cp3 1gfw 1i3o 1nme 1nmq 1nms 1pau 1qx3 1re1 1rhj 1rhk 1rhm 1rhq 1rhr 1rhu 2c1e 2c2k 2c2m 2c2o 2cdr 2cjx 2cjy 2cnk 2cnl 2cnn 2cno 2dko 2h5i 2h5j 2h65 2j30 2j31 2j32 2j33 2xyg 2xyh 2xyp 2xzd 2xzt 2y0b 3deh 3dei 3dej 3dek 3edq 3gjq 3gjr 3gjs 3gjt 3h0e 3itn 3kjf 3pcx 3pd0 3pd1 4dcj 4dco 4dcp 4eha 4ehd 4ehf 4ehh 4ehk 4ehl 4ehn 4jje 4jqy 4jqz 4jr0 4pry 4ps0 4qtx 4qty 4qu0 4qu5 4qu8 4qu9 4qua 4qub 4qud 4que 4qug 4quh 4qui 4quj 4qul 5i9b 5i9t 5iab 5iae 5iag 5iaj 5iak 5ian 5iar 5ias 5ibc 5ibp 5ibr

(-) Related Entries Specified in the PDB File

5ic6