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(-) Description

Title :  Y26F MUTANT OF SO1698 PROTEIN, AN ASPARTIC PEPTIDASE FROM SHEWANELLA ONEIDENSIS
 
Authors :  J. Osipiuk, R. Mulligan, M. Bargassa, F. Collart, A. Joachimiak, Midwe For Structural Genomics (Mcsg)
Date :  17 Jun 10  (Deposition) - 07 Jul 10  (Release) - 31 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.47
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (3x)
Biol. Unit 2:  A,B,C,D  (1x)
Biol. Unit 3:  A,B  (1x)
Biol. Unit 4:  A,C  (3x)
Biol. Unit 5:  C,D  (1x)
Keywords :  Structural Genomics, Aspartic Peptidase, Autocatalysis, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Osipiuk, R. Mulligan, M. Bargassa, J. E. Hamilton, M. A. Cunningham A. Joachimiak
Characterization Of Member Of Duf1888 Protein Family, Self-Cleaving And Self-Assembling Endopeptidase.
J. Biol. Chem. V. 287 19452 2012
PubMed-ID: 22493430  |  Reference-DOI: 10.1074/JBC.M112.358069

(-) Compounds

Molecule 1 - PEPTIDASE
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL DOMAIN 1-116
    Gene: SO_1698
    Mutation: YES
    Organism Scientific: SHEWANELLA ONEIDENSIS
    Organism Taxid: 70863
    Strain: MR-1
 
Molecule 2 - PEPTIDASE
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN 117-125
    Gene: SO_1698
    Organism Scientific: SHEWANELLA ONEIDENSIS
    Organism Taxid: 70863
    Strain: MR-1

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (3x): ABCD
Biological Unit 2 (1x): ABCD
Biological Unit 3 (1x): AB  
Biological Unit 4 (3x): A C 
Biological Unit 5 (1x):   CD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3NJF)

(-) Sites  (0, 0)

(no "Site" information available for 3NJF)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3NJF)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3NJF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3NJF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3NJF)

(-) Exons   (0, 0)

(no "Exon" information available for 3NJF)

(-) 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
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Chain A from PDB  Type:PROTEIN  Length:112
 aligned with Q8EGA7_SHEON | Q8EGA7 from UniProtKB/TrEMBL  Length:125

    Alignment length:112
                                    14        24        34        44        54        64        74        84        94       104       114  
         Q8EGA7_SHEON     5 QGLAQFIKVNVTLENGEPVFIYTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVTISSDGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD 116
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee..eeeeeee.....ee...eee...eeeeeeeee......eeeeeee.........eeee.....eeeeee.....eeeeeeeeee.......ee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 3njf A   5 QGLAQFIKVNVTLENGEPVFIFTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVTISSDGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD 116
                                    14        24        34        44        54        64        74        84        94       104       114  


Chain B from PDB  Type:PROTEIN  Length:7
 aligned with Q8EGA7_SHEON | Q8EGA7 from UniProtKB/TrEMBL  Length:125

    Alignment length:7
         Q8EGA7_SHEON   117 PQIINRP 123
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author .eeee.. Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 3njf B 117 PQIINRP 123


Chain C from PDB  Type:PROTEIN  Length:112
 aligned with Q8EGA7_SHEON | Q8EGA7 from UniProtKB/TrEMBL  Length:125

    Alignment length:112
                                    14        24        34        44        54        64        74        84        94       104       114  
         Q8EGA7_SHEON     5 QGLAQFIKVNVTLENGEPVFIYTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVTISSDGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD 116
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) DUF1888-3njfC01 C:5-116                                                                                          Pfam domains (1)
           Pfam domains (2) DUF1888-3njfC02 C:5-116                                                                                          Pfam domains (2)
         Sec.struct. author .eeeeeeeeeeeee..eeeeeee.....ee...eee...eeeeeeeee......eeeeeee.........eeee.....eeeeee.....eeeeeeeeee.......ee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 3njf C   5 QGLAQFIKVNVTLENGEPVFIFTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVTISSDGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD 116
                                    14        24        34        44        54        64        74        84        94       104       114  


Chain D from PDB  Type:PROTEIN  Length:7
 aligned with Q8EGA7_SHEON | Q8EGA7 from UniProtKB/TrEMBL  Length:125

    Alignment length:7
         Q8EGA7_SHEON   117 PQIINRP 123
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author .eeee.. Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 3njf D 117 PQIINRP 123
   Legend:   → Mismatch (orange background)
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  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 3NJF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3NJF)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: DUF1888] (9)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q8EGA7_SHEON | Q8EGA7)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8EGA7_SHEON | Q8EGA7: 3n55 3njg 3njh 3nji 3njj 3njk 3njl 3njm 3njn

(-) Related Entries Specified in the PDB File

3n55 WILD-TYPE SO1698 PROTEIN, AN ASPARTIC PEPTIDASE FROM SHEWANELLA ONEIDENSIS.
3njg
3njh
3nji
3njj
3njk
3njl
3njm
3njn RELATED ID: APC83618 RELATED DB: TARGETDB