Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF 4-HYDROXYBENZOYL COA THIOESTERASE FROM ARTHROBACTER SP. STRAIN SU COMPLEXED WITH 4-HYDROXYBENZYL COA
 
Authors :  J. B. Thoden, Z. Zhuang, D. Dunaway-Mariano, H. M. Holden
Date :  04 Aug 03  (Deposition) - 23 Sep 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Thioesterase, Hot-Dog, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. B. Thoden, Z. Zhuang, D. Dunaway-Mariano, H. M. Holden
The Structure Of 4-Hydroxybenzoyl-Coa Thioesterase From Arthrobacter Sp. Strain Su
J. Biol. Chem. V. 278 43709 2003
PubMed-ID: 12907670  |  Reference-DOI: 10.1074/JBC.M308198200

(-) Compounds

Molecule 1 - THIOESTERASE
    Chains: A, B
    EC Number: 3.1.2.23
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: FCBC
    Organism Scientific: ARTHROBACTER SP.
    Organism Taxid: 71255
    Strain: SU
    Synonym: FCBC2, 4-CHLOROBENZOATE THIOESTERASE

 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, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
14CA2Ligand/Ion4-HYDROXYBENZYL COENZYME A
2EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
14CA4Ligand/Ion4-HYDROXYBENZYL COENZYME A
2EDO2Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:15 , GLU A:73 , MET A:74 , THR A:77 , GLU A:78 , MET A:90 , GLY A:93 , HIS A:117 , GLY A:119 , SER A:120 , THR A:121 , THR A:122 , ARG A:147 , PRO A:148 , ARG A:150 , HOH A:381 , HOH A:382 , HOH A:394 , HOH A:415 , HOH A:448 , HOH A:470 , HOH A:471 , HOH A:490 , HOH A:502 , GLN B:58 , HIS B:64 , GLY B:65 , PHE B:100 , PHE B:101 , ARG B:102 , PRO B:103BINDING SITE FOR RESIDUE 4CA A 370
2AC2SOFTWAREGLN A:58 , HIS A:64 , GLY A:65 , PHE A:100 , PHE A:101 , ARG A:102 , PRO A:103 , HOH A:378 , HOH A:386 , HOH A:400 , HOH A:457 , HOH A:503 , HOH A:504 , LEU B:15 , GLU B:73 , MET B:74 , THR B:77 , GLU B:78 , GLY B:93 , GLN B:94 , HIS B:117 , GLY B:119 , SER B:120 , THR B:121 , THR B:122 , ARG B:147 , PRO B:148 , ARG B:150 , HOH B:158 , HOH B:168 , HOH B:205BINDING SITE FOR RESIDUE 4CA A 371
3AC3SOFTWAREVAL A:81 , MET A:90 , ALA A:91 , VAL A:92 , HOH A:402 , TRP B:60BINDING SITE FOR RESIDUE EDO A 372

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Q4U)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Q4U)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Q4U)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Q4U)

(-) Exons   (0, 0)

(no "Exon" information available for 1Q4U)

(-) 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:140
 aligned with 4HBT_ARTSP | Q04416 from UniProtKB/Swiss-Prot  Length:151

    Alignment length:140
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150
           4HBT_ARTSP    11 TGGNLPDVASHYPVAYEQTLDGTVGFVIDEMTPERATASVEVTDTLRQRWGLVHGGAYCALAEMLATEATVAVVHEKGMMAVGQSNHTSFFRPVKEGHVRAEAVRIHAGSTTWFWDVSLRDDAGRLCAVSSMSIAVRPRR 150
               SCOP domains d1q4ua_ A: 4-hydroxybenzoyl CoA thioesterase                                                                                                 SCOP domains
               CATH domains 1q4uA00 A:11-150  [code=3.10.129.10, no name defined]                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhh.eeeeee..eeeeeee.hhhhh......hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeeeee.......eeeeeeeeeee...eeeeeeeee.....eeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q4u A  11 TGGNLPDVASHYPVAYEQTLDGTVGFVIDEMTPERATASVEVTDTLRQRWGLVHGGAYCALAEMLATEATVAVVHEKGMMAVGQSNHTSFFRPVKEGHVRAEAVRIHAGSTTWFWDVSLRDDAGRLCAVSSMSIAVRPRR 150
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150


Chain B from PDB  Type:PROTEIN  Length:139
 aligned with 4HBT_ARTSP | Q04416 from UniProtKB/Swiss-Prot  Length:151

    Alignment length:139
                                    21        31        41        51        61        71        81        91       101       111       121       131       141         
           4HBT_ARTSP    12 GGNLPDVASHYPVAYEQTLDGTVGFVIDEMTPERATASVEVTDTLRQRWGLVHGGAYCALAEMLATEATVAVVHEKGMMAVGQSNHTSFFRPVKEGHVRAEAVRIHAGSTTWFWDVSLRDDAGRLCAVSSMSIAVRPRR 150
               SCOP domains d1q4ub_ B: 4-hydroxybenzoyl CoA thioesterase                                                                                                SCOP domains
               CATH domains 1q4uB00 B:12-150  [code=3.10.129.10, no name defined]                                                                                       CATH domains
           Pfam domains (1) -------------------------------------------------4HBT-1q4uB01 B:61-138                                                         ------------ Pfam domains (1)
           Pfam domains (2) -------------------------------------------------4HBT-1q4uB02 B:61-138                                                         ------------ Pfam domains (2)
         Sec.struct. author .............hhhhhhhhhhh.eeeeee..eeeeeee.hhhhh......hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeeeee.......eeeeeeeeeee...eeeeeeeee.....eeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q4u B  12 GGNLPDVASHYPVAYEQTLDGTVGFVIDEMTPERATASVEVTDTLRQRWGLVHGGAYCALAEMLATEATVAVVHEKGMMAVGQSNHTSFFRPVKEGHVRAEAVRIHAGSTTWFWDVSLRDDAGRLCAVSSMSIAVRPRR 150
                                    21        31        41        51        61        71        81        91       101       111       121       131       141
   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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: HotDog (52)
(-)
Family: 4HBT (31)
(-)
Arthrobacter sp (3)
1a4HBT-1q4uB01B:61-138
1b4HBT-1q4uB02B:61-138

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (4HBT_ARTSP | Q04416)
molecular function
    GO:0018739    4-hydroxybenzoyl-CoA thioesterase activity    Catalysis of the reaction: 4-hydroxybenzoyl-CoA + H(2)O = 4-hydroxybenzoate + CoA + H(+).
    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.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    4CA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    EDO  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1q4u)
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1q4u
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  4HBT_ARTSP | Q04416
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.1.2.23
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  4HBT_ARTSP | Q04416
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        4HBT_ARTSP | Q04416: 1q4s 1q4t 3r32 3r34 3r35 3r36 3r37 3r3a 3r3b 3r3c 3r3d 3r3f 3tea

(-) Related Entries Specified in the PDB File

1q4s SAME PROTEIN COMPLEXED WITH COENZYME A AND 4-HYDROXYBENZOIC ACID
1q4t SAME PROTEIN COMPLEXED WITH 4-HYDROXYPHENACYL COA