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(-) Description

Title :  S41 PSYCHROPHILIC PROTEASE
 
Authors :  R. L. Walter, M. J. Mekel, R. A. Grayling, F. H. Arnold, P. L. Wintrode, O. Almog
Date :  03 Apr 06  (Deposition) - 01 May 07  (Release) - 28 Apr 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  S41 Protease Ta41 Psychrophilic, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Almog, A. Gonzalez, N. Godin, M. De Leeuw, M. J. Mekel, D. Klein, S. Braun, G. Shoham, R. L. Walter
The Crystal Structures Of The Psychrophilic Subtilisin S41 And The Mesophilic Subtilisin Sph Reveal The Same Calcium-Loaded State.
Proteins V. 74 489 2009
PubMed-ID: 18655058  |  Reference-DOI: 10.1002/PROT.22175
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MICROBIAL SERINE PROTEINASES; SUBTILISIN
    Chains: A
    EC Number: 3.4.21.62
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: S41
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Strain: TA41

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2NA1Ligand/IonSODIUM ION
3PMS1Ligand/IonBENZYLSULFINIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:29 , GLU A:49 , ASP A:97 , HOH A:630 , HOH A:657 , HOH A:1126BINDING SITE FOR RESIDUE CA A 610
2AC2SOFTWARETHR A:213 , ASP A:216 , VAL A:218 , GLN A:220 , ASP A:223 , HOH A:626BINDING SITE FOR RESIDUE CA A 611
3AC3SOFTWAREASP A:286 , ILE A:287 , GLY A:294 , GLY A:296 , ASP A:298 , HOH A:642BINDING SITE FOR RESIDUE CA A 612
4AC4SOFTWAREASP A:114 , HOH A:775 , HOH A:829 , HOH A:892 , HOH A:893 , HOH A:1029BINDING SITE FOR RESIDUE CA A 613
5AC5SOFTWAREGLY A:180 , ALA A:181 , LEU A:182 , ALA A:185 , HOH A:624 , HOH A:641BINDING SITE FOR RESIDUE NA A 614
6AC6SOFTWAREGLN A:69 , HIS A:71 , ASN A:168 , ILE A:245 , THR A:248 , SER A:249 , MET A:250 , HOH A:896 , HOH A:930 , HOH A:960BINDING SITE FOR RESIDUE PMS A 601

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:51 -A:65

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Thr A:58 -Asn A:59
2Asp A:106 -Asp A:107
3Gly A:170 -Pro A:171
4Tyr A:178 -Pro A:179

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2GKO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2GKO)

(-) Exons   (0, 0)

(no "Exon" information available for 2GKO)

(-) 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:309
 aligned with Q45681_BACIU | Q45681 from UniProtKB/TrEMBL  Length:419

    Alignment length:309
                                   120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410         
         Q45681_BACIU   111 AASQSTPWGIKAIYNNSNLTSTSGGAGINIAVLDTGVNTNHPDLSNNVEQCKDFTVGTNFTDNSCTDRQGHGTHVAGSALANGGTGSGVYGVAPEADLWAYKVLGDDGSGYADDIAEAIRHAGDQATALNTKVVINMSLGSSGESSLITNAVDYAYDKGVLIIAAAGNSGPKPGSIGYPGALVNAVAVAALENTIQNGTYRVADFSSRGHKRTAGDYVIQKGDVEISAPGAAVYSTWFDGGYATISGTSMASPHAAGLAAKIWAQSPAASNVDVRGELQTRASVNDILSGNSAGSGDDIASGFGFAKVQ 419
               SCOP domains d2gkoa_ A: automated matches                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 2gkoA00 A:1-309  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhh.............eeeeee.........hhh.eeeeee.......ee.......hhhhhhhhhhhh...............eeeeee........hhhhhhhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhh..eeeee....................eeeeeeeeeee..eeee.......hhhhh...........eeee...eeee.....eeee.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh......................... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gko A   1 AASQSTPWGIKAIYNNSNLTSTSGGAGINIAVLDTGVNTNHPDLSNNVEQCKDFTVGTNFTDNSCTDRQGHGTHVAGSALANGGTGSGVYGVAPEADLWAYKVLGDDGSGYADDIAEAIRHAGDQATALNTKVVINMSLGSSGESSLITNAVDYAYDKGVLIIAAAGNSGPKPGSIGYPGALVNAVAVAALENTIQNGTYRVADFSSRGHKRTAGDYVIQKGDVEISAPGAAVYSTWFDGGYATISGTSMASPHAAGLAAKIWAQSPAASNVDVRGELQTRASVNDILSGNSAGSGDDIASGFGFAKVQ 309
                                    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
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "Pfam Domain" information available for 2GKO)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q45681_BACIU | Q45681)
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.

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 Related Entries

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(-) Related Entries Specified in the PDB File

1ea7 CALCIUM LOADED SERINE PROTEASE