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Title :   THE REFINED STRUCTURE OF THE SELENOENZYME GLUTATHIONE PEROXIDASE AT 0.2-NM RESOLUTION

Authors :   O. Epp, R. Ladenstein

Date :   11 Jun 85 (Deposition) - 08 Nov 85 (Release) - 25 Dec 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (2x)

Keywords :   Oxidoreductase(H2O2(A)) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. Epp, R. Ladenstein, A. Wendel
The Refined Structure Of The Selenoenzyme Glutathione Peroxidase At 0. 2-Nm Resolution.
Eur. J. Biochem. V. 133 51 1983
PubMed-ID: 6852035 | Reference-DOI: 10.1111/J.1432-1033.1983.TB07429.X
(for further references see the PDB file header)

Molecule 1 - GLUTATHIONE PEROXIDASE
	Chains	:	A, B
	EC Number	:	1.11.1.9
	Engineered	:	YES
	Organism Common	:	BOVINE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913
	Tissue	:	ERYTHROCYTE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	SE7	2	Mod. Amino Acid	2-AMINO-3-SELENINO-PROPIONIC ACID

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	SE7	4	Mod. Amino Acid	2-AMINO-3-SELENINO-PROPIONIC ACID

(no "Site" information available for 1GP1)

(no "SS Bond" information available for 1GP1)

Asymmetric Unit

No.	Residues
1	Arg A:96	-	Pro A:97
2	Ser A:149	-	Pro A:150
3	Arg B:96	-	Pro B:97
4	Ser B:149	-	Pro B:150

(no "SAP(SNP)/Variant" information available for 1GP1)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLUTATHIONE_PEROXID_1	PS00460	Glutathione peroxidases active site.	GPX1_BOVIN	40-55	2	A:33-48 B:33-48
2	GLUTATHIONE_PEROXID_2	PS00763	Glutathione peroxidases signature 2.	GPX1_BOVIN	77-84	2	A:70-77 B:70-77

Biological Unit 1 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLUTATHIONE_PEROXID_1	PS00460	Glutathione peroxidases active site.	GPX1_BOVIN	40-55	4	A:33-48 B:33-48
2	GLUTATHIONE_PEROXID_2	PS00763	Glutathione peroxidases signature 2.	GPX1_BOVIN	77-84	4	A:70-77 B:70-77

(no "Exon" information available for 1GP1)

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:185
 aligned with GPX1_BOVIN | P00435 from UniProtKB/Swiss-Prot  Length:205

    Alignment length:185
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196     
           GPX1_BOVIN    17 RTVYAFSARPLAGGEPFNLSSLRGKVLLIENVASLUGTTVRDYTQMNDLQRRLGPRGLVVLGFPCNQFGHQENAKNEEILNCLKYVRPGGGFEPNFMLFEKCEVNGEKAHPLFAFLREVLPTPSDDATALMTDPKFITWSPVCRNDVSWNFEKFLVGPDGVPVRRYSRRFLTIDIEPDIETLLSQ 201
               SCOP domains d1gp1a_ A: Glutathione peroxidase                                                                                                                                                         SCOP domains
               CATH domains 1gp1A00 A:10-194 Glutaredoxin                                                                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh.............hhh....eeeeeee......hhhhhhhhhhhhhhhh..eeeeeeeee..........hhhhhhhhh..........................hhhhhhhhh..............hhh..............eeeeeee...eeeeee........hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------GLUTATHIONE_PERO---------------------GLUTATHI--------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gp1 A  10 RTVYAFSARPLAGGEPFNLSSLRGKVLLIENVASLaGTTVRDYTQMNDLQRRLGPRGLVVLGFPCNQFGHQENAKNEEILNCLKYVRPGGGFEPNFMLFEKCEVNGEKAHPLFAFLREVLPTPSDDATALMTDPKFITWSPVCRNDVSWNFEKFLVGPDGVPVRRYSRRