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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE YDEN GENE PRODUCT FROM B. SUBTILIS
 
Authors :  I. K. Janda, Y. Devedjiev, D. R. Cooper, M. Chruszcz, U. Derewenda, A. Gabrys, W. Minor, A. Joachimiak, Z. S. Derewenda, Midwest Center For Structural Genomics (Mcsg)
Date :  27 Feb 04  (Deposition) - 27 May 04  (Release) - 04 Jul 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, A/B Hydrolase, Esterase, Psi, Protein Structure Initiative, Mcsg, Midwest Center For Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. K. Janda, Y. Devedjiev, D. R. Cooper, M. Chruszcz, U. Derewenda, A. Gabrys, W. Minor, A. Joachimiak, Z. S. Derewenda
Harvesting The High-Hanging Fruit: The Structure Of The Yden Gene Product From Bacillus Subtilis At 1. 8 A Resolution
Acta Crystallogr. , Sect. D V. 60 1101 2004
PubMed-ID: 15159570  |  Reference-DOI: 10.1107/S0907444904007188

(-) Compounds

Molecule 1 - YDEN PROTEIN
    Chains: A
    Fragment: RESIDUES 2-190
    Mutation: YES
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1UXO)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1UXO)

(-) Exons   (0, 0)

(no "Exon" information available for 1UXO)

(-) 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:186
 aligned with YDEN_BACSU | P96671 from UniProtKB/Swiss-Prot  Length:190

    Alignment length:186
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181      
           YDEN_BACSU     2 TKQVYIIHGYRASSTNHWFPWLKKRLLADGVQADILNMPNPLQPRLEDWLDTLSLYQHTLHENTYLVAHSLGCPAILRFLEHLQLRKQLGGIILVSGFAKSLPTLQMLDEFTQGSFDHQKIIESAKHRAVIASKDDQIVPFSFSKDLAQQIDAALYEVQHGGHFLEDEGFTSLPIVYDVLTSYFSK 187
               SCOP domains d1uxoa_ A: Hypothetical protein YdeN                                                                                                                                                       SCOP domains
               CATH domains 1uxoA00 A:2-187  [code=3.40.50.1820, no name defined]                                                                                                                                      CATH domains
               Pfam domains ---Ser_hydrolase-1uxoA01 A:5-183                                                                                                                                                      ---- Pfam domains
         Sec.struct. author ..eeeee..........hhhhhhhhhhhh..eeeee........hhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhh......eeeeeee.........hhhhhhhh....hhhhhhhheeeeeeeee......hhhhhhhhhhhh..eeeee......hhhhh...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1uxo A   2 TKQVYIIHGYRASSTNHWFPWLKKRLLADGVQADILNmPNPLQPRLEDWLDTLSLYQHTLHENTYLVAHSLGCPAILRFLEHLQLRAALGGIILVSGFAKSLPTLQmLDEFTQGSFDHQKIIESAKHRAVIASKDDQIVPFSFSKDLAQQIDAALYEVQHGGHFLEDEGFTSLPIVYDVLTSYFSK 187
                                    11        21        31       |41        51        61        71        81        91       101      |111       121       131       141       151       161       171       181      
                                                                39-MSE                                                              108-MSE
   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  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: AB_hydrolase (347)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (YDEN_BACSU | P96671)
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.

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  1uxo
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  YDEN_BACSU | P96671
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

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