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(-) Description

Title :  CRYSTAL STRUCTURE OF HEME OXYGENASE-2 FROM SYNECHOCYSTIS SP. PCC 6803 IN COMPLEX WITH HEME
 
Authors :  M. Sugishima, Y. Hagiwara, X. Zhang, T. Yoshida, C. T. Migita, K. Fukuya
Date :  26 Aug 04  (Deposition) - 22 Mar 05  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Homo Dimer, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Sugishima, Y. Hagiwara, X. Zhang, T. Yoshida, C. T. Migita, K. Fukuyama
Crystal Structure Of Dimeric Heme Oxygenase-2 From Synechocystis Sp. Pcc 6803 In Complex With Heme.
Biochemistry V. 44 4257 2005
PubMed-ID: 15766254  |  Reference-DOI: 10.1021/BI0480483

(-) Compounds

Molecule 1 - HEME OXYGENASE 2
    Chains: A, B
    EC Number: 1.14.99.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMW-A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: SYNECHOCYSTIS SP. PCC 6803
    Organism Taxid: 1148

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:9 , HIS A:16 , GLU A:20 , LEU A:29 , TYR A:124 , THR A:125 , GLY A:129 , SER A:132 , GLY A:133 , ARG A:175 , PHE A:199 , ASN A:202 , ARG A:230 , GLY A:241 , ILE A:244 , HOH A:359 , HOH A:527 , HOH A:594 , HOH A:608BINDING SITE FOR RESIDUE HEM A 300
2AC2SOFTWAREARG B:9 , HIS B:16 , GLU B:20 , LEU B:29 , TYR B:124 , THR B:125 , GLY B:129 , SER B:132 , GLY B:133 , LYS B:171 , ARG B:175 , PHE B:199 , ASN B:202 , ARG B:230 , HOH B:384 , HOH B:585BINDING SITE FOR RESIDUE HEM B 300

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HEME_OXYGENASEPS00593 Heme oxygenase signature.HO2_SYNY3119-129
 		  2A:119-129
B:119-129

(-) Exons   (0, 0)

(no "Exon" information available for 1WOV)

(-) 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:244
 aligned with HO2_SYNY3 | P74133 from UniProtKB/Swiss-Prot  Length:250

    Alignment length:249
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241         
            HO2_SYNY3     2 TNLAQKLRYGTQQSHTLAENTAYMKCFLKGIVEREPFRQLLANLYYLYSALEAALRQHRDNEIISAIYFPELNRTDKLAEDLTYYYGPNWQQIIQPTPCAKIYVDRLKTIAASEPELLIAHCYTRYLGDLSGGQSLKNIIRSALQLPEGEGTAMYEFDSLPTPGDRRQFKEIYRDVLNSLPLDEATINRIVEEANYAFSLNREVMHDLEDLIKAAIGEHTFDLLTRQDRPGSTEARSTAGHPITLMVGE 250
               SCOP domains d1wova1 A:2-250 Heme oxygenase 2                                                                                                                                                                                                                          SCOP domains
               CATH domains 1wovA01 A:2-227 Heme Oxygenase; Chain A                                                                                                                                                                                           ----------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh.....hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........-----..eeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------HEME_OXYGEN------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wov A   2 TNLAQKLRYGTQQSHTLAENTAYMKCFLKGIVEREPFRQLLANLYYLYSALEAALRQHRDNEIISAIYFPELNRTDKLAEDLTYYYGPNWQQIIQPTPCAKIYVDRLKTIAASEPELLIAHCYTRYLGDLSGGQSLKNIIRSALQLPEGEGTAMYEFDSLPTPGDRRQFKEIYRDVLNSLPLDEATINRIVEEANYAFSLNREVMHDLEDLIKAAIGEHTFDLLTRQDRPGSTE-----GHPITLMVGE 250
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231   |   241         
                                                                                                                                                                                                                                                                   235   241         


Chain B from PDB  Type:PROTEIN  Length:242
 aligned with HO2_SYNY3 | P74133 from UniProtKB/Swiss-Prot  Length:250

    Alignment length:249
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241         
            HO2_SYNY3     2 TNLAQKLRYGTQQSHTLAENTAYMKCFLKGIVEREPFRQLLANLYYLYSALEAALRQHRDNEIISAIYFPELNRTDKLAEDLTYYYGPNWQQIIQPTPCAKIYVDRLKTIAASEPELLIAHCYTRYLGDLSGGQSLKNIIRSALQLPEGEGTAMYEFDSLPTPGDRRQFKEIYRDVLNSLPLDEATINRIVEEANYAFSLNREVMHDLEDLIKAAIGEHTFDLLTRQDRPGSTEARSTAGHPITLMVGE 250
               SCOP domains d1wovb_ B: automated matches                                                                                                                                                                                                                              SCOP domains
               CATH domains 1wovB01 B:2-227 Heme Oxygenase; Chain A                                                                                                                                                                                           ----------------------- CATH domains
           Pfam domains (1) Heme_oxygenase-1wovB01 B:2-208                                                                                                                                                                                 ------------------------------------------ Pfam domains (1)
           Pfam domains (2) Heme_oxygenase-1wovB02 B:2-208                                                                                                                                                                                 ------------------------------------------ Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhh.....hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........-------.eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------HEME_OXYGEN------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wov B   2 TNLAQKLRYGTQQSHTLAENTAYMKCFLKGIVEREPFRQLLANLYYLYSALEAALRQHRDNEIISAIYFPELNRTDKLAEDLTYYYGPNWQQIIQPTPCAKIYVDRLKTIAASEPELLIAHCYTRYLGDLSGGQSLKNIIRSALQLPEGEGTAMYEFDSLPTPGDRRQFKEIYRDVLNSLPLDEATINRIVEEANYAFSLNREVMHDLEDLIKAAIGEHTFDLLTRQDRPGSTE-------PITLMVGE 250
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231   |     - |       
                                                                                                                                                                                                                                                                   235     243
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: HO (49)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (HO2_SYNY3 | P74133)
molecular function
    GO:0004392    heme oxygenase (decyclizing) activity    Catalysis of the reaction: heme + 3 donor-H2 + 3 O2 = biliverdin + Fe2+ + CO + 3 acceptor + 3 H2O.
    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.
biological process
    GO:0006788    heme oxidation    The chemical reactions and pathways resulting in the loss of electrons from one or more atoms in heme.
    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:0015979    photosynthesis    The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.

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  1.14.99.3
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 Related Entries

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

UniProtKB/Swiss-Prot
        HO2_SYNY3 | P74133: 1wow 1wox

(-) Related Entries Specified in the PDB File

1wow THE SAME PROTEIN COMPLEXED WITH HEME IN FERROUS FORM
1wox THE SAME PROTEIN COMPLEXED WITH HEME AND NO