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(-) Description

Title :  PROLINE 3-HYDROXYLASE (TYPE II) - IRON FORM
 
Authors :  I. J. Clifton, L. C. Hsueh, J. E. Baldwin, C. J. Schofield, K. Harlos
Date :  28 Jul 00  (Deposition) - 26 Jul 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxygenase, 2-Oxoglutarate Dependent Oxygenase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. J. Clifton, L. C. Hsueh, J. E. Baldwin, K. Harlos, C. J. Schofield
Structure Of Proline 3-Hydroxylase. Evolution Of The Family Of 2-Oxoglutarate Dependent Oxygenases.
Eur. J. Biochem. V. 268 6625 2001
PubMed-ID: 11737217  |  Reference-DOI: 10.1046/J.0014-2956.2001.02617.X

(-) Compounds

Molecule 1 - PROLINE OXIDASE
    Chains: A, B
    Organism Scientific: STREPTOMYCES SP.
    Organism Taxid: 60871
    Strain: TH1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1FE22Ligand/IonFE (II) ION
2SO41Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:107 , ASP A:109 , HIS A:158BINDING SITE FOR RESIDUE FE2 A 800
2AC2SOFTWAREHIS B:107 , ASP B:109 , HIS B:158BINDING SITE FOR RESIDUE FE2 B 801
3AC3SOFTWAREARG A:97 , LEU A:99 , PHE A:124 , HIS A:135 , ALA A:160 , ARG A:168 , HOH A:2115BINDING SITE FOR RESIDUE SO4 A 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1E5S)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1E5S)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1E5S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1E5S)

(-) Exons   (0, 0)

(no "Exon" information available for 1E5S)

(-) 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:260
 aligned with P3H2_STRSQ | O09345 from UniProtKB/Swiss-Prot  Length:290

    Alignment length:290
                                    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
           P3H2_STRSQ     1 MRSHILGKIELDQTRLAPDLAYLAAVPTVEEEYDEFSNGFWKHVPLWNASGDSEDRLYRDLKDAAAQPTAHVEHVPYLKEIVTTVFDGTHLQMARSRNLKNAIVIPHRDFVELDREVDRYFRTFMVLEDSPLAFHSNEDTVIHMRPGEIWFLDAATVHSAVNFSEISRQSLCVDFAFDGPFDEKEIFADATLYAPGSTPDLPERRPFTAEHRRRILSLGQVIERENFRDILFLLSKVHYKYDVHPSETYDWLIEISKQAGDEKMVVKAEQIRDFAVEARALSERFSLTSW 290
               SCOP domains d1e5sa_ A: Type II Proline 3-h    ydroxylase (pr                  oline oxidase)                                                                                                                                                                                                                   SCOP domains
               CATH domains 1e5sA01 A:1-203 B-lactam Antib    iotic, Isopeni                  cillin N Synthase; Chain                                                                                                                 1e5sA02 A:204-287  [code=1.10.1720.10, no name defined]                             --- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...hhhhhhhhhhhhhhh....----.....eeeeeeee.------------------..........hhhhhhhhh........eeeeeee.eee......--------....eeee......eeeee..eee.....eeee......eeeee.......eeee..................................hhhhhhhhhhhhh.....hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e5s A   1 MRSHILGKIELDQTRLAPDLAYLAAVPTVE----EFSNGFWKHVPLWN------------------QPTAHVEHVPYLKEIVTTVFDGTHLQMARSRNLKNAIVIPHRDF--------RYFRTFMVLEDSPLAFHSNEDTVIHMRPGEIWFLDAATVHSAVNFSEISRQSLCVDFAFDGPFDEKEIFADATLYAPGSTPDLPERRPFTAEHRRRILSLGQVIERENFRDILFLLSKVHYKYDVHPSETYDWLIEISKQAGDEKMVVKAEQIRDFAVEARALSERFSLTSW 290
                                    10        20        30    |   40       | -         -      | 70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290
                                                        30   35           48                 67                                        110      119                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:243
 aligned with P3H2_STRSQ | O09345 from UniProtKB/Swiss-Prot  Length:290

    Alignment length:290
                                    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
           P3H2_STRSQ     1 MRSHILGKIELDQTRLAPDLAYLAAVPTVEEEYDEFSNGFWKHVPLWNASGDSEDRLYRDLKDAAAQPTAHVEHVPYLKEIVTTVFDGTHLQMARSRNLKNAIVIPHRDFVELDREVDRYFRTFMVLEDSPLAFHSNEDTVIHMRPGEIWFLDAATVHSAVNFSEISRQSLCVDFAFDGPFDEKEIFADATLYAPGSTPDLPERRPFTAEHRRRILSLGQVIERENFRDILFLLSKVHYKYDVHPSETYDWLIEISKQAGDEKMVVKAEQIRDFAVEARALSERFSLTSW 290
               SCOP domains d1e5sb_ B: Type II Proline 3-h    ydroxylase (pro                  line oxidase)                                                                                                                                                                                                                   SCOP domains
               CATH domains 1e5sB01 B:1-203 B-lactam Antib    iotic, Isopenic                  illin N Synthase; Chain                                                                                                                 1e5sB02 B:204-286  [code=1.10.1720.10, no name defined]                            ---- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhh....----.....eeeeeeee..------------------...hhhhhhhhhhhhhhh.......eeeeeeee.eee.......--------.eeeeee......eeeee..eee...............eeeee.......eeeeee-----------------...............hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e5s B   1 MRSHILGKIELDQTRLAPDLAYLAAVPTVE----EFSNGFWKHVPLWNA------------------PTAHVEHVPYLKEIVTTVFDGTHLQMARSRNLKNAIVIPHRDFV--------YFRTFMVLEDSPLAFHSNEDTVIHMRPGEIWFLDAATVHSAVNFSEISRQSLCVDF-----------------YAPGSTPDLPERRPFTAEHRRRILSLGQVIERENFRDILFLLSKVHYKYDVHPSETYDWLIEISKQAGDEKMVVKAEQIRDFAVEARALSERFSLTSW 290
                                    10        20        30    |   40        |-         -       |70        80        90       100       110|      120       130       140       150       160       170    |    -         -  |    200       210       220       230       240       250       260       270       280       290
                                                        30   35            49                 68                                        111      120                                                    175               193
   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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1E5S)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (P3H2_STRSQ | O09345)
molecular function
    GO:0051213    dioxygenase activity    Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
    GO:0016706    oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors    Catalysis of the reaction: A + 2-oxoglutarate + O2 = B + succinate + CO2. This is an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from 2-oxoglutarate and one other donor, and one atom of oxygen is incorporated into each donor.
    GO:0033763    proline 3-hydroxylase activity    Catalysis of the reaction: L-proline + 2-oxoglutarate + O2 = cis-3-hydroxy-L-proline + succinate + CO2.
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.
    GO:0018193    peptidyl-amino acid modification    The alteration of an amino acid residue in a peptide.

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 Related Entries

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

UniProtKB/Swiss-Prot
        P3H2_STRSQ | O09345: 1e5r

(-) Related Entries Specified in the PDB File

1e5r PROLINE 3-HYDROXYLASE (TYPE II) -APO FORM