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(-) Description

Title :  CRYSTAL STRUCTURE OF DIHYDROPTEROATE SYNTHASE FROM THERMUS THERMOPHILUS HB8 IN COMPLEX WITH 4-AMINOBENZOATE
 
Authors :  B. Bagautdinov, N. Kunishima, Riken Structural Genomics/Proteomi Initiative (Rsgi)
Date :  27 Sep 06  (Deposition) - 27 Mar 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dihydropteroate Synthase, Dimer, 4-Aminobenzoate, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Bagautdinov, N. Kunishima
Crystal Structure Of Dihydropteroate Synthase (Folp) From Thermus Thermophilus Hb8
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIHYDROPTEROATE SYNTHASE
    Chains: A, B
    EC Number: 2.5.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET 11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: FOLP
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1PAB1Ligand/Ion4-AMINOBENZOIC ACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:389 , THR B:76 , ARG B:77 , GLY B:201 , PHE B:202 , LYS B:233 , ARG B:234 , HOH B:1306 , HOH B:1307 , HOH B:1389BINDING SITE FOR RESIDUE PAB B 1301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2DZA)

(-) 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:245
 aligned with Q5SLV2_THET8 | Q5SLV2 from UniProtKB/TrEMBL  Length:294

    Alignment length:274
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    
         Q5SLV2_THET8    14 VRTLWLRDRALDLDRVRLLGVLNLTPDSFSDGGRYLDPERALERAREMVAEGADILDLGAESTRPGAAPVPVEEEKRRLLPVLEAVLSLGVPVSVDTRKPEVAEEALKLGAHLLNDVTGLRDERMVALAARHGVAAVVMHMPVPDPATMMAHARYRDVVAEVKAFLEAQARRALSAGVPQVVLDPGFGFGKLLEHNLALLRRLDEIVALGHPVLVGLSRKRTIGELSGVEDPAQRVHGSVAAHLFAVMKGVRLLRVHDVRAHREALGVWEALYG 287
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2dzaA00 A:14-287 Dihydropt             eroate (DHP) synthetase                                                                                                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....eee....eeeeeee...-------------..hhhhhhhhhhh..eeeee...----------------hhhhhhhhhh....eeee..hhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeeee........hhhhhh...hhhhhhhhhhhhhhhhhhhh....eeee.......hhhhhhhhhhhhhhhhh.....ee....hhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dza A  14 VRTLWLRDRALDLDRVRLLGVLNLTP-------------RALERAREMVAEGADILDLGAES----------------LLPVLEAVLSLGVPVSVDTRKPEVAEEALKLGAHLLNDVTGLRDERMVALAARHGVAAVVMHMPVPDPATMMAHARYRDVVAEVKAFLEAQARRALSAGVPQVVLDPGFGFGKLLEHNLALLRRLDEIVALGHPVLVGLSRKRTIGELSGVEDPAQRVHGSVAAHLFAVMKGVRLLRVHDVRAHREALGVWEALYG 287
                                    23        33     |   -        53        63        73 |       -        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    
                                                    39            53                    75               92                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:257
 aligned with Q5SLV2_THET8 | Q5SLV2 from UniProtKB/TrEMBL  Length:294

    Alignment length:272
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284  
         Q5SLV2_THET8    15 RTLWLRDRALDLDRVRLLGVLNLTPDSFSDGGRYLDPERALERAREMVAEGADILDLGAESTRPGAAPVPVEEEKRRLLPVLEAVLSLGVPVSVDTRKPEVAEEALKLGAHLLNDVTGLRDERMVALAARHGVAAVVMHMPVPDPATMMAHARYRDVVAEVKAFLEAQARRALSAGVPQVVLDPGFGFGKLLEHNLALLRRLDEIVALGHPVLVGLSRKRTIGELSGVEDPAQRVHGSVAAHLFAVMKGVRLLRVHDVRAHREALGVWEALY 286
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2dzaB00 B:15-286 Dihydropte            roate (DHP) synthetase                                                                                                                                                                                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eee....eeeeeee.....------------hhhhhhhhhhhh..eeeee......---......hhhhhhhhhhhhhh....eeee..hhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeeee........hhhhhh...hhhhhhhhhhhhhhhhhhh.....eeee.......hhhhhhhhhhhhhhhhh.....ee....hhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dza B  15 RTLWLRDRALDLDRVRLLGVLNLTPDS------------ALERAREMVAEGADILDLGAESTRP---PVPVEEEKRRLLPVLEAVLSLGVPVSVDTRKPEVAEEALKLGAHLLNDVTGLRDERMVALAARHGVAAVVMHMPVPDPATMMAHARYRDVVAEVKAFLEAQARRALSAGVPQVVLDPGFGFGKLLEHNLALLRRLDEIVALGHPVLVGLSRKRTIGELSGVEDPAQRVHGSVAAHLFAVMKGVRLLRVHDVRAHREALGVWEALY 286
                                    24        34      |  -        54        64        74   |   |84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284  
                                                     41           54                      78  82
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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 2DZA)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DZA)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q5SLV2_THET8 | Q5SLV2)
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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 Related Entries

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

UniProtKB/TrEMBL
        Q5SLV2_THET8 | Q5SLV2: 2dqw 2dzb

(-) Related Entries Specified in the PDB File

2dqw THE SAME UNLIGANDED PROTEIN
2dzb RELATED ID: TTK003000191.2 RELATED DB: TARGETDB