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(-) Description

Title :  SUBTILISIN-CARLSBERG COMPLEXED WITH XENON (8 BAR)
 
Authors :  T. Prange, M. Schiltz, L. Pernot, N. Colloc'H, S. Longhi
Date :  28 Jul 99  (Deposition) - 04 Aug 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.16
Chains :  Asym./Biol. Unit :  A
Keywords :  Xenon, Serine-Proteinase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Prange, M. Schiltz, L. Pernot, N. Colloc'H, S. Longhi, W. Bourguet, R. Fourme
Exploring Hydrophobic Sites In Proteins With Xenon Or Krypton.
Proteins V. 30 61 1998 (for further references see the PDB file header)

(-) Compounds

Molecule 1 - SUBTILISIN-CARLSBERG
    Chains: A
    EC Number: 3.4.21.62
    Organism Scientific: BACILLUS LICHENIFORMIS
    Organism Taxid: 1402

 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
1CA2Ligand/IonCALCIUM ION
2FMT3Ligand/IonFORMIC ACID
3XE1Ligand/IonXENON

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
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 282
2AC2SOFTWAREALA A:169 , TYR A:171 , VAL A:174 , HOH A:327 , HOH A:397BINDING SITE FOR RESIDUE CA A 284
3AC3SOFTWAREHIS A:64 , ASN A:155 , ASN A:218 , GLY A:219 , THR A:220 , SER A:221BINDING SITE FOR RESIDUE FMT A 285
4AC4SOFTWAREGLY A:100 , SER A:101 , GLY A:102 , GLY A:127 , HOH A:402BINDING SITE FOR RESIDUE FMT A 286
5AC5SOFTWAREGLN A:19 , SER A:130 , HOH A:331BINDING SITE FOR RESIDUE FMT A 287

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1C3L)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:167 -Pro A:168
2Pro A:210 -Thr A:211

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1C3L)

(-) 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 1C3L)

(-) 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 d1c3la_ A: Subtilisin                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1c3lA00 A:1-275  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhh.......eeeeee...........eeeeee............hhhhhhhhhhhh..............eeeeee........hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhhh..eeeee......................eeeeee.................eeee...eeeee...eeeee.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.....hhhhhh....hhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------SUBTILASE_AS-----------------------SUBTILASE_H------------------------------------------------------------------------------------------------------------------------------------------------SUBTILASE_S---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c3l A   1 AQTVPYGIPLIKADKVQAQGFKGANVKVAVLDTGIQASHPDLNVVGGASFVAGEAYNTDGNGHGTHVAGTVAALDNTTGVLGVAPSVSLYAVKVLNSSGSGSYSGIVSGIEWATTNGMDVINMSLGGASGSTAMKQAVDNAYARGVVVVAAAGNSGSSGSTNTIGYPAKYDSVIAVGAVDSNSNRASFSSVGAELEVMAPGAGVYSTYPTNTYATLNGTSMASPHVAGAAALILSKHPNLSASQVRNRLSSTATYLGSSFYYGKGLINVEAAAQ 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)
  - → 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  (0, 0)

(no "Pfam Domain" information available for 1C3L)

(-) 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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  3.4.21.62
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 Related Entries

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

UniProtKB/Swiss-Prot
        SUBT_BACLI | P00780: 1af4 1av7 1avt 1be6 1be8 1bfk 1bfu 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

1av7 SUBTILISIN COMPLEXED WITH A BORONIC INHIBITOR. (AXES X AND Z INVERTED)
1avt SUBTILISIN COMPLEXED WITH A BORONIC INHIBITOR. (AXES X AND Z INVERTED)
1bfk SUBTILISIN IN 40% ACETONITRILE
1bfu SUBTILISIN IN 20% DIOXANE
1sbc FIRST DEPOSITION OF SUSBTILISIN-CARLSBERG
1sca REOLUTION 2A, NO ORGANIC SOLV.