Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Biological Unit 1
(-)Biological Unit 2
collapse expand < >
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 :  THIOESTERASE DOMAIN FROM CURACIN BIOSYNTHETIC PATHWAY
 
Authors :  J. J. Gehret, J. L. Smith
Date :  27 Jan 11  (Deposition) - 09 Mar 11  (Release) - 04 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.68
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Thioesterase, Alpha/Beta Hydrolase, Decarboxylase, Sulfate Elimination, Terminal Alkene Production, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. J. Gehret, L. Gu, W. H. Gerwick, P. Wipf, D. H. Sherman, J. L. Smith
Terminal Alkene Formation By The Thioesterase Of Curacin A Biosynthesis: Structure Of A Decarboxylating Thioesterase.
J. Biol. Chem. V. 286 14445 2011
PubMed-ID: 21357626  |  Reference-DOI: 10.1074/JBC.M110.214635

(-) Compounds

Molecule 1 - POLYKETIDE SYNTHASE
    Chains: A, B, C, D
    EC Number: 3.1.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMOCR
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: THIOESTERASE DOMAIN (UNP RESIDUES 1929-2211)
    Gene: CURM
    Organism Scientific: LYNGBYA MAJUSCULA 19L
    Organism Taxid: 276768
    Synonym: CURM TE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3QIT)

(-) Sites  (0, 0)

(no "Site" information available for 3QIT)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3QIT)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu D:213 -Pro D:214

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QIT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3QIT)

(-) Exons   (0, 0)

(no "Exon" information available for 3QIT)

(-) 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:281
 aligned with D0E8E2_9CYAN | D0E8E2 from UniProtKB/TrEMBL  Length:2211

    Alignment length:284
                                  1936      1946      1956      1966      1976      1986      1996      2006      2016      2026      2036      2046      2056      2066      2076      2086      2096      2106      2116      2126      2136      2146      2156      2166      2176      2186      2196      2206    
        D0E8E2_9CYAN   1927 PIMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEESKKESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTRSILGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILT 2210
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeeee......eeeee.....hhhhhhhhhhhhhhh..eeeee............hhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhh...eeeeeee........---.hhhhhhhhhhhhhh.........hhhhhhhhhhhhh...hhhhhhhhhhhheeee..eeee..hhhhhhhhhhh.....hhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3qit A   -1 NAMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEE---ESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTRSILGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILT  282
                                     8        18        28        38        48        58        68        78        88        98       108       118       128  |   |138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
                                                                                                                                                              131 135                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:283
 aligned with D0E8E2_9CYAN | D0E8E2 from UniProtKB/TrEMBL  Length:2211

    Alignment length:285
                                  1936      1946      1956      1966      1976      1986      1996      2006      2016      2026      2036      2046      2056      2066      2076      2086      2096      2106      2116      2126      2136      2146      2156      2166      2176      2186      2196      2206     
        D0E8E2_9CYAN   1927 PIMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEESKKESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTRSILGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILTS 2211
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeeee......eeeee.....hhhhhhhhhhhhhhh..eeeee............hhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhh...eeeeeee............hhhhhhhhhhhhhh.........hhhhhhhhhhhhh...hhhhhhhhhhhheeee..eeee..hhhhh.--.........hhhhhhhhhhhh...eeeeee......hhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3qit B   -1 NAMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEESKKESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRT--ILGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILTS  283
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198     | 208       218       228       238       248       258       268       278     
                                                                                                                                                                                                                                       204  |                                                                            
                                                                                                                                                                                                                                          207                                                                            


Chain C from PDB  Type:PROTEIN  Length:270
 aligned with D0E8E2_9CYAN | D0E8E2 from UniProtKB/TrEMBL  Length:2211

