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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF AN ARTIFICIAL METALLOPROTEIN: FE(SALOPHEN)/WILD TYPE HEME OXYGENASE

Authors :   M. Unno, N. Yokoi, T. Ueno, Y. Watanabe, M. Ikeda-Saito

Date :   04 Mar 05 (Deposition) - 21 Feb 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym./Biol. Unit : A,B

Keywords :   Electron-Transfer, Artificial Metalloprotein, Heme Oxygenase, Salophen, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Ueno, N. Yokoi, M. Unno, T. Matsui, Y. Tokita, M. Yamada, M. Ikeda-Saito, H. Nakajima, Y. Watanabe
Design Of Metal Cofactors Activated By A Protein-Protein Electron Transfer System.
Proc. Natl. Acad. Sci. Usa V. 103 9416 2006
PubMed-ID: 16769893 | Reference-DOI: 10.1073/PNAS.0510968103

Molecule 1 - HEME OXYGENASE
	Chains	:	A, B
	EC Number	:	1.14.99.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PMW172-A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	CORYNEBACTERIUM DIPHTHERIAE
	Organism Taxid	:	1717

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 9)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	SO4	6	Ligand/Ion	SULFATE ION
3	YOM	2	Ligand/Ion	2,2'-[1,2-PHENYLENEBIS(NITRILOMETHYLIDYNE)]BIS[PHENOLATO]](2-)-N,N',O,O']-IRON

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:91 , SER A:93 , GLU A:95 , TRP A:96 , ARG A:99 , HOH A:1049	BINDING SITE FOR RESIDUE SO4 A 701
2	AC2	SOFTWARE	SER A:26 , THR A:27 , HIS A:205 , HOH A:931 , HOH A:1095	BINDING SITE FOR RESIDUE SO4 A 702
3	AC3	SOFTWARE	SER B:26 , THR B:27 , HIS B:205 , HOH B:932	BINDING SITE FOR RESIDUE SO4 B 703
4	AC4	SOFTWARE	SER A:138 , LYS A:173 , ARG A:177 , HOH A:1009	BINDING SITE FOR RESIDUE SO4 A 705
5	AC5	SOFTWARE	ARG A:112 , HIS A:192 , HOH A:941	BINDING SITE FOR RESIDUE SO4 A 706
6	AC6	SOFTWARE	HIS A:20 , GLU A:24 , VAL A:131 , ARG A:132 , LEU A:134 , GLY A:135 , SER A:138 , GLY A:139 , PHE A:201 , ASN A:204 , PHE A:208 , HOH A:1054	BINDING SITE FOR RESIDUE YOM A 901
7	AC7	SOFTWARE	HIS B:20 , GLU B:24 , VAL B:131 , GLY B:135 , SER B:138 , GLY B:139 , PHE B:201 , ASN B:204 , PHE B:208	BINDING SITE FOR RESIDUE YOM B 902
8	AC8	SOFTWARE	VAL A:39 , TYR A:151 , ASN B:119 , ASP B:121 , HIS B:192 , GLU B:196 , HOH B:1024	BINDING SITE FOR RESIDUE GOL B 801

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

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

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HEME_OXYGENASE	PS00593	Heme oxygenase signature.	HMUO_CORDI	125-135	2	A:125-135 B:125-135

(no "Exon" information available for 1WZG)

