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(-) Description

Title :  CRYSTAL STRUCTURE OF A BETA-KETOACYL SYNTHASE FROM BURKHOLDERIA PHYMATUM STM815
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  26 Apr 12  (Deposition) - 16 May 12  (Release) - 30 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ssgcid, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Baugh, L. A. Gallagher, R. Patrapuvich, M. C. Clifton, A. S. Gardberg, T. E. Edwards, B. Armour, D. W. Begley, S. H. Dieterich, D. M. Dranow, J. Abendroth, J. W. Fairman, D. Fox, B. L. Staker, I. Phan, A. Gillespie, R. Choi, S. Nakazawa-Hewitt, M. T. Nguyen, A. Napuli, L. Barrett, G. W. Buchko, R. Stacy, P. J. Myler, L. J. Stewart, C. Manoil W. C. Van Voorhis
Combining Functional And Structural Genomics To Sample The Essential Burkholderia Structome.
Plos One V. 8 53851 2013
PubMed-ID: 23382856  |  Reference-DOI: 10.1371/JOURNAL.PONE.0053851

(-) Compounds

Molecule 1 - BETA-KETOACYL SYNTHASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BPHY_0703
    Organism Scientific: BURKHOLDERIA PHYMATUM
    Organism Taxid: 391038
    Strain: STM815

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric/Biological Unit (3, 8)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2EDO2Ligand/Ion1,2-ETHANEDIOL
3IMD5Ligand/IonIMIDAZOLE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:46 , ASP A:203 , TYR A:206 , THR A:208 , THR A:210 , ARG B:318BINDING SITE FOR RESIDUE IMD A 501
2AC2SOFTWAREMET A:138 , SER B:109 , PRO B:197 , ALA B:198 , HOH B:617 , HOH B:758BINDING SITE FOR RESIDUE EDO B 501
3AC3SOFTWAREHIS B:46 , ASP B:203 , TYR B:206 , THR B:208 , THR B:210BINDING SITE FOR RESIDUE EDO B 502
4AC4SOFTWARESER B:95 , ASP B:98 , ARG B:100 , LEU B:185 , HIS B:245 , IMD B:504 , IMD B:505 , CA B:507BINDING SITE FOR RESIDUE IMD B 503
5AC5SOFTWAREASP B:93 , SER B:95 , HIS B:245 , IMD B:503 , IMD B:506 , CA B:507 , HOH B:757BINDING SITE FOR RESIDUE IMD B 504
6AC6SOFTWAREARG B:100 , THR B:184 , IMD B:503 , IMD B:506 , CA B:507BINDING SITE FOR RESIDUE IMD B 505
7AC7SOFTWARESER B:95 , IMD B:504 , IMD B:505 , CA B:507BINDING SITE FOR RESIDUE IMD B 506
8AC8SOFTWAREHIS B:245 , IMD B:503 , IMD B:504 , IMD B:505 , IMD B:506 , HOH B:757BINDING SITE FOR RESIDUE CA B 507

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4EWG)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Thr A:218 -Pro A:219
2Thr B:218 -Pro B:219

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4EWG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4EWG)

(-) Exons   (0, 0)

(no "Exon" information available for 4EWG)

(-) 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:409
                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains d4ewga1 A:0-253 automated matches                                                                                                                                                                                                                             d4ewga2 A:254-408 automated matches                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.....hhhhhhhhhhhh....ee.hhhhhh......ee............hhhhhh..hhhhhhhhhhhhhhhhhhh...hhhhhh..eeeeee....hhhhhhhhhhhhhhh.......hhhhhhh.hhhhhhhhhhh.....eee..hhhhhhhhhhhhhhhhhhh....eeeeeeee..hhhhhhhhhh.........hhhhh...............eeeeeeeeehhhhhhh.....eeeeeeeeee........hhhhhhhhhhhhhhhh..hhh.eeeee.....hhhhhhhhhhhhhhhhh...eee.hhhhhh.hhhhhhhhhhhhhhhhhhh.ee................ee.....ee....eeeeeeee...eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ewg A   0 SMKRVVITGMGGVTALGSRWDEIEAALKAGRNAVRRMPDWDYFESLHTRLAAPLPGFAQPADWPRKKTRSMGRVSMYAVRASELALADAGFAGDESISDGRMGVAYGSSSGSVEPIRAFGTMLESGSMTDVTSNSYVQMMPHTTAVNVSLFWDLKGRIVPTSSACASGSQAIGYAYENIAMGKQTLMLAGGAEELSGPAVAVFDTLYATSTRNDEPHLTPRPFDAKRDGLVVGEGAATLVLEEYEHAKARGATIHAEIVGFGCNSDGAHMTQPTASTMARAMQLALEDAKLDANAIAYVNAHGTSTDRGDVAESQATARTFGERMPISSLKSYVGHTLGACGALEAWWTIEMMKRNWYAPTLNLTEVDPACAPLDYIRGEARAIDAEYVMSNNFAFGGINTSLIFRRVR 408
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399         


Chain B from PDB  Type:PROTEIN  Length:408
                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4ewgb1 B:1-253 automated matches                                                                                                                                                                                                                            d4ewgb2 B:254-408 automated matches                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhhh....ee.hhhhhh......ee............hhhhhh..hhhhhhhhhhhhhhhhhh............eeeeee....hhhhhhhhhhhhhhh.......hhhhhhh.hhhhhhhhhhh.....ee...hhhhhhhhhhhhhhhhhhh....eeeeeeee..hhhhhhhhhh.........hhhhh...............eeeeeeeeehhhhhhh.....eeeeeeeeee........hhhhhhhhhhhhhhhhh.hhhhh.eee.....hhhhhhhhhhhhhhhhh...eee.hhhhhh.hhhhhhhhhhhhhhhhhhh.ee................ee.....ee....eeeeeeee...eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ewg B   1 MKRVVITGMGGVTALGSRWDEIEAALKAGRNAVRRMPDWDYFESLHTRLAAPLPGFAQPADWPRKKTRSMGRVSMYAVRASELALADAGFAGDESISDGRMGVAYGSSSGSVEPIRAFGTMLESGSMTDVTSNSYVQMMPHTTAVNVSLFWDLKGRIVPTSSACASGSQAIGYAYENIAMGKQTLMLAGGAEELSGPAVAVFDTLYATSTRNDEPHLTPRPFDAKRDGLVVGEGAATLVLEEYEHAKARGATIHAEIVGFGCNSDGAHMTQPTASTMARAMQLALEDAKLDANAIAYVNAHGTSTDRGDVAESQATARTFGERMPISSLKSYVGHTLGACGALEAWWTIEMMKRNWYAPTLNLTEVDPACAPLDYIRGEARAIDAEYVMSNNFAFGGINTSLIFRRVR 408
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400
   Legend:   → Mismatch (orange background)
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  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, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4EWG)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4EWG)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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