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(-) Description

Title :  STRUCTURAL INSIGHT INTO ZYMOGENIC LATENCY OF GINGIPAIN K FROM PORPHYROMONAS GINGIVALIS.
 
Authors :  A. Pomowski, I. Uson, Z. Nowakovska, F. Veillard, M. N. Sztukowska, T. G T. Goulas, D. Mizgalska, M. Nowak, B. Potempa, J. A. Huntington, J. Pot F. X. Gomis-Ruth
Date :  13 Jan 17  (Deposition) - 22 Feb 17  (Release) - 19 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cysteine Protease, Zymogenic Latency, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Pomowski, I. Uson, Z. Nowakowska, F. Veillard, M. N. Sztukowska, T. Guevara, T. Goulas, D. Mizgalska, M. Nowak, B. Potempa, J. A. Huntington, J. Potempa, F. X. Gomis-Ruth
Structural Insights Unravel The Zymogenic Mechanism Of The Virulence Factor Gingipain K From Porphyromonas Gingivalis, A Causative Agent Of Gum Disease From The Human Oral Microbiome.
J. Biol. Chem. V. 292 5724 2017
PubMed-ID: 28196869  |  Reference-DOI: 10.1074/JBC.M117.776724

(-) Compounds

Molecule 1 - LYS-GINGIPAIN W83
    Chains: A, B
    EC Number: 3.4.22.47
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 20-228
    Gene: KGP, PRTK, PRTP
    Organism Scientific: PORPHYROMONAS GINGIVALIS
    Organism Taxid: 837
    Other Details: THE CLONING STRATEGY ENTAILED THAT PENTAPEPTIDE G-P-L- G-S FROM THE EXPRESSION VECTOR WAS ATTACHED TO THE N-TERMINUS OF THE RECOMBINANT PROTEIN.
    Synonym: LYSINE SPECIFIC CYSTEINE PROTEASE,LYSINE-SPECIFIC CYSTEINE PROTEINASE,PORPHYPAIN,PRTK48

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1AZI1Ligand/IonAZIDE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:33 , CYS A:35 , THR B:33 , CYS B:35binding site for residue AZI A 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5MUN)

(-) Sequences/Alignments

Asymmetric/Biological Unit
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  Number of residues per labelling interval =   
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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:182
                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee......eeeeeeee..eeeeeee..eeeeeeeee..eeeeeee....eee.......eeeeeeeeee....eeeeeeeeeeeeeee....................hhhhh......hhhhh........eeeeeeeee..eeeeeeee..eeee....eeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mun A  20 QSAKIKLDAPTTRTTCTNNSFKQFDASFSFNEVELTKVETKGGTFASVSIPGAFPTGEVGSPEVPAVRKLIAVPVGATPVVRVKSFTEQVYSLNQYGSEKLMPHQPSMSKSDDPEKVPFVYNAAAYARKGFVGQELTQVEMLGTMRGVRIAALTINPVQYDVVANQLKVRNNIEIEVSFQGA 201
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199  


Chain B from PDB  Type:PROTEIN  Length:177
                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee......eeeeee....eeeeeee..eeeeeeeee..eeeeeee....eee.......eeeeeeeeee.....eeeeeeeeeeeeee..........................hhhhh........eeeeeeeee..eeeeeeee..eeee....eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mun B  -2 GSQSAKIKLDAPTTRTTCTNNSFKQFDASFSFNEVELTKVETKGGTFASVSIPGAFPTGEVGSPEVPAVRKLIAVPVGATPVVRVKSFTEQVYSLNQYGSEKLMPHQPSMPEKVPFVYNAAAYARKGFVGQELTQVEMLGTMRGVRIAALTINPVQYDVVANQLKVRNNIEIEVSFQ 199
                             ||     27        37        47        57        67        77        87        97       107       117       127|      142       152       162       172       182       192       
                            -1|                                                                                                        127|                                                                  
                             20                                                                                                         133
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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 5MUN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

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        KGP83_PORGN | Q51817: 3km5 3m1h 4itc 4rbm 4tkx

(-) Related Entries Specified in the PDB File

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