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(-) Description

Title :  CRYSTAL STRUCTURES OF WILD-TYPE P-HYDROXYBENZOATE HYDROXYLASE COMPLEXED WITH 4-AMINOBENZOATE, 2,4-DIHYDROXYBENZOATE AND 2-HYDROXY-4-AMINOBENZOATE AND OF THE TRY222ALA MUTANT, COMPLEXED WITH 2-HYDROXY-4-AMINOBENZOATE. EVIDENCE FOR A PROTON CHANNEL AND A NEW BINDING MODE OF THE FLAVIN RING
 
Authors :  H. A. Schreuder, F. J. T. Van Der Bolt, W. J. H. Van Berkel
Date :  06 Jul 94  (Deposition) - 30 Sep 94  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. A. Schreuder, A. Mattevi, G. Obmolova, K. H. Kalk, W. G. Hol, F. J. Van Der Bolt, W. J. Van Berkel
Crystal Structures Of Wild-Type P-Hydroxybenzoate Hydroxylase Complexed With 4-Aminobenzoate, 2, 4-Dihydroxybenzoate, And 2-Hydroxy-4-Aminobenzoate And Of The Tyr222Ala Mutant Complexed With 2-Hydroxy-4-Aminobenzoate. Evidence For A Proton Channel And A New Binding Mode Of The Flavin Ring
Biochemistry V. 33 10161 1994
PubMed-ID: 7520279  |  Reference-DOI: 10.1021/BI00199A044
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - P-HYDROXYBENZOATE HYDROXYLASE
    Chains: A
    EC Number: 1.14.13.2
    Engineered: YES
    Organism Scientific: PSEUDOMONAS FLUORESCENS
    Organism Taxid: 294

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1BHA1Ligand/Ion2-HYDROXY-4-AMINOBENZOIC ACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1BHA2Ligand/Ion2-HYDROXY-4-AMINOBENZOIC ACID
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:9 , ALA A:10 , GLY A:11 , PRO A:12 , SER A:13 , GLU A:32 , ARG A:33 , ARG A:42 , ARG A:44 , ALA A:45 , GLN A:102 , CYS A:158 , ASP A:159 , GLY A:160 , GLY A:163 , ILE A:164 , GLY A:285 , ASP A:286 , GLY A:298 , LEU A:299 , BHA A:396 , HOH A:399 , HOH A:401 , HOH A:409 , HOH A:517 , HOH A:522 , HOH A:536 , HOH A:605BINDING SITE FOR RESIDUE FAD A 395
2AC2SOFTWAREARG A:44 , VAL A:47 , TRP A:185 , TYR A:201 , SER A:212 , ARG A:214 , ARG A:220 , PRO A:293 , THR A:294 , FAD A:395BINDING SITE FOR RESIDUE BHA A 396

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:274 -Pro A:275

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1PBF)

(-) Sequences/Alignments

Asymmetric 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:391
 aligned with PHHY_PSEFL | P00438 from UniProtKB/Swiss-Prot  Length:394

