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(-) Description

Title :  CRYO-EM RECONSTRUCTION OF CASPASE-1 CARD
 
Authors :  Y. Li, A. Lu, F. I. Schmidt, Q. Yin, S. Chen, T. M. Fu, A. B. Tong, H. L. Ploeg H. Wu
Date :  11 Nov 15  (Deposition) - 30 Mar 16  (Release) - 18 May 16  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  4.80
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H
Keywords :  Hydrolase, Card, Inflammasome, Filament, Signalosome, Helical Reconstruction, Death Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Li, A. Lu, F. I. Schmidt, Q. Yin, S. Chen, T. M. Fu, A. B. Tong, H. L. Ploegh, Y. Mao, H. Wu
Molecular Basis Of Caspase-1 Polymerization And Its Inhibition By A Novel Capping Mechanism
Nat. Struct. Mol. Biol. V. 23 416 2016
PubMed-ID: 27043298  |  Reference-DOI: 10.1038/NSMB.3199

(-) Compounds

Molecule 1 - CASPASE-1
    ChainsA, B, C, D, E, F, G, H
    EC Number3.4.22.36
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPDB-HIS-MBP
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    FragmentCARD DOMAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCASP-1, INTERLEUKIN-1 BETA CONVERTASE, IL-1BC, INTERLEUKIN- 1 BETA-CONVERTING ENZYME, ICE, IL-1 BETA-CONVERTING ENZYME, P45

 Structural Features

(-) Chains, Units

  12345678
Asymmetric/Biological Unit ABCDEFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5FNA)

(-) Sites  (0, 0)

(no "Site" information available for 5FNA)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Lys A:8 -Arg A:9
2Lys B:8 -Arg B:9
3Lys C:8 -Arg C:9
4Lys D:8 -Arg D:9
5Lys E:8 -Arg E:9
6Lys F:8 -Arg F:9
7Lys G:8 -Arg G:9
8Lys H:8 -Arg H:9

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FNA)

(-) 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:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna A  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain B from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna B  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain C from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna C  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain D from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna D  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain E from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna E  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain F from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna F  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain G from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna G  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

Chain H from PDB  Type:PROTEIN  Length:85
                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  5fna H  1 ADKVLKEKRKLFIRSMGEGTINGLLDELLQTRVLNKEEMEKVKRENATVMDKTRALIDSVIPKGAQACQICITYICEEDSYLAGT 85
                                    10        20        30        40        50        60        70        80     

   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 5FNA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (40, 40)

Asymmetric/Biological Unit(hide GO term definitions)

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Asymmetric/Biological Unit
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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 5fna)
 
  Cis Peptide Bonds
    Lys A:8 - Arg A:9   [ RasMol ]  
    Lys B:8 - Arg B:9   [ RasMol ]  
    Lys C:8 - Arg C:9   [ RasMol ]  
    Lys D:8 - Arg D:9   [ RasMol ]  
    Lys E:8 - Arg E:9   [ RasMol ]  
    Lys F:8 - Arg F:9   [ RasMol ]  
    Lys G:8 - Arg G:9   [ RasMol ]  
    Lys H:8 - Arg H:9   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        CASP1_HUMAN | P294661bmq 1ibc 1ice 1rwk 1rwm 1rwn 1rwo 1rwp 1rwv 1rww 1rwx 1sc1 1sc3 1sc4 2fqq 2h48 2h4w 2h4y 2h51 2h54 2hbq 2hbr 2hby 2hbz 3d6f 3d6h 3d6m 3e4c 3ns7

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5FNA)