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:209
 aligned with HMUO_CORDI | P71119 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:209
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206         
           HMUO_CORDI     7 GLAVELKQSTAQAHEKAEHSTFMSDLLEGRLGVAEFTRLQEQAWLFYTALEQAADAVRASGFAESLLDPALNRAEVLARDLDKLNDGSEWRSRITASPAVIDYVNRLEEIRDNVDGPALVAHHYVRYLGDLSGGQVIARMMQRHYGVDPEALGFYHFEGIAKLKVYKDEYREKLNNLELSDEQRENLLKEATDAFVFNHQVFADLGKGL 215
               SCOP domains d1wzga_ A: Heme oxygenase HmuO                                                                                                                                                                                    SCOP domains
               CATH domains 1wzgA00 A:7-215 Heme Oxygenase; Chain A                                                                                                                                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------HEME_OXYGEN-------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wzg A   7 GLAVELKQSTAQAHEKAEHSTFMSDLLKGRLGVAEFTRLQEQAWLFYTALEQAVDAVRASGFAESLLDPALNRAEVLARDLDKLNGSSEWRSRITASPAVIDYVNRLEEIRDNVDGPALVAHHYVRYLGDLSGGQVIARMMQRHYGVDPEALGFYHFEGIAKLKVYKDEYREKLNNLELSDEQREHLLKEATDAFVFNHQVFADLGKGL 215
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206

Chain B from PDB  Type:PROTEIN  Length:209
 aligned with HMUO_CORDI | P71119 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:209
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206         
           HMUO_CORDI     7 GLAVELKQSTAQAHEKAEHSTFMSDLLEGRLGVAEFTRLQEQAWLFYTALEQAADAVRASGFAESLLDPALNRAEVLARDLDKLNDGSEWRSRITASPAVIDYVNRLEEIRDNVDGPALVAHHYVRYLGDLSGGQVIARMMQRHYGVDPEALGFYHFEGIAKLKVYKDEYREKLNNLELSDEQRENLLKEATDAFVFNHQVFADLGKGL 215
               SCOP domains d1wzgb_ B: Heme oxygenase HmuO                                                                                                                                                                                    SCOP domains
               CATH domains 1wzgB00 B:7-215 Heme Oxygenase; Chain A                                                                                                                                                                           CATH domains
           Pfam domains (1) Heme_oxygenase-1wzgB01 B:7-210                                                                                                                                                                              ----- Pfam domains (1)
           Pfam domains (2) Heme_oxygenase-1wzgB02 B:7-210                                                                                                                                                                              ----- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------HEME_OXYGEN-------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wzg B   7 GLAVELKQSTAQAHEKAEHSTFMSDLLKGRLGVAEFTRLQEQAWLFYTALEQAVDAVRASGFAESLLDPALNRAEVLARDLDKLNGSSEWRSRITASPAVIDYVNRLEEIRDNVDGPALVAHHYVRYLGDLSGGQVIARMMQRHYGVDPEALGFYHFEGIAKLKVYKDEYREKLNNLELSDEQREHLLKEATDAFVFNHQVFADLGKGL 215
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Heme oxygenase-like (107)

Superfamily: Heme oxygenase-like (107)

Family: Eukaryotic type heme oxygenase (69)

Protein domain: Heme oxygenase HmuO (16)

Corynebacterium diphtheriae [TaxId: 1717] (16)

1a	d1wzga_	A:
1b	d1wzgb_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Heme Oxygenase; Chain A (84)

Homologous Superfamily: Heme Oxygenase; Chain A (84)

Corynebacterium diphtheriae. Organism_taxid: 1717. (11)

1a	1wzgA00	A:7-215
1b	1wzgB00	B:7-215

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HO (49)

Family: Heme_oxygenase (37)

Corynebacterium diphtheriae (6)

1a	Heme_oxygenase-1wzgB01	B:7-210
1b	Heme_oxygenase-1wzgB02	B:7-210

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (HMUO_CORDI | P71119)

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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1wzg)

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	1wzg
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	1.14.99.3
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UniProtKB/Swiss-Prot
	HMUO_CORDI \| P71119	:	1iw0 1iw1 1v8x 1wnv 1wnw 1wnx 1wzd 1wzf

1iw0	WILD TYPE FERRIC HEME-HMUO
1iw1	WILD TYPE FERROUS HEME-HMUO
1v8x	DIOXYGEN BOUND HEME-HMUO
1wzd	THE SAME PROTEIN WITH YOK
1wzf	THE SAME PROTEIN WITH YOL

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 9)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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