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(-) Description

Title :  AQUALYSIN I: THE CRYSTAL STRUCTURE OF A SERINE PROTEASE FROM AN EXTREME THERMOPHILE, THERMUS AQUATICUS YT-1
 
Authors :  B. L. Barnett, P. R. Green, L. C. Strickland, J. D. Oliver, T. Rydel, J. F.
Date :  01 Mar 12  (Deposition) - 28 Mar 12  (Release) - 28 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  A
Keywords :  Serine Protease, Calcium Binding, Inhibitor, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. L. Barnett, P. R. Green, L. C. Strickland, J. D. Oliver, T. Rydel, J. F. Sullivan
Aqualysin I: The Crystal Structure Of A Serine Protease Fro An Extreme Thermophile, Thermus Aquaticus Yt-1
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - AQUALYSIN-1
    Chains: A
    EC Number: 3.4.21.111
    Fragment: UNP RESIDUES 128-403
    Organism Scientific: THERMUS AQUATICUS
    Organism Taxid: 271
    Strain: YT-1
    Synonym: AQUALYSIN-I

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2PMS1Ligand/IonPHENYLMETHANESULFONIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:70 , SER A:128 , ALA A:154 , ASN A:157 , ASN A:219 , THR A:221 , SER A:222 , MET A:223BINDING SITE FOR RESIDUE PMS A 301
2AC2SOFTWAREASP A:11 , ASP A:14 , GLN A:15 , SER A:21 , SER A:23 , HOH A:1012BINDING SITE FOR RESIDUE CA A 302
3AC3SOFTWAREVAL A:170 , ALA A:171 , ALA A:173 , THR A:175 , ASP A:196 , HOH A:1074BINDING SITE FOR RESIDUE CA A 303

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:67 -A:99
2A:163 -A:194

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ser A:4 -Pro A:5
2Leu A:18 -Pro A:19
3Arg A:121 -Pro A:122
4Ser A:166 -Pro A:167

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4DZT)

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SUBTILASE_ASPPS00136 Serine proteases, subtilase family, aspartic acid active site.AQL1_THEAQ162-173  1A:35-46
2SUBTILASE_HISPS00137 Serine proteases, subtilase family, histidine active site.AQL1_THEAQ197-207  1A:70-80
3SUBTILASE_SERPS00138 Serine proteases, subtilase family, serine active site.AQL1_THEAQ347-357  1A:220-230

(-) Exons   (0, 0)

(no "Exon" information available for 4DZT)

(-) 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:276
 aligned with AQL1_THEAQ | P08594 from UniProtKB/Swiss-Prot  Length:513

    Alignment length:276
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397      
           AQL1_THEAQ   128 ATQSPAPWGLDRIDQRDLPLSNSYTYTATGRGVNVYVIDTGIRTTHREFGGRARVGYDALGGNGQDCNGHGTHVAGTIGGVTYGVAKAVNLYAVRVLDCNGSGSTSGVIAGVDWVTRNHRRPAVANMSLGGGVSTALDNAVKNSIAAGVVYAVAAGNDNANACNYSPARVAEALTVGATTSSDARASFSNYGSCVDLFAPGASIPSAWYTSDTATQTLNGTSMATPHVAGVAALYLEQNPSATPASVASAILNGATTGRLSGIGSGSPNRLLYSLL 403
               SCOP domains d4dzta_ A: automated matches                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee...hhhhhhhh.........ee........eeeeee......hhhhh..eeeeee..........hhhhhhhhhhhh.........eeeeee........hhhhhhhhhhhhhhhh...eeeee...ee.hhhhhhhhhhhhhh..eeeee......hhh.ee.......eeeeee.................eeee...eeee.......eeee.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhee............ee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------SUBTILASE_AS-----------------------SUBTILASE_H-------------------------------------------------------------------------------------------------------------------------------------------SUBTILASE_S---------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4dzt A   1 ATQSPAPWGLDRIDQRDLPLSNSYTYTATGRGVNVYVIDTGIRTTHREFGGRARVGYDALGGNGQDCNGHGTHVAGTIGGVTYGVAKAVNLYAVRVLDCNGSGSTSGVIAGVDWVTRNHRRPAVANMSLGGGVSTALDNAVKNSIAAGVVYAVAAGNDNANACNYSPARVAEALTVGATTSSDARASFSNYGSCVDLFAPGASIPSAWYTSDTATQTLNGTSMATPHVAGVAALYLEQNPSATPASVASAILNGATTGRLSGIGSGSPNRLLYSLL 276
                                    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
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "CATH Domain" information available for 4DZT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4DZT)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (AQL1_THEAQ | P08594)
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.
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

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(-) Related Entries Specified in the PDB File

1sup HOMOLOGOUS PROTEIN SUBTILISIN BPN'
1svn HOMOLOGOUS PROTEIN SAVINASE
2gko HOMOLOGOUS PROTEIN SUBTILISIN
2prk HOMOLOGOUS PROTEIN PROTEINASE K