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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SECOND KETOSYNTHASE FROM THE BACILLAENE POLYKETIDE SYNTHASE
 
Authors :  D. C. Gay, G. R. Gay, A. T. Keatinge-Clay
Date :  21 Oct 13  (Deposition) - 19 Feb 14  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Condensing Enzyme Fold, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. C. Gay, G. Gay, A. J. Axelrod, M. Jenner, C. Kohlhaas, A. Kampa, N. J. Oldham, J. Piel, A. T. Keatinge-Clay
A Close Look At A Ketosynthase From A Trans-Acyltransferase Modular Polyketide Synthase.
Structure V. 22 444 2014
PubMed-ID: 24508341  |  Reference-DOI: 10.1016/J.STR.2013.12.016

(-) Compounds

Molecule 1 - POLYKETIDE SYNTHASE PKSJ
    Chains: A, B
    EC Number: 2.3.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGAY28B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET
    Fragment: KETOSYNTHASE, UNP RESIDUES 3336-3953
    Gene: PKSJ, PKSK, BSU17180
    Organism Scientific: BACILLUS SUBTILIS SUBSP. SUBTILIS
    Organism Taxid: 224308
    Strain: 168
    Synonym: PKS

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric/Biological Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:467 , MET A:507 , ASP A:508BINDING SITE FOR RESIDUE SO4 A 701
2AC2SOFTWAREARG A:495 , ARG A:597 , HOH A:862 , HOH A:873 , HOH A:960 , HOH A:1042 , HOH A:1054BINDING SITE FOR RESIDUE SO4 A 702
3AC3SOFTWAREARG B:495 , ARG B:597 , HOH B:806 , HOH B:819BINDING SITE FOR RESIDUE SO4 B 701
4AC4SOFTWAREASP B:42 , HIS B:610 , TRP B:612BINDING SITE FOR RESIDUE SO4 B 702
5AC5SOFTWARELYS B:467 , MET B:507 , ASP B:508 , HOH B:902BINDING SITE FOR RESIDUE SO4 B 703
6AC6SOFTWARESER B:13 , GLY B:14 , ASP B:21 , ILE B:22 , TYR B:99 , SER B:603 , HOH B:817 , HOH B:933BINDING SITE FOR RESIDUE SO4 B 704

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NA1)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:531 -Lys A:532

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NA1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NA1)

(-) Exons   (0, 0)

(no "Exon" information available for 4NA1)

(-) 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:597
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.....hhhhhhhhhhh.....ee......hhhhhh.............ee.......eehhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhh....eeeee....hhhhhhhhh......hhhhhhh..hhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhh....eeeeeeee....hhhhhhhhhh.......................eeeeeeeeehhhhhhhh....eeeeeeeeee..........hhhhhhhhhhhhhhhhh.hhhhh.eee.......hhhhhhhhhhhhhhhhhhh.......eeee.hhhhhh.hhhhhhhhhhhhhhhhhhh.ee...................eee....ee...ee.....ee..eeeeeee....eeeeeeee.......eeeeeee.hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhhhh.......eeee.hhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh....hhhhhh.................ee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4na1 A   3 DFEPVAIVGISGRFPGAMDIDEFWKNLEEGKDSITEVPKDRWDWREHYGNPDTDVNKTDIKWGGFIDGVAEFDPLFFGISPREADYVDPQQRLLMTYVWKALEDAGCSPQSLSGTGTGIFIGTGNTGYKDLFHRANLPIEGHAATGHMIPSVGPNRMSYFLNIHGPSEPVETACSSSLVAIHRAVTAMQNGDCEMAIAGGVNTILTEEAHISYSKAGMLSTDGRCKTFSADANGYVRGEGVGMVMLKKLEDAERDGNHIYGVIRGTAENHGGRANTLTSPNPKAQADLLVRAYRQADIDPSTVTYIEAHGTGTELGDPIEINGLKAAFKELSNMDVPDHRCGIGSVKSNIGHLELAAGISGLIKVLLQMKHKTLVKSLHCETLNPYLQLTDSPFYIVQEKQEWKSVTDRDGNELPRRAGISSFGIGGVNAHIVIEEYMPEQPNVIVLSAKNKSRLIDRASQLLEVIRNKKYTDQDLHRIAYTLQVGREEMDERLACVAGTMQELEEKLQAFVDGKEETDEFFRGQSHRNKETQTIFTADEDMALALDAWIRKRKYAKLADLWVKGVSIQWNTLYGETKPRLISLPSYPFAKDHYWVP 614
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332   ||  348       358       368       378       388       398       408       418       428       438       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       
                                                                                                                                                                                                                                                                                                                                                                       336|                                                                                                     447|                                                                                                                                                             
                                                                                                                                                                                                                                                                                                                                                                        343                                                                                                      457                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:591
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.....hhhhhhhhhhh.....ee......hhhhhh.............ee.......ee.hhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhh....eeeee....hhhhhhhhh......hhhhhhh..hhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhh....eeeeeeee....hhhhhhhhhh.......................eeeeeeeeehhhhhhhh....eeeeeeeeee..........hhhhhhhhhhhhhhhhh.hhh.eeeee.......hhhhhhhhhhhhhhhhhhhh....eeee.hhhhhh.hhhhhhhhhhhhhhhhhhh.ee...................eee....ee..............eeeeeee....eeeeeeee......eeeeeee.hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhhhh...eeee...hhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhh....hhhhhh.................ee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4na1 B   3 DFEPVAIVGISGRFPGAMDIDEFWKNLEEGKDSITEVPKDRWDWREHYGNPDTDVNKTDIKWGGFIDGVAEFDPLFFGISPREADYVDPQQRLLMTYVWKALEDAGCSPQSLSGTGTGIFIGTGNTGYKDLFHRANLPIEGHAATGHMIPSVGPNRMSYFLNIHGPSEPVETACSSSLVAIHRAVTAMQNGDCEMAIAGGVNTILTEEAHISYSKAGMLSTDGRCKTFSADANGYVRGEGVGMVMLKKLEDAERDGNHIYGVIRGTAENHGGRANTLTSPNPKAQADLLVRAYRQADIDPSTVTYIEAHGTGTELGDPIEINGLKAAFKELSNMRDHRCGIGSVKSNIGHLELAAGISGLIKVLLQMKHKTLVKSLHCETLNPYLQLTDSPFYIVQEKQEWKSVTDRDGNELPRRAGISSFGIGGVNAHIVIEEYMPQPNVIVLSAKNKSRLIDRASQLLEVIRNKKYTDQDLHRIAYTLQVGREEMDERLACVAGTMQELEEKLQAFVDGKEFFRGQSHRNKETQTIFTADEDMALALDAWIRKRKYAKLADLWVKGVSIQWNTLYGETKPRLISLPSYPFAKDHYWVPA 615
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332    || 350       360       370       380       390       400       410       420       430       440      |460       470       480       490       500       510       520       530 ||    544       554       564       574       584       594       604       614 
                                                                                                                                                                                                                                                                                                                                                                        337|                                                                                                  447|                                                                       532|                                                                              
                                                                                                                                                                                                                                                                                                                                                                         346                                                                                                   458                                                                        537
   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 4NA1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NA1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NA1)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:531 - Lys A:532   [ RasMol ]  
 

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  4na1
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  PKSJ_BACSU | P40806
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  2.3.1.-
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 Related Entries

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

UniProtKB/Swiss-Prot
        PKSJ_BACSU | P40806: 4j1q 4j1s 4na2 4na3 5ktk

(-) Related Entries Specified in the PDB File

2hg4 PROTEIN HOMOLOG
2qo3 PROTEIN HOMOLOG
4na2
4na3