Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Biol.Unit 1 - manually
(-)Asym.Unit - manually
(-)Asymmetric Unit
(-)Biological Unit 1
(-)Biological Unit 2
collapse expand < >
Image Biol.Unit 1 - manually
Biol.Unit 1 - manually  (Jmol Viewer)
Image Asym.Unit - manually
Asym.Unit - manually  (Jmol Viewer)
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF MOUSE ACYL-COA THIOESTERASE 7
 
Authors :  G. Guncar, J. K. Forwood, B. Kobe
Date :  27 May 07  (Deposition) - 17 Jul 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Biol. Unit 2:  A,B  (6x)
Keywords :  Acot7, C-Terminal Domain, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. K. Forwood, A. S. Thakur, G. Guncar, M. Marfori, D. Mouradov, W. Meng J. Robinson, T. Huber, S. Kellie, J. L. Martin, D. A. Hume, B. Kobe
Structural Basis For Recruitment Of Tandem Hotdog Domains I Acyl-Coa Thioesterase 7 And Its Role In Inflammation.
Proc. Natl. Acad. Sci. Usa V. 104 10382 2007
PubMed-ID: 17563367  |  Reference-DOI: 10.1073/PNAS.0700974104

(-) Compounds

Molecule 1 - CYTOSOLIC ACYL COENZYME A THIOESTER HYDROLASE
    ChainsA, B
    EC Number3.1.2.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPDEST-17
    Expression System StrainBL21(DE3)PLYSS
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneACOT7, BACH
    Organism CommonHOUSE MOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymLONG CHAIN ACYL-COA THIOESTER HYDROLASE, CTE-II, CTE-IIA, BRAIN ACYL-COA HYDROLASE, ACYL-COA THIOESTERASE 7

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (3x)AB
Biological Unit 2 (6x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2Q2B)

(-) Sites  (0, 0)

(no "Site" information available for 2Q2B)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Q2B)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Q2B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Q2B)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HOTDOG_ACOTPS51770 Hotdog acyl-CoA thioesterase (ACOT)-type domain profile.BACH_MOUSE51-169
225-339
 
  2-
A:182-296
B:182-296
Biological Unit 1 (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HOTDOG_ACOTPS51770 Hotdog acyl-CoA thioesterase (ACOT)-type domain profile.BACH_MOUSE51-169
225-339
 
  6-
A:182-296
B:182-296
Biological Unit 2 (1, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HOTDOG_ACOTPS51770 Hotdog acyl-CoA thioesterase (ACOT)-type domain profile.BACH_MOUSE51-169
225-339
 
  12-
A:182-296
B:182-296

(-) Exons   (0, 0)

(no "Exon" information available for 2Q2B)

(-) 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:141
 aligned with BACH_MOUSE | Q91V12 from UniProtKB/Swiss-Prot  Length:381

    Alignment length:150
                                   229       239       249       259       269       279       289       299       309       319       329       339       349       359       369
           BACH_MOUSE   220 EPNTVSYSQSSLIHLVGPSDCTLHGFVHGGVTMKLMDEVAGIVAARHCKTNIVTASVDAINFHDKIRKGCVITISGRMTFTSNKSMEIEVLVDADPVVDNSQKRYRAASAFFTYVSLNQEGKPMPVPQLVPETEDEKKRFEEGKGRYLQM 369
               SCOP domains d2q2ba_ A: automa      ted matches                                                                                                                     SCOP domains
               CATH domains 2q2bA00 A:177-326        [code=3.10.129.10, no name defined]                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhheeeeee..------....hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee.......eeeeeeeeeeeee..eeeeeeeeeeee...---..eeeeeeeeeee.................hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -----HOTDOG_ACOT  PDB: A:182-296 UniProt: 225-339                                                                       ------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q2b A 177 EPNTVSYSQSSLIHLVG------HGFVHGGVTMKLMDEVAGIVAARHCKTNIVTASVDAINFHDKIRKGCVITISGRMTFTSNKSMEIEVLVDADPVVD---KRYRAASAFFTYVSLNQEGKPMPVPQLVPETEDEKKRFEEGKGRYLQM 326
                                   186      |  -   |   206       216       226       236       246       256       266        |-  |    286       296       306       316       326
                                          193    200                                                                        275 279                                               

Chain B from PDB  Type:PROTEIN  Length:141
 aligned with BACH_MOUSE | Q91V12 from UniProtKB/Swiss-Prot  Length:381

    Alignment length:150
                                   229       239       249       259       269       279       289       299       309       319       329       339       349       359       369
           BACH_MOUSE   220 EPNTVSYSQSSLIHLVGPSDCTLHGFVHGGVTMKLMDEVAGIVAARHCKTNIVTASVDAINFHDKIRKGCVITISGRMTFTSNKSMEIEVLVDADPVVDNSQKRYRAASAFFTYVSLNQEGKPMPVPQLVPETEDEKKRFEEGKGRYLQM 369
               SCOP domains d2q2bb_ B: automat      ed matches                                                                                                                     SCOP domains
               CATH domains 2q2bB00 B:177-326        [code=3.10.129.10, no name defined]                                                                                           CATH domains
           Pfam domains (1) ------------------------4HBT-2q2bB01 B:201-275                                                     --------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ------------------------4HBT-2q2bB02 B:201-275                                                     --------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...hhhhhheeeeee...------...hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeee.......eeeeeeeeeeee...eeeeeeeeeeee...---..eeeeeeeeeeee................hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -----HOTDOG_ACOT  PDB: B:182-296 UniProt: 225-339                                                                       ------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q2b B 177 EPNTVSYSQSSLIHLVGP------GFVHGGVTMKLMDEVAGIVAARHCKTNIVTASVDAINFHDKIRKGCVITISGRMTFTSNKSMEIEVLVDADPVVD---KRYRAASAFFTYVSLNQEGKPMPVPQLVPETEDEKKRFEEGKGRYLQM 326
                                   186       | -    |  206       216       226       236       246       256       266        |-  |    286       296       306       316       326
                                           194    201                                                                       275 279                                               

   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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: HotDog (52)
(-)
Family: 4HBT (31)
1a4HBT-2q2bB01B:201-275
1b4HBT-2q2bB02B:201-275

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (BACH_MOUSE | Q91V12)
molecular function
    GO:0052689    carboxylic ester hydrolase activity    Catalysis of the hydrolysis of a carboxylic ester bond.
    GO:0000062    fatty-acyl-CoA binding    Interacting selectively and non-covalently with acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty acyl group.
    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:0036042    long-chain fatty acyl-CoA binding    Interacting selectively and non-covalently with a long-chain fatty acyl-CoA. A long-chain fatty acyl-CoA is any derivative of coenzyme A in which the sulfhydryl group is in a thioester linkage with a long-chain fatty-acyl group. Long-chain fatty-acyl-CoAs have chain lengths of C13 or more.
    GO:0016290    palmitoyl-CoA hydrolase activity    Catalysis of the reaction: palmitoyl-CoA + H2O = CoA + palmitate.
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
    GO:0015937    coenzyme A biosynthetic process    The chemical reactions and pathways resulting in the formation of coenzyme A, 3'-phosphoadenosine-(5')diphospho(4')pantatheine, an acyl carrier in many acylation and acyl-transfer reactions in which the intermediate is a thiol ester.
    GO:0009062    fatty acid catabolic process    The chemical reactions and pathways resulting in the breakdown of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes.
    GO:0036116    long-chain fatty-acyl-CoA catabolic process    The chemical reactions and pathways resulting in the breakdown of long-chain fatty-acyl-CoAs, any derivative of coenzyme A in which the sulfhydryl group is in a thioester linkage with a medium-chain fatty-acyl group. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
    GO:0051792    medium-chain fatty acid biosynthetic process    The chemical reactions and pathways resulting in the formation of any fatty acid with a chain length of between C6 and C12.
    GO:0036114    medium-chain fatty-acyl-CoA catabolic process    The chemical reactions and pathways resulting in the breakdown of medium-chain fatty-acyl-CoAs, any derivative of coenzyme A in which the sulfhydryl group is in a thioester linkage with a medium-chain fatty-acyl group. A medium-chain fatty acid is a fatty acid with a chain length of between C6 and C12.
    GO:1900535    palmitic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of palmitic acid.
cellular component
    GO:0044297    cell body    The portion of a cell bearing surface projections such as axons, dendrites, cilia, or flagella that includes the nucleus, but excludes all cell projections.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0043005    neuron projection    A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.

 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
(no "Ligands, Modified Residues, Ions" information available for 2q2b)
 
  Sites
(no "Sites" information available for 2q2b)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2q2b)
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  2q2b
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  BACH_MOUSE | Q91V12
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.1.2.2
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  BACH_MOUSE | Q91V12
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        BACH_MOUSE | Q91V122v1o 4zv3

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2Q2B)