    Alignment length:391
                                    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       300       310       320       330       340       350       360       370       380       390 
           PHHY_PSEFL     1 MKTQVAIIGAGPSGLLLGQLLHKAGIDNVILERQTPDYVLGRIRAGVLEQGMVDLLREAGVDRRMARDGLVHEGVEIAFAGQRRRIDLKRLSGGKTVTVYGQTEVTRDLMEAREACGATTVYQAAEVRLHDLQGERPYVTFERDGERLRLDCDYIAGCDGFHGISRQSIPAERLKVFERVYPFGWLGLLADTPPVSHELIYANHPRGFALCSQRSATRSRYYVQVPLTEKVEDWSDERFWTELKARLPAEVAEKLVTGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLKAYREGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDTDAFSQRIQQTELEYYLGSEAGLATIAENYVGLPYE 391
               SCOP domains d1pbfa1 A:1-173,A:276-391 p-Hydroxybenzoate hydroxylase, PHBH                                                                                                                d1pbfa2 A:174-275 p-Hydroxybenzoate hydroxylase (PHBH)                                                d1pbfa1 A:1-173,A:276-391 p-Hydroxybenzoate hydroxylase, PHBH                                                        SCOP domains
               CATH domains 1pbfA01 A:1-72,A:96-180,A:269-351  [code=3.50.50.60, no name defined]   1pbfA02                1pbfA01 A:1-72,A:96-180,A:269-351  [code=3.50.50.60, no name defined]                1pbfA02 A:73-95,A:181-268,A:352-388 D-Amino Acid Oxidase, subunit A, domain 2           1pbfA01 A:1-72,A:96-180,A:269-351  [code=3.50.50.60, no name defined]              1pbfA02 A:73-95,A:181-268,A:352-388  --- CATH domains
               Pfam domains -FAD_binding_3-1pbfA01 A:2-343                                                                                                                                                                                                                                                                                                                         ------------------------------------------------ Pfam domains
         Sec.struct. author .ee.eeee...hhhhhhhhhhhh....eeee....hhhhh......ee.hhhhhhhhh....hhhhhh.eee.eeeeee..eeeeeehhhh.....eee..hhhhhhhhhhhhhhh...ee...eeeeee.......eeeeee..eeeeee..eeee.......hhhh..hhh.eeeeeeeeeeeeeeee.........eee......eeeeeee..eeeeeeeee....hhh..hhhhhhhhhhh..hhhh.......eeeeeeeeeeeeeee..ee..eee.hhh.ee..hhh.hhhhhhhhhhhhhhhhhhhhhh.....hhh.hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh...hhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pbf A   1 MKTQVAIIGAGPSGLLLGQLLHKAGIDNVILERQTPDYVLGRIRAGVLEQGMVDLLREAGVDRRMARDGLVHEGVEIAFAGQRRRIDLKRLSGGKTVTVYGQTEVTRDLMEAREASGATTVYQAAEVRLHDLQGERPYVTFERDGERLRLDCDYIAGCDGFHGISRQSIPAERLKVFERVYPFGWLGLLADTPPVSHELIYANHPRGFALCSQRSATRSRYAVQVPLTEKVEDWSDERFWTELKARLPAEVAEKLVTGPSLEKSIAPLRSFVVEPMQHGRLFLAGDAAHIVPPTGAKGLNLAASDVSTLYRLLLKAYREGRGELLERYSAICLRRIWKAERFSWWMTSVLHRFPDTDAFSQRIQQTELEYYLGSEAGLATIAENYVGLPYE 391
                                    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       300       310       320       330       340       350       360       370       380       390
   Legend:   → Mismatch (orange background)
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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  (2, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (PHHY_PSEFL | P00438)
molecular function
    GO:0018659    4-hydroxybenzoate 3-monooxygenase activity    Catalysis of the reaction: 4-hydroxybenzoate + NADPH + H+ + O2 = protocatechuate + NADP+ + H2O.
    GO:0071949    FAD binding    Interacting selectively and non-covalently with the oxidized form, FAD, of flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    GO:0050660    flavin adenine dinucleotide binding    Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
    GO:0004497    monooxygenase activity    Catalysis of the incorporation of one atom from molecular oxygen into a compound and the reduction of the other atom of oxygen to water.
    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:0019439    aromatic compound catabolic process    The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring.
    GO:0043639    benzoate catabolic process    The chemical reactions and pathways resulting in the breakdown of benzoate, the anion of benzoic acid (benzenecarboxylic acid), a fungistatic compound widely used as a food preservative; it is conjugated to glycine in the liver and excreted as hippuric acid.
    GO:0043640    benzoate catabolic process via hydroxylation    The chemical reactions and pathways resulting in the breakdown of benzoate, by its hydroxylation to cis-1,2-dihydroxybenzoate followed by dehydrogenation to catechol.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PHHY_PSEFL | P00438: 1bf3 1bgj 1bgn 1bkw 1cc4 1cc6 1cj2 1cj3 1cj4 1pbb 1pbc 1pbd 1pbe 1pdh 1phh 2phh

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1PBF)