    Alignment length:284
                                  1936      1946      1956      1966      1976      1986      1996      2006      2016      2026      2036      2046      2056      2066      2076      2086      2096      2106      2116      2126      2136      2146      2156      2166      2176      2186      2196      2206    
        D0E8E2_9CYAN   1927 PIMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEESKKESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTRSILGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILT 2210
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeeee......eeeee.....hhhhhhhhhhhhhhh..eeeee............hhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhh...eeeeeee.........----hhhhhhhhhhhhhh........hhhhhhhhhhhhh...hhhhhhhhhhhheeee..eeee..hhhhhh.----------hhhhhhhhhhhh...eeeeee......hhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3qit C   -1 NAMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEES----AVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTR----------GRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILT  282
                                     8        18        28        38        48        58        68        78        88        98       108       118       128   |   138       148       158       168       178       188       198      |  -       218       228       238       248       258       268       278    
                                                                                                                                                               132  137                                                                 205        216                                                                  


Chain D from PDB  Type:PROTEIN  Length:283
 aligned with D0E8E2_9CYAN | D0E8E2 from UniProtKB/TrEMBL  Length:2211

    Alignment length:285
                                  1936      1946      1956      1966      1976      1986      1996      2006      2016      2026      2036      2046      2056      2066      2076      2086      2096      2106      2116      2126      2136      2146      2156      2166      2176      2186      2196      2206     
        D0E8E2_9CYAN   1927 PIMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEESKKESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTRSILGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILTS 2211
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------------------------Abhydrolase_6-3qitD01 D:26-279                                                                                                                                                                                                                                ---- Pfam domains (1)
           Pfam domains (2) ---------------------------Abhydrolase_6-3qitD02 D:26-279                                                                                                                                                                                                                                ---- Pfam domains (2)
           Pfam domains (3) ---------------------------Abhydrolase_6-3qitD03 D:26-279                                                                                                                                                                                                                                ---- Pfam domains (3)
           Pfam domains (4) ---------------------------Abhydrolase_6-3qitD04 D:26-279                                                                                                                                                                                                                                ---- Pfam domains (4)
         Sec.struct. author ...eeeeeee..eeeeeeee......eeeee.....hhhhhhhhhhhhhhh..eeeee............hhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhh...eeeeeee............hhhhhhhhhhhhhh.........hhhhhhhhhhhhh...hhhhhhhhhhhheeee..eeee..hhhhhh.--........hhhhhhhhhhhh...eeeeee......hhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3qit D   -1 NAMEEKFLEFGGNQICLCSWGSPEHPVVLCIHGILEQGLAWQEVALPLAAQGYRVVAPDLFGHGRSSHLEMVTSYSSLTFLAQIDRVIQELPDQPLLLVGHSMGAMLATAIASVRPKKIKELILVELPLPAEESKKESAVNQLTTCLDYLSSTPQHPIFPDVATAASRLRQAIPSLSEEFSYILAQRITQPNQGGVRWSWDAIIRTR--LGLNNLPGGRSQYLEMLKSIQVPTTLVYGDSSKLNRPEDLQQQKMTMTQAKRVFLSGGHNLHIDAAAALASLILTS  283
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198      |208       218       228       238       248       258       268       278     
                                                                                                                                                                                                                                        205  |                                                                           
                                                                                                                                                                                                                                           208
   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  (0, 0)

(no "SCOP Domain" information available for 3QIT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QIT)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: AB_hydrolase (347)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (D0E8E2_9CYAN | D0E8E2)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0031177    phosphopantetheine binding    Interacting selectively and non-covalently with phosphopantetheine, the vitamin pantetheine 4'-(dihydrogen phosphate).
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

 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 3qit)
 
  Sites
(no "Sites" information available for 3qit)
 
  Cis Peptide Bonds
    Leu D:213 - Pro D:214   [ RasMol ]  
 
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
[ Asym. Unit PNG format | Biol. Unit 1 PNG format | Biol. Unit 2 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
  3qit
    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
  D0E8E2_9CYAN | D0E8E2
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  3.1.2.-
    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
  D0E8E2_9CYAN | D0E8E2
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 3QIT)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3QIT)