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(-) Description

Title :  T190P STREPTOMYCES GRISEUS TRYPSIN IN COMPLEX WITH BENZAMIDINE
 
Authors :  M. J. Page, S. L. Wong, J. Hewitt, N. C. Strynadka, R. T. Macgillivray
Date :  20 Mar 03  (Deposition) - 19 Aug 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.93
Chains :  Asym./Biol. Unit :  A
Keywords :  Trypsin, Serine Protease, Mutant, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Page, S. L. Wong, J. Hewitt, N. C. Strynadka, R. T. Macgillivray
Engineering The Primary Substrate Specificity Of Streptomyces Griseus Trypsin.
Biochemistry V. 42 9060 2003
PubMed-ID: 12885239  |  Reference-DOI: 10.1021/BI0344230
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRYPSIN
    Chains: A
    EC Number: 3.4.21.4
    Engineered: YES
    Expression System: BACILLUS SUBTILIS
    Expression System Plasmid: PWB980
    Expression System Strain: WB700
    Expression System Taxid: 1423
    Expression System Vector Type: PLASMID
    Gene: SPRT
    Mutation: YES
    Organism Scientific: STREPTOMYCES GRISEUS
    Organism Taxid: 1911
    Synonym: SGT

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1BEN1Ligand/IonBENZAMIDINE
2CA1Ligand/IonCALCIUM ION
3SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:145 , GLY A:149 , SER A:150 , HOH A:396 , HOH A:442BINDING SITE FOR RESIDUE SO4 A 247
2AC2SOFTWAREHIS A:57 , SER A:164 , ASP A:165 , ALA A:166 , GLN A:192 , SER A:195 , BEN A:246 , HOH A:279 , HOH A:297 , HOH A:441BINDING SITE FOR RESIDUE SO4 A 248
3AC3SOFTWAREASP A:165 , GLU A:180 , GLU A:230 , HOH A:294BINDING SITE FOR RESIDUE CA A 249
4AC4SOFTWAREASP A:189 , PRO A:190 , CYS A:191 , GLN A:192 , SER A:195 , VAL A:213 , TRP A:215 , GLY A:219 , GLY A:226 , SO4 A:248 , HOH A:292BINDING SITE FOR RESIDUE BEN A 246

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:42 -A:58
2A:168 -A:182
3A:191 -A:220

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1OSS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.TRYP_STRGR37-257  1A:16-243
2TRYPSIN_HISPS00134 Serine proteases, trypsin family, histidine active site.TRYP_STRGR69-74  1A:53-58
3TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.TRYP_STRGR202-213  1A:189-200

(-) Exons   (0, 0)

(no "Exon" information available for 1OSS)

(-) 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:223
 aligned with TRYP_STRGR | P00775 from UniProtKB/Swiss-Prot  Length:259

    Alignment length:223
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256   
          TRYP_STRGR     37 VVGGTRAAQGEFPFMVRLSMGCGGALYAQDIVLTAAHCVSGSGNNTSITATGGVVDLQSSSAVKVRSTKVLQAPGYNGTGKDWALIKLAQPINQPTLKIATTTAYNQGTFTVAGWGANREGGSQQRYLLKANVPFVSDAACRSAYGNELVANEEICAGYPDTGGVDTCQGDSGGPMFRKDNADEWIQVGIVSWGYGCARPGYPGVYTEVSTFASAIASAARTL  259
               SCOP domains d1ossa_ A: Trypsin                                                                                                                                                                                                              SCOP domains
               CATH domains 1ossA01     1ossA02 A:28-120,A:233-245 Trypsin-like serine proteases                            1ossA01 A:16-27,A:121-232 Trypsin-like serine proteases                                                           1ossA02       CATH domains
               Pfam domains Trypsin-1ossA01 A:16-238                                                                                                                                                                                                ------- Pfam domains
         Sec.struct. author ....ee........eeee...eeeeeee..eeeehhhhh...ee....eeee..........eeeeeeeeee...........eeeee.........ee.........eeeeee..............eeeeeeeehhhhhhhhhhhhh....eeee.................eeeee.....eeeeeeeee..........eeeeehhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TRYPSIN_DOM  PDB: A:16-243 UniProt: 37-257                                                                                                                                                                                   -- PROSITE (1)
                PROSITE (2) --------------------------------TRYPSI-------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ---------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1oss A   16 VVGGTRAAQGEFPFMVRLSMGCGGALYAQDIVLTAAHCVSGSGNNTSITATGGVVDLQSSSAVKVRSTKVLQAPGYNGTGKDWALIKLAQPINQPTLKIATTTAYNQGTFTVAGWGANREGGSQQRYLLKANVPFVSDAACRSAYGNELVANEEICAGYPDTGGVDPCQGDSGGPMFRKDNADEWIQVGIVSWGYGCARPGYPGVYTEVSTFASAIASAARTL  245
                                    25        35|       50        60||||    66      ||77|       88       100       110  ||   124||     136       146|      157       167       177|     185A||     193       203 |     212    || 223|      232       242   
                                              35|                 60A|||           73| ||               96||          113|    125|               146|                          177A     185A||                204A          217| 223A                      
                                               41                  60B||            75 ||                98|           118     128                148                                    185B|                               219                           
                                                                    60C|              77|                100                                                                              185C                                                             
                                                                     60D               79
   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: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Peptidase_PA (797)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (TRYP_STRGR | P00775)
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: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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  TRYP_STRGR | P00775
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 Related Entries

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

UniProtKB/Swiss-Prot
        TRYP_STRGR | P00775: 1os8 1sgt 2fmj 3beu 3i77 3i78

(-) Related Entries Specified in the PDB File

1os8 RECOMBINANT STREPTOMYCES GRISEUS TRYPSIN
1sgt NATIVE STREPTOMYCES GRISEUS TRYPSIN