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(-) Description

Title :  CHLOROBIUM TEPIDUM SEPIAPTERIN REDUCTASE COMPLEXED WITH NADP AND SEPIAPTERIN
 
Authors :  S. Supangat, K. H. Seo, Y. K. Choi, Y. S. Park, K. H. Lee
Date :  19 Oct 05  (Deposition) - 29 Nov 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Sepiapterin Reductase, Chlorobium Tepidum, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Supangat, K. H. Seo, Y. K. Choi, Y. S. Park, D. Son, C. D. Han, K. H. Lee
Structure Of Chlorobium Tepidum Sepiapterin Reductase Complex Reveals The Novel Substrate Binding Mode For Stereospecific Production Of L-Threo-Tetrahydrobiopterin
J. Biol. Chem. V. 281 2249 2006
PubMed-ID: 16308317  |  Reference-DOI: 10.1074/JBC.M509343200

(-) Compounds

Molecule 1 - SEPIAPTERIN REDUCTASE
    Chains: A, B, C, D
    EC Number: 1.1.1.153
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: CHLOROBIUM TEPIDUM
    Organism Taxid: 194439
    Strain: TLS

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1BIO1Ligand/IonBIOPTERIN
2NAP4Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:9 , GLY A:11 , LYS A:12 , GLY A:13 , ILE A:14 , SER A:40 , ARG A:41 , THR A:42 , ALA A:65 , ASP A:66 , ILE A:67 , ASN A:93 , ALA A:94 , GLY A:95 , VAL A:96 , THR A:116 , ILE A:143 , THR A:144 , SER A:145 , TYR A:158 , LYS A:162 , PRO A:188 , GLY A:189 , ALA A:190 , VAL A:191 , THR A:193 , PRO A:194 , MET A:195 , TRP A:196 , HOH A:804 , HOH A:820 , HOH A:833 , HOH A:837 , HOH A:841 , HOH A:864 , HOH A:867BINDING SITE FOR RESIDUE NAP A 800
2AC2SOFTWAREGLY B:9 , GLY B:11 , LYS B:12 , GLY B:13 , ILE B:14 , SER B:40 , ARG B:41 , THR B:42 , ALA B:65 , ASP B:66 , ILE B:67 , ASN B:93 , ALA B:94 , GLY B:95 , VAL B:96 , THR B:116 , ILE B:143 , THR B:144 , SER B:145 , TYR B:158 , LYS B:162 , PRO B:188 , GLY B:189 , VAL B:191 , THR B:193 , PRO B:194 , MET B:195 , TRP B:196 , HOH B:1802 , HOH B:1817 , HOH B:1832 , HOH B:1851 , HOH B:1860 , HOH B:1868BINDING SITE FOR RESIDUE NAP B 1800
3AC3SOFTWAREGLY C:9 , GLY C:11 , LYS C:12 , GLY C:13 , ILE C:14 , SER C:40 , ARG C:41 , THR C:42 , ALA C:65 , ASP C:66 , ILE C:67 , ASN C:93 , ALA C:94 , GLY C:95 , VAL C:96 , THR C:116 , ILE C:143 , THR C:144 , SER C:145 , TYR C:158 , LYS C:162 , PRO C:188 , GLY C:189 , ALA C:190 , VAL C:191 , THR C:193 , PRO C:194 , MET C:195 , TRP C:196 , HOH C:2801 , HOH C:2807 , HOH C:2825 , HOH C:2848 , HOH C:2862 , HOH C:2889BINDING SITE FOR RESIDUE NAP C 2800
4AC4SOFTWAREGLY D:9 , GLY D:11 , LYS D:12 , GLY D:13 , ILE D:14 , SER D:40 , ARG D:41 , THR D:42 , ALA D:65 , ASP D:66 , ILE D:67 , ASN D:93 , ALA D:94 , GLY D:95 , VAL D:96 , THR D:116 , ILE D:143 , THR D:144 , SER D:145 , TYR D:158 , LYS D:162 , PRO D:188 , GLY D:189 , ALA D:190 , VAL D:191 , THR D:193 , PRO D:194 , MET D:195 , TRP D:196 , BIO D:900 , HOH D:3804 , HOH D:3808 , HOH D:3815 , HOH D:3824 , HOH D:3826 , HOH D:3847BINDING SITE FOR RESIDUE NAP D 3800
5AC5SOFTWAREPHE D:99 , SER D:145 , VAL D:146 , TYR D:158 , MET D:195 , TRP D:196 , NAP D:3800 , HOH D:3903BINDING SITE FOR RESIDUE BIO D 900

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2BD0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2BD0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2BD0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2BD0)

(-) Exons   (0, 0)

(no "Exon" information available for 2BD0)

(-) 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:240
 aligned with SPRE_CHLTE | Q8KES3 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:240
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
           SPRE_CHLTE     2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
               SCOP domains d2bd0a1 A:2-241 Bacterial sepiapterin reductase                                                                                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhh.......eeeeeee.hhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee..............hhhhh.hhhhhhhhhhhhhh....eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2bd0 A   2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241


Chain B from PDB  Type:PROTEIN  Length:240
 aligned with SPRE_CHLTE | Q8KES3 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:240
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
           SPRE_CHLTE     2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
               SCOP domains d2bd0b_ B: Bacterial sepiapterin reductase                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee.............hhhhhh.hhhhhhhhhhhhhhh...eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2bd0 B   2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241


Chain C from PDB  Type:PROTEIN  Length:240
 aligned with SPRE_CHLTE | Q8KES3 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:240
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
           SPRE_CHLTE     2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
               SCOP domains d2bd0c_ C: Bacterial sepiapterin reductase                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhh..hhhhhh...hhhhhhhhhhhhhhh...eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2bd0 C   2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241


Chain D from PDB  Type:PROTEIN  Length:240
 aligned with SPRE_CHLTE | Q8KES3 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:240
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
           SPRE_CHLTE     2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
               SCOP domains d2bd0d_ D: Bacterial sepiapterin reductase                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhh....eeeeeee.hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhh..hhhhhh...hhhhhhhhhhhhhh....eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2bd0 D   2 KHILLITGAGKGIGRAIALEFARAARHHPDFEPVLVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNNAGVGRFGALSDLTEEDFDYTMNTNLKGTFFLTQALFALMERQHSGHIFFITSVAATKAFRHSSIYCMSKFGQRGLVETMRLYARKCNVRITDVQPGAVYTPMWGKVDDEMQALMMMPEDIAAPVVQAYLQPSRTVVEEIILRPTSGDI 241
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 2BD0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BD0)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (SPRE_CHLTE | Q8KES3)
molecular function
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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