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(-) Description

Title :  HIGH RESOLUTION CRYSTAL STRUCTURE OF A THERMOSTABLE SERINE-CARBOXYL TYPE PROTEINASE, KUMAMOLISIN (KSCP)
 
Authors :  M. Comellas-Bigler, P. Fuentes-Prior, K. Maskos, R. Huber, H. Oyama, K. Uchida, B. M. Dunn, K. Oda, W. Bode
Date :  14 Jan 02  (Deposition) - 13 Jun 02  (Release) - 21 Apr 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.38
Chains :  Asym./Biol. Unit :  1,2
Keywords :  Hydrolase, Serine-Carboxyl Type Proteinase, Thermostable (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Comellas-Bigler, P. Fuentes-Prior, K. Maskos, R. Huber, H. Oyama, K. Uchida, B. M. Dunn, K. Oda, W. Bode
The 1. 4 A Crystal Structure Of Kumamolysin. A Thermostable Serine-Carboxyl-Type Proteinase
Structure V. 10 865 2002
PubMed-ID: 12057200  |  Reference-DOI: 10.1016/S0969-2126(02)00772-4

(-) Compounds

Molecule 1 - KUMAMOLYSIN
    Chains: 1, 2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PS3-A1
    Expression System Strain: JM 109
    Expression System Taxid: 562
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Other Details: BACTERIUM FOUND IN HOTSPRING WATER NEAR VOLCANOES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : 12

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP 1:316 , ILE 1:317 , GLY 1:334 , GLY 1:336 , ASP 1:338 , HOH 1:2278BINDING SITE FOR RESIDUE CA 11358
2AC2SOFTWARESER 1:198 , ALA 1:199 , GLY 1:200 , ARG 1:201 , HOH 1:2284 , HOH 1:2285 , PRO 2:228 , SER 2:229BINDING SITE FOR RESIDUE SO4 11359
3AC3SOFTWAREASP 2:316 , ILE 2:317 , GLY 2:334 , GLY 2:336 , ASP 2:338 , HOH 2:2274BINDING SITE FOR RESIDUE CA 21358
4AC4SOFTWARESER 2:198 , ALA 2:199 , GLY 2:200 , ARG 2:201 , HOH 2:2281BINDING SITE FOR RESIDUE SO4 21359

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1GT9)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Phe 1:180 -Pro 1:181
2Val 1:250 -Pro 1:251
3Ile 1:330 -Tyr 1:331
4Ala 2:2 -Pro 2:3
5Phe 2:180 -Pro 2:181
6Val 2:250 -Pro 2:251
7Ile 2:330 -Tyr 2:331

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1GT9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1GT9)

(-) Exons   (0, 0)

(no "Exon" information available for 1GT9)

(-) 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 1 from PDB  Type:PROTEIN  Length:357
 aligned with Q8RR56_9BACI | Q8RR56 from UniProtKB/TrEMBL  Length:552

    Alignment length:357
                                   198       208       218       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       
         Q8RR56_9BACI   189 AAPTAYTPLDVAQAYQFPEGLDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTGDPNGPDGEVELDIEVAGALAPGAKIAVYFAPNTDAGFLNAITTAVHDPTHKPSIVSISWGGPEDSWAPASIAAMNRAFLDAAALGVTVLAAAGDSGSTDGEQDGLYHVDFPAASPYVLACGGTRLVASAGRIERETVWNDGPDGGSTGGGVSRIFPLPSWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFAALVARINQKLGKPVGYLNPTLYQLPPEVFHDITEGNNDIANRARIYQAGPGWDPCTGLGSPIGIRLLQALLP 545
               SCOP domains d1gt91_ 1: Serine-carboxyl proteinase, SCP                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 1gt9100 1:1-357  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeehhhhhhhhh...........eeeeee.....hhhhhhhhhhhh......eeeee..............hhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhh......eeee...ee.hhhhhhhhhhhhhhhhhhhhh..eeeee.................ee.......eeeeeeeeee....eeeeee..hhhhhh....ee......hhhhh................ee..eeee....eeeeeee..eeeee.hhhhhhhhhhhhhhhhhhhhh.....hhhhhh..hhh.ee.............................eehhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gt9 1   1 AAPTAYTPLDVAQAYQFPEGLDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTGDPNGPDGEVELDIEVAGALAPGAKIAVYFAPNTDAGFLNAITTAVHDPTHKPSIVSISWGGPEDSWAPASIAAMNRAFLDAAALGVTVLAAAGDSGSTDGEQDGLYHVDFPAASPYVLACGGTRLVASAGRIERETVWNDGPDGGSTGGGVSRIFPLPSWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFAALVARINQKLGKPVGYLNPTLYQLPPEVFHDITEGNNDIANRARIYQAGPGWDPCTGLGSPIGIRLLQALLP 357
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       


Chain 2 from PDB  Type:PROTEIN  Length:357
 aligned with Q8RR56_9BACI | Q8RR56 from UniProtKB/TrEMBL  Length:552

    Alignment length:357
                                   198       208       218       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       
         Q8RR56_9BACI   189 AAPTAYTPLDVAQAYQFPEGLDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTGDPNGPDGEVELDIEVAGALAPGAKIAVYFAPNTDAGFLNAITTAVHDPTHKPSIVSISWGGPEDSWAPASIAAMNRAFLDAAALGVTVLAAAGDSGSTDGEQDGLYHVDFPAASPYVLACGGTRLVASAGRIERETVWNDGPDGGSTGGGVSRIFPLPSWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFAALVARINQKLGKPVGYLNPTLYQLPPEVFHDITEGNNDIANRARIYQAGPGWDPCTGLGSPIGIRLLQALLP 545
               SCOP domains d1gt92_ 2: Serine-carboxyl proteinase, SCP                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 1gt9200 2:1-357  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eehhhhhhhhh...........eeeeee.....hhhhhhhhhhhh......eeeee.............hhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhh......eeee...ee.hhhhhhhhhhhhhhhhhhhhh..eeeee....hhhh.........ee.......eeeeeeeeee....eeeeee..hhhhhh....ee......hhhhh................ee..eeee.hhhheeeeee..eeeee.hhhhhhhhhhhhhhhhhhhhh.....hhhhhh..hhh.ee.............................eehhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gt9 2   1 AAPTAYTPLDVAQAYQFPEGLDGQGQCIAIIELGGGYDETSLAQYFASLGVSAPQVVSVSVDGATNQPTGDPNGPDGEVELDIEVAGALAPGAKIAVYFAPNTDAGFLNAITTAVHDPTHKPSIVSISWGGPEDSWAPASIAAMNRAFLDAAALGVTVLAAAGDSGSTDGEQDGLYHVDFPAASPYVLACGGTRLVASAGRIERETVWNDGPDGGSTGGGVSRIFPLPSWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFAALVARINQKLGKPVGYLNPTLYQLPPEVFHDITEGNNDIANRARIYQAGPGWDPCTGLGSPIGIRLLQALLP 357
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350
   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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1GT9)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain 1,2   (Q8RR56_9BACI | Q8RR56)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8RR56_9BACI | Q8RR56: 1gtg 1gtj 1gtl 1t1e 1t1g 1t1i

(-) Related Entries Specified in the PDB File

1gtg CRYSTAL STRUCTURE OF THE THERMOSTABLE SERINE- CARBOXYL TYPE PROTEINASE, KUMAMOLYSIN