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(-) Description

Title :  PSEUDOMONAS SERINE-CARBOXYL PROTEINASE COMPLEXED WITH THE INHIBITOR CHYMOSTATIN (THIS ENZYME RENAMED "SEDOLISIN" IN 2003)
 
Authors :  A. Wlodawer, M. Li, A. Gustchina, Z. Dauter, K. Uchida, H. Oyama, N. E. Go B. M. Dunn, K. Oda
Date :  14 Nov 01  (Deposition) - 12 Dec 01  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Serine-Carboxyl Proteinase, Hydrolase, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Wlodawer, M. Li, A. Gustchina, Z. Dauter, K. Uchida, H. Oyama, N. E. Goldfarb, B. M. Dunn, K. Oda
Inhibitor Complexes Of The Pseudomonas Serine-Carboxyl Proteinase.
Biochemistry V. 40 15602 2001
PubMed-ID: 11747435  |  Reference-DOI: 10.1021/BI011817N

(-) Compounds

Molecule 1 - SERINE-CARBOXYL PROTEINASE
    Chains: A
    EC Number: 3.4.23.33
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: PSEUDOMONAS SP.
    Organism Taxid: 306
    Synonym: PSCP, PSEUDOMONAPEPSIN, PEPSTATIN-INSENSITIVE CARBOXYL PROTEINASE
 
Molecule 2 - CHYMOSTATIN
    Chains: B
    Engineered: YES
    Other Details: THE INHIBITOR WAS CHEMICALLY SYNTHESIZED.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2CSI1Mod. Amino AcidAMINO-(2-IMINO-HEXAHYDRO-PYRIMIDIN-4-YL)-ACETIC ACID
3PHA1Mod. Amino AcidPHENYLALANINAL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:328 , VAL A:329 , GLY A:344 , GLY A:346 , ASP A:348 , HOH A:401BINDING SITE FOR RESIDUE CA A 901
2AC2SOFTWAREGLU A:80 , SER A:133 , LEU A:134 , GLY A:135 , TRP A:136 , SER A:167 , GLY A:169 , ASP A:170 , GLU A:171 , ARG A:179 , SER A:190 , SER A:287 , HOH B:637BINDING SITE FOR CHAIN B OF CHYMOSTATIN

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:137 -A:176

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Trp A:191 -Pro A:192
2Leu A:259 -Pro A:260

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KE2)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SEDOLISINPS51695 Sedolisin domain profile.PICP_PSESR219-583  1A:4-368

(-) Exons   (0, 0)

(no "Exon" information available for 1KE2)

(-) 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:367
 aligned with PICP_PSESR | P42790 from UniProtKB/Swiss-Prot  Length:587

    Alignment length:367
                                   228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       
           PICP_PSESR   219 TAKGHNPTEFPTIYDASSAPTAANTTVGIITIGGVSQTLQDLQQFTSANGLASVNTQTIQTGSSNGDYSDDQQGQGEWDLDSQSIVGSAGGAVQQLLFYMADQSASGNTGLTQAFNQAVSDNVAKVINVSLGWCEADANADGTLQAEDRIFATAAAQGQTFSVSSGDEGVYECNNRGYPDGSTYSVSWPASSPNVIAVGGTTLYTTSAGAYSNETVWNEGLDSNGKLWATGGGYSVYESKPSWQSVVSGTPGRRLLPDISFDAAQGTGALIYNYGQLQQIGGTSLASPIFVGLWARLQSANSNSLGFPAASFYSAISSTPSLVHDVKSGNNGYGGYGYNAGTGWDYPTGWGSLDIAKLSAYIRSNGF 585
               SCOP domains d1ke2a_ A: Serine-carboxyl proteinase, SCP                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 1ke2A00 A:4-370  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                                                                                                            CATH domains
               Pfam domains -------------------------Peptidase_S8-1ke2A01 A:29-363                                                                                                                                                                                                                                                                                                                  ------- Pfam domains
         Sec.struct. author .....hhhhhhhhh.......eeeeeeeeeee..hhhhhhhhhhhhhhh......eeeee..........hhhhhhhhhhhhhhhhhhh...eeeeeeeee......hhhhhhhhhhhhhhh...eeee...eehhhhhhhhhhhhhhhhhhhhhhh..eeeee......................ee.......eeeeeeeeee.....eeeeee.eeee.....eee...eeeeeee.hhhhhhh.....eeee..eeee.hhhhheeeee..eeeee.hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh...ee...........................eehhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE SEDOLISIN  PDB: A:4-368 UniProt: 219-583                                                                                                                                                                                                                                                                                                                                     -- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ke2 A   4 TAKGHNPTEFPTIYDASSAPTAANTTVGIITIGGVSQTLQDLQQFTSANGLASVNTQTIQTGSSNGDYSDDQQGQGEWDLDSQSIVGSAGGAVQQLLFYMADQSASGNTGLTQAFNQAVSDNVAKVINVSLGWCEADANADGTLQAEDRIFATAAAQGQTFSVSSGDEGVYECNNRGYPDGSTYSVSWPASSPNVIAVGGTTLYTTSAGAYSNETVWNEGLDSNGKLWATGGGYSVYESKPSWQSVVSGTPGRRLLPDISFDAAQGTGALIYNYGQLQQIGGTSLASPIFVGLWARLQSANSNSLGFPAASFYSAISSTPSLVHDVKSGNNGYGGYGYNAGTGWDYPTGWGSLDIAKLSAYIRSNGF 370
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       


Chain B from PDB  Type:PROTEIN  Length:3
                                   
               SCOP domains --- SCOP domains
               CATH domains --- CATH domains
               Pfam domains --- Pfam domains
         Sec.struct. author ... Sec.struct. author
                 SAPs(SNPs) --- SAPs(SNPs)
                    PROSITE --- PROSITE
                 Transcript --- Transcript
                 1ke2 B   2 xLf   4
                            | |
                            2-CSI
                              4-PHA
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Peptidase_S8] (104)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PICP_PSESR | P42790)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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  3.4.23.33
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 Related Entries

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

UniProtKB/Swiss-Prot
        PICP_PSESR | P42790: 1ga1 1ga4 1ga6 1kdv 1kdy 1kdz 1ke1 1nlu

(-) Related Entries Specified in the PDB File

1ga1 PSCP WITH AN INHIBITOR BOUND IN THE P' SITE
1ga4 PSCP WITH AN INHIBITOR COVALENTLY BOUND
1ga6 NATIVE PSCP STRUCTURE
1kdv PSEUDOMONAS SERINE-CARBOXYL PROTEINASE COMPLEXED WITH THE INHIBITOR AIAF
1kdy PSEUDOMONAS SERINE-CARBOXYL PROTEINASE COMPLEXED WITH THE INHIBITOR AIPF
1kdz PSEUDOMONAS SERINE-CARBOXYL PROTEINASE COMPLEXED WITH THE INHIBITOR TYROSTATIN
1ke1 PSEUDOMONAS SERINE-CARBOXYL PROTEINASE COMPLEXED WITH THE INHIBITOR PSEUDOTYROSTATIN