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(-) Description

Title :  CRYSTAL STRUCTURE OF PAAI FROM THERMUS THERMOPHILUS HB8
 
Authors :  N. Kunishima, M. Sugahara, S. Kuramitsu, S. Yokoyama, M. Miyano, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  24 Dec 02  (Deposition) - 17 Feb 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Thioesterase, Hot Dog Fold, Phenylacetic Acid Degradation, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Kunishima, Y. Asada, M. Sugahara, J. Ishijima, Y. Nodake, M. Sugahara, M. Miyano, S. Kuramitsu, S. Yokoyama, M. Sugahara
A Novel Induced-Fit Reaction Mechanism Of Asymmetric Hot Do Thioesterase Paai
J. Mol. Biol. V. 352 212 2005
PubMed-ID: 16061252  |  Reference-DOI: 10.1016/J.JMB.2005.07.008

(-) Compounds

Molecule 1 - PAAI PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:67 , ARG B:67BINDING SITE FOR RESIDUE CL A 1001
2AC2SOFTWAREHOH A:1003 , HOH A:1004 , HOH A:1005 , HOH A:1006BINDING SITE FOR RESIDUE MG A 1002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1J1Y)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1J1Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1J1Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1J1Y)

(-) Exons   (0, 0)

(no "Exon" information available for 1J1Y)

(-) Sequences/Alignments

Asymmetric 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:116
 aligned with Q5SJP3_THET8 | Q5SJP3 from UniProtKB/TrEMBL  Length:136

    Alignment length:116
                                    11        21        31        41        51        61        71        81        91       101       111      
         Q5SJP3_THET8     2 RDPFMEALGLKVLHLAPGEAVVAGEVRADHLNLHGTAHGGFLYALADSAFALASNTRGPAVALSCRMDYFRPLGAGARVEARAVEVNLSRRTATYRVEVVSEGKLVALFTGTVFRL 117
               SCOP domains d1j1ya_ A: Phenylacetic acid degradation protein PaaI                                                                SCOP domains
               CATH domains 1j1yA00 A:2-117  [code=3.10.129.10, no name defined]                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh..eeeeee..eeeeeee.hhhhh......hhhhhhhhhhhhhhhhhhh...eeeeeeeeee........eeeeeeeeeee...eeeeeeeeee..eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 1j1y A   2 RDPFMEALGLKVLHLAPGEAVVAGEVRADHLNLHGTAHGGFLYALADSAFALASNTRGPAVALSCRMDYFRPLGAGARVEARAVEVNLSRRTATYRVEVVSEGKLVALFTGTVFRL 117
                                    11        21        31        41        51        61        71        81        91       101       111      


Chain B from PDB  Type:PROTEIN  Length:115
 aligned with Q5SJP3_THET8 | Q5SJP3 from UniProtKB/TrEMBL  Length:136

    Alignment length:115
                                    12        22        32        42        52        62        72        82        92       102       112     
         Q5SJP3_THET8     3 DPFMEALGLKVLHLAPGEAVVAGEVRADHLNLHGTAHGGFLYALADSAFALASNTRGPAVALSCRMDYFRPLGAGARVEARAVEVNLSRRTATYRVEVVSEGKLVALFTGTVFRL 117
               SCOP domains d1j1yb_ B: Phenylacetic acid degradation protein PaaI                                                               SCOP domains
               CATH domains 1j1yB00 B:3-117  [code=3.10.129.10, no name defined]                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh..eeeeee..eeeeeee.hhhhh......hhhhhhhhhhhhhhhhhhh...eeeeeeeeee........eeeeeeeeeee...eeeeeeeeee..eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 1j1y B   3 DPFMEALGLKVLHLAPGEAVVAGEVRADHLNLHGTAHGGFLYALADSAFALASNTRGPAVALSCRMDYFRPLGAGARVEARAVEVNLSRRTATYRVEVVSEGKLVALFTGTVFRL 117
                                    12        22        32        42        52        62        72        82        92       102       112
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J1Y)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q5SJP3_THET8 | Q5SJP3)
molecular function
    GO:0016790    thiolester hydrolase activity    Catalysis of the reaction: RCO-SR' + H2O = RCOOH + HSR'. This reaction is the hydrolysis of a thiolester bond, an ester formed from a carboxylic acid and a thiol (i.e., RCO-SR'), such as that found in acetyl-coenzyme A.

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 Related Entries

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

UniProtKB/TrEMBL
        Q5SJP3_THET8 | Q5SJP3: 1wlu 1wlv 1wm6 1wn3 2dsl

(-) Related Entries Specified in the PDB File

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