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(-) Description

Title :  CRYSTAL STRUCTURE OF SUBTILISIN CARLSBERG IN 40% ACETONITRILE
 
Authors :  J. L. Schmitke, L. J. Stern, A. M. Klibanov
Date :  21 May 98  (Deposition) - 28 Oct 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Serine Protease, Organic Solvent, Mixtures (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. L. Schmitke, L. J. Stern, A. M. Klibanov
Organic Solvent Binding To Crystalline Subtilisin1 In Mostly Aqueous Media And In The Neat Solvents.
Biochem. Biophys. Res. Commun. V. 248 273 1998
PubMed-ID: 9675126  |  Reference-DOI: 10.1006/BBRC.1998.8937
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SUBTILISIN CARLSBERG
    ChainsA
    EC Number3.4.21.62
    Organism ScientificBACILLUS LICHENIFORMIS
    Organism Taxid1402

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2CCN5Ligand/IonACETONITRILE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:2 , ASP A:41 , LEU A:75 , ASN A:77 , THR A:79 , VAL A:81BINDING SITE FOR RESIDUE CA A 276
2AC2SOFTWAREHIS A:64 , ASN A:155 , SER A:221 , CCN A:355 , CCN A:357BINDING SITE FOR RESIDUE CCN A 354
3AC3SOFTWAREHIS A:64 , SER A:125 , LEU A:126 , CCN A:354BINDING SITE FOR RESIDUE CCN A 355
4AC4SOFTWARESER A:99 , LYS A:265BINDING SITE FOR RESIDUE CCN A 356
5AC5SOFTWARESER A:125 , ALA A:152 , GLY A:154 , SER A:221 , CCN A:354BINDING SITE FOR RESIDUE CCN A 357
6AC6SOFTWAREGLN A:36 , THR A:59 , ASP A:60 , HOH A:339BINDING SITE FOR RESIDUE CCN A 358
7ACTUNKNOWNASP A:32 , HIS A:64 , SER A:221NULL

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:167 -Pro A:168

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SUBTILASE_ASPPS00136 Serine proteases, subtilase family, aspartic acid active site.SUBT_BACLI133-144  1A:28-39
2SUBTILASE_HISPS00137 Serine proteases, subtilase family, histidine active site.SUBT_BACLI168-178  1A:64-74
3SUBTILASE_SERPS00138 Serine proteases, subtilase family, serine active site.SUBT_BACLI323-333  1A:219-229

(-) Exons   (0, 0)

(no "Exon" information available for 1BFK)

(-) 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:274
 aligned with SUBT_BACLI | P00780 from UniProtKB/Swiss-Prot  Length:379

    Alignment length:274
                                   115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375    
           SUBT_BACLI   106 AQTVPYGIPLIKADKVQAQGFKGANVKVAVLDTGIQASHPDLNVVGGASFVAGEAYNTDGNGHGTHVAGTVAALDNTTGVLGVAPSVSLYAVKVLNSSGSGTYSGIVSGIEWATTNGMDVINMSLGGPSGSTAMKQAVDNAYARGVVVVAAAGNSGSSGNTNTIGYPAKYDSVIAVGAVDSNSNRASFSSVGAELEVMAPGAGVYSTYPTSTYATLNGTSMASPHVAGAAALILSKHPNLSASQVRNRLSSTATYLGSSFYYGKGLINVEAAAQ 379
               SCOP domains d1bfka_ A: Subtilisin                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1bfkA00 A:1-275  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhh......eeeeeee..........eeeeeeee...........hhhhhhhhhhhh..............eeeeeee.......hhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhh.eeeeee.....................eeeeee................eeeeee.................hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh...........eeeehhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------SUBTILASE_AS-----------------------SUBTILASE_H------------------------------------------------------------------------------------------------------------------------------------------------SUBTILASE_S---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1bfk A   1 AQTVPYGIPLIKADKVQAQGFKGANVKVAVLDTGIQASHPDLNVVGGASFVAGEAYNTDGNGHGTHVAGTVAALDNTTGVLGVAPSVSLYAVKVLNSSGSGSYSGIVSGIEWATTNGMDVINMSLGGASGSTAMKQAVDNAYARGVVVVAAAGNSGNSGSTNTIGYPAKYDSVIAVGAVDSNSNRASFSSVGAELEVMAPGAGVYSTYPTNTYATLNGTSMASPHVAGAAALILSKHPNLSASQVRNRLSSTATYLGSSFYYGKGLINVEAAAQ 275
                                    10        20        30        40        50    ||  61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271    
                                                                                 55|                                                                                                                                                                                                                          
                                                                                  57                                                                                                                                                                                                                          

   Legend:   → Mismatch (orange background)
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    → 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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SUBT_BACLI | P00780)
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.
    GO:0030435    sporulation resulting in formation of a cellular spore    The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SUBT_BACLI | P007801af4 1av7 1avt 1be6 1be8 1bfu 1c3l 1cse 1oyv 1r0r 1sbc 1sca 1scb 1scd 1scn 1sel 1vsb 1yu6 2sec 2wuv 2wuw 3unx 3vsb 4c3u 4c3v

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1BFK)