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(-) Description

Title :  CRYSTAL STRUCTURE OF THE OXYGENASE COMPONENT (HPAB) OF 4-HYDROXYPHENYLACETATE 3-MONOOXYGENASE
 
Authors :  S. -H. Kim, T. Hisano, K. Takeda, W. Iwasaki, A. Ebihara, K. Miki
Date :  30 Apr 07  (Deposition) - 04 Sep 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Structurome, Riken Spring-8 Center, Oxygnase Component, 4- Hydroxyphenylacetate 3-Monooxygenase, Two-Component Flavin Diffusible Monooxygenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. -H. Kim, T. Hisano, K. Takeda, W. Iwasaki, A. Ebihara, K. Miki
Crystal Structure Of The Oxygenase Component (Hpab) Of The 4-Hydroxyphenylacetate 3-Monooxygenase From Thermus Thermophilus Hb8
J. Biol. Chem. V. 282 33107 2007
PubMed-ID: 17804419  |  Reference-DOI: 10.1074/JBC.M703440200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 4-HYDROXYPHENYLACETATE-3-HYDROXYLASE
    Chains: A
    EC Number: 1.14.13.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8
    Synonym: 4-HYDROXYPHENYLACETATE 3-MONOOXYGENASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1SO45Ligand/IonSULFATE ION
Biological Unit 1 (1, 20)
No.NameCountTypeFull Name
1SO420Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:231 , ASP A:232 , SER A:233 , HOH A:1069 , HOH A:1182 , HOH A:1353BINDING SITE FOR RESIDUE SO4 A 600
2AC2SOFTWARETRP A:336 , THR A:337 , ARG A:338 , HOH A:1134BINDING SITE FOR RESIDUE SO4 A 601
3AC3SOFTWAREILE A:73 , ARG A:127 , TYR A:130 , ARG A:131 , SO4 A:604BINDING SITE FOR RESIDUE SO4 A 602
4AC4SOFTWARETYR A:456 , LYS A:458 , GLU A:459 , LYS A:462 , HOH A:1234BINDING SITE FOR RESIDUE SO4 A 603
5AC5SOFTWAREARG A:131 , ARG A:134 , SO4 A:602BINDING SITE FOR RESIDUE SO4 A 604

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2YYG)

(-) 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:470
 aligned with HPAB_THET8 | Q5SJP8 from UniProtKB/Swiss-Prot  Length:481

    Alignment length:476
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471      
           HPAB_THET8     2 ARTGAEYIEALKTRPPNLWYKGEKVEDPTTHPVFRGIVRTMAALYDLQHDPRYREVLTYEEEGKRHGMSFLIPKTKEDLKRRGQAYKLWADQNLGMMGRSPDYLNAVVMAYAASADYFGEFAENVRNYYRYLRDQDLATTHALTNPQVNRARPPSGQPDPYIPVGVVKQTEKGIVVRGARMTATFPLADEVLIFPSTLLQAGSEKYALAFALPTSTPGLHFVCREALVGGDSPFDHPLSSRVEEMDCLVIFDDVLVPWERVFILGNVELCNNAYAATGALNHMAHQVVALKTAKTEAFLGVAALMAEGIGADVYGHVQEKIAEIIVYLEAMRAFWTRAEEEAKENAYGLLVPDRGALDGARNLYPRLYPRIREILEQIGASGLITLPSEKDFKGPLGPFLEKFLQGAALEAKERVALFRLAWDMTLSGFGARQELYERFFFGDPVRMYQTLYNVYNKEPYKERIRAFLKESLKVFE 477
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --HpaB_N-2yygA02 A:4-264                                                                                                                                                                                                                                               ----HpaB-2yygA01 A:269-471                                                                                                                                                                                     ------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh...eee..ee.........hhhhhhhhhhhhhhh....hhhhheeee..eeee.hhh...hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee........------.......eeeee...eeeeeeeeeeee.....eeee.........hhhh.eeeeee.....eeeee......................eeeeeeeeeeee...eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee.....ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh.hhhhhhhhh.....hhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yyg A   2 ARTGAEYIEALKTRPPNLWYKGEKVEDPTTHPVFRGIVRTMAALYDLQHDPRYREVLTYEEEGKRHGMSFLIPKTKEDLKRRGQAYKLWADQNLGMMGRSPDYLNAVVMAYAASADYFGEFAENVRNYYRYLRDQDLATTHALTNPQVNRA------PDPYIPVGVVKQTEKGIVVRGARMTATFPLADEVLIFPSTLLQAGSEKYALAFALPTSTPGLHFVCREALVGGDSPFDHPLSSRVEEMDCLVIFDDVLVPWERVFILGNVELCNNAYAATGALNHMAHQVVALKTAKTEAFLGVAALMAEGIGADVYGHVQEKIAEIIVYLEAMRAFWTRAEEEAKENAYGLLVPDRGALDGARNLYPRLYPRIREILEQIGASGLITLPSEKDFKGPLGPFLEKFLQGAALEAKERVALFRLAWDMTLSGFGARQELYERFFFGDPVRMYQTLYNVYNKEPYKERIRAFLKESLKVFE 477
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151|      161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471      
                                                                                                                                                                                152    159
   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  (0, 0)

(no "SCOP Domain" information available for 2YYG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 2)

Asymmetric Unit
(-)
Clan: Acyl-CoA_dh (32)
(-)
Clan: no clan defined [family: HpaB_N] (7)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A   (HPAB_THET8 | Q5SJP8)
molecular function
    GO:0052881    4-hydroxyphenylacetate 3-monooxygenase activity    Catalysis of the reaction: (4-hydroxyphenyl)acetate + FADH(2) + O(2) = 3,4-dihydroxyphenylacetate + FAD + H(+) + H(2)O.
    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.
    GO:0016712    oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen    Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from reduced flavin or flavoprotein and one other donor, and one atom of oxygen is incorporated into one donor.
    GO:0016627    oxidoreductase activity, acting on the CH-CH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
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:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    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:0010124    phenylacetate catabolic process    The chemical reactions and pathways resulting in the breakdown of phenylacetate.

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 Related Entries

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

UniProtKB/Swiss-Prot
        HPAB_THET8 | Q5SJP8: 2yyi 2yyj 2yyk 2yyl 2yym

(-) Related Entries Specified in the PDB File

2yyi THE SAME PROTEIN (HPAB) COMPLEXED WITH FAD
2yyj THE SAME PROTEIN (HPAB) COMPLEXED WITH FAD AND 4- HYDROXYPHENYLACETATE
2yyk THE MUTANT OF HPAB
2yyl THE MUTANT OF HPAB COMPLEXED WITH FAD
2yym THE MUTANT OF HPAB COMPLEXED WITH FAD AND 4- HYDROXYPHENYLACETATE