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(-) Description

Title :  CRYSTAL STRUCTURE OF BURKHOLDERIA CENOCEPACIA DIHYDROPTEROATE SYNTHASE.
 
Authors :  R. E. Morgan, G. O. Batot, J. M. Dement, V. A. Rao, T. C. Eadsforth, W. N. Hu
Date :  13 Jan 11  (Deposition) - 26 Jan 11  (Release) - 25 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.33
Chains :  Asym./Biol. Unit :  A
Keywords :  Transferase, Folate Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. E. Morgan, G. O. Batot, J. M. Dement, V. A. Rao, T. C. Eadsforth, W. N. Hunter
Crystal Structures Of Burkholderia Cenocepacia Dihydropteroate Synthase In The Apo-Form And Complexed With The Product 7, 8-Dihydropteroate.
Bmc Struct. Biol. V. 11 21 2011
PubMed-ID: 21554707  |  Reference-DOI: 10.1186/1472-6807-11-21

(-) Compounds

Molecule 1 - DIHYDROPTEROATE SYNTHASE
    ChainsA
    EC Number2.5.1.15
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorPET15BTEV
    Expression System Vector TypePLASMID
    Organism ScientificBURKHOLDERIA CENOCEPACIA
    Organism Taxid95486
    Other DetailsBELGIAN CO-ORDINATED COLLECTIONS OF MICRO- ORGANISMS, BACTERIA COLLECTION (BCCM/LMG)
    StrainLMG 16656
    SynonymDHPS

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:145 , LEU A:147 , HOH A:2085 , HOH A:2086BINDING SITE FOR RESIDUE EDO A1293
2AC2SOFTWARESER A:231 , SER A:252 , VAL A:253 , VAL A:269 , HIS A:270 , ASP A:271 , THR A:275 , HOH A:2087BINDING SITE FOR RESIDUE EDO A1294
3AC3SOFTWAREARG A:20 , PRO A:21 , VAL A:23 , VAL A:276 , LEU A:279 , HOH A:2016 , HOH A:2082 , HOH A:2088BINDING SITE FOR RESIDUE EDO A1295
4AC4SOFTWAREGLY A:12 , ARG A:13 , GLY A:115 , ALA A:116 , ASP A:117 , ASN A:138BINDING SITE FOR RESIDUE EDO A1296

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Y5J)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Y5J)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Y5J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Y5J)

(-) Exons   (0, 0)

(no "Exon" information available for 2Y5J)

(-) 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:269
 aligned with B4E5F5_BURCJ | B4E5F5 from UniProtKB/TrEMBL  Length:292

    Alignment length:290
                                    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
         B4E5F5_BURCJ     3 PFLPAPLQCGRFELTFERPLVMGILNATPDSFSDGGRFLARDDALRRAERMIAEGADLLDIGGESTRPGAPPVPLDEELARVIPLVEALRPLNVPLSIDTYKPAVMRAALAAGADLINDIWGFRQPGAIDAVRDGNSGLCAMHMLGEPQTMQVGEPDYGDVVTDVRDFLAARAQALRDAGVAAERICVDPGFGFGKAVVDDNYALLAALPDTAPARPDGRAYPILAGMSRKSMLGAVIGGKPPLERVAASVAAALCAVERGAAIVRVHDVAATVDALSVWNAVRAAARQR 292
               SCOP domains d2y5ja_ A: automated match             es                                                                                                                                                                                                                                                          SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----------------------Pte             rin_bind-2y5jA01 A:26-2        37                                                                                                                                                                   ------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee..eee.....eeeee..-------------hhhhhhhhhhhhhhh...eeee.--------...hhhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhh...eeee.......hhhhhhh....eeeee...ee....ee......hhhhhhhhhhhhhhhhhhh...hhh.eeee.........hhhhhhhhhhhhhhh...........ee....hhhhhh.....hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2y5j A   3 TFLPAPLQCGRFELTFERPLVMGILN-------------ARDDALRRAERMIAEGADLLDIG--------PPVPLDEELARVIPLVEALRPLNVPLSIDTYKPAVMRAALAAGADLINDIWGFRQPGAIDAVRDGNSGLCAMHMLGEPQTMQVGEPDYGDVVTDVRDFLAARAQALRDAGVAAERICVDPGFGFGKAVVDDNYALLAALPDTAPARPDGRAYPILAGMSRKSMLGAVIGGKPPLERVAASVAAALCAVERGAAIVRVHDVAATVDALSVWNAVRAAARQR 292
                                    12        22     |   -        42        52        62 |       -|       82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292
                                                    28            42                    64       73                                                                                                                                                                                                                           

   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, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Y5J)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (B4E5F5_BURCJ | B4E5F5)
molecular function
    GO:0004156    dihydropteroate synthase activity    Catalysis of the reaction: 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate + 4-aminobenzoate = diphosphate + dihydropteroate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0044237    cellular metabolic process    The chemical reactions and pathways by which individual cells transform chemical substances.
    GO:0046656    folic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of folic acid, pteroylglutamic acid.
    GO:0009396    folic acid-containing compound biosynthetic process    The chemical reactions and pathways resulting in the formation of folic acid and its derivatives.
    GO:0042558    pteridine-containing compound metabolic process    The chemical reactions and pathways involving any compound containing pteridine (pyrazino(2,3-dipyrimidine)), e.g. pteroic acid, xanthopterin and folic acid.
    GO:0046654    tetrahydrofolate biosynthetic process    The chemical reactions and pathways resulting in the formation of tetrahydrofolate, 5,6,7,8-tetrahydrofolic acid, a folate derivative bearing additional hydrogens on the pterin group.

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        B4E5F5_BURCJ | B4E5F52y5s

(-) Related Entries Specified in the PDB File

2y5s CRYSTAL STRUCTURE OF BURKHOLDERIA CENOCEPACIA DIHYDROPTEROATE SYNTHASE COMPLEXED WITH 7,8- DIHYDROPTEROATE.