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(-) Description

Title :  CYTOCHROME P450 XPLA HEME DOMAIN P21212
 
Authors :  F. Sabbadin, R. Jackson, N. C. Bruce, G. Grogan
Date :  18 May 09  (Deposition) - 18 Aug 09  (Release) - 13 Oct 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.49
Chains :  Asym./Biol. Unit :  A
Keywords :  Cyt-P450, Heme, Rdx, Bioremediation, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Sabbadin, R. Jackson, K. Haider, G. Tampi, J. P. Turkenburg, S. Hart, N. C. Bruce, G. Grogan
The 1. 5-A Structure Of Xpla-Heme, An Unusual Cytochrome P450 Heme Domain That Catalyzes Reductive Biotransformation Of Royal Demolition Explosive.
J. Biol. Chem. V. 284 28467 2009
PubMed-ID: 19692330  |  Reference-DOI: 10.1074/JBC.M109.031559

(-) Compounds

Molecule 1 - CYTOCHROME P450-LIKE PROTEIN XPLA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-YSBLIC-3C
    Expression System Strain: ROSETTA 2
    Expression System Taxid: 562
    Fragment: RESIDUES 159-552
    Organism Scientific: RHODOCOCCUS
    Organism Taxid: 1827
    Other Details: ISOLATION BY SELECTIVE ENRICHMENT
    Strain: 11Y
    Synonym: XPLA-HEME

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric/Biological Unit (3, 8)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3IMD1Ligand/IonIMIDAZOLE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:438 , HEM A:1560 , HOH A:2538BINDING SITE FOR RESIDUE IMD A1553
2AC2SOFTWARETYR A:206 , ARG A:266 , GLU A:270 , VAL A:475 , ALA A:489 , ALA A:490 , SER A:491 , ARG A:492 , HOH A:2689 , HOH A:2690BINDING SITE FOR RESIDUE EDO A1554
3AC3SOFTWAREPHE A:256 , CYS A:503 , ALA A:504 , GLN A:506 , ILE A:507 , HOH A:2691 , HOH A:2692BINDING SITE FOR RESIDUE EDO A1555
4AC4SOFTWAREPRO A:174 , ASN A:178 , VAL A:535 , ALA A:536 , HIS A:537BINDING SITE FOR RESIDUE EDO A1556
5AC5SOFTWAREALA A:207 , ASP A:208 , HIS A:211 , LYS A:259 , ASP A:262BINDING SITE FOR RESIDUE EDO A1557
6AC6SOFTWAREGLY A:282 , GLN A:283 , VAL A:550 , LEU A:551 , HOH A:2694BINDING SITE FOR RESIDUE EDO A1558
7AC7SOFTWARELYS A:254 , TRP A:255 , HOH A:2695 , HOH A:2696BINDING SITE FOR RESIDUE EDO A1559
8AC8SOFTWAREALA A:237 , LEU A:238 , HIS A:245 , ARG A:249 , MET A:300 , PHE A:388 , ALA A:395 , ILE A:396 , PRO A:437 , PHE A:441 , ARG A:443 , ILE A:466 , SER A:495 , PHE A:496 , GLY A:497 , PRO A:500 , HIS A:501 , CYS A:503 , ALA A:504 , ILE A:508 , SER A:509 , IMD A:1553 , HOH A:2154 , HOH A:2533 , HOH A:2697 , HOH A:2698BINDING SITE FOR RESIDUE HEM A1560

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro A:242 -Pro A:243

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WIY)

(-) 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:394
 aligned with Q8GPH7_RHORH | Q8GPH7 from UniProtKB/TrEMBL  Length:552

    Alignment length:394
                                   168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548    
         Q8GPH7_RHORH   159 MTAASIDRELVPWSDPEFRNNPYPWYRRLQQDHPVHKLEDGTYLVSRYADVSHFAKLPIMSVEPGWADAGPWAVASDTALGSDPPHHTVLRRQTNKWFTPKLVDGWVRTTRELVGDLLDGVEAGQVIEARRDLAVVPTHVTMARVLQLPEDDADAVMEAMFEAMLMQSAEPADGDVDRAAVAFGYLSARVAEMLEDKRVNPGDGLADSLLDAARAGEITESEAIATILVFYAVGHMAIGYLIASGIELFARRPEVFTAFRNDESARAAIINEMVRMDPPQLSFLRFPTEDVEIGGVLIEAGSPIRFMIGAANRDPEVFDDPDVFDHTRPPAASRNLSFGLGPHSCAGQIISRAEATTVFAVLAERYERIELAEEPTVAHNDFARRYRKLPIVLS 552
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.eee.....eee.hhhhhhhhh....eehhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh....eeeeee...eee..eee.....eeeehhhhh................hhhhh......hhhhh..hhhhhhhhhhhhhhhhhhhh.eeee....ee........eee.eeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wiy A 159 MTAASIDRELVPWSDPEFRNNPYPWYRRLQQDHPVHKLEDGTYLVSRYADVSHFAKLPIMSVEPGWADAGPWAVASDTALGSDPPHHTVLRRQTNKWFTPKLVDGWVRTTRELVGDLLDGVEAGQVIEARRDLAVVPTHVTMARVLQLPEDDADAVMEAMFEAMLMQSAEPADGDVDRAAVAFGYLSARVAEMLEDKRVNPGDGLADSLLDAARAGEITESEAIATILVFYAVGHMAIGYLIASGIELFARRPEVFTAFRNDESARAAIINEMVRMDPPQLSFLRFPTEDVEIGGVLIEAGSPIRFMIGAANRDPEVFDDPDVFDHTRPPAASRNLSFGLGPHSCAGQIISRAEATTVFAVLAERYERIELAEEPTVAHNDFARRYRKLPIVLS 552
                                   168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548
   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 2WIY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8GPH7_RHORH | Q8GPH7)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0016705    oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen    Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from each of two donors, and molecular oxygen is reduced or incorporated into a donor.
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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8GPH7_RHORH | Q8GPH7: 2wiv 4ep6

(-) Related Entries Specified in the PDB File

2wiv CYTOCHROME-P450 XPLA HEME DOMAIN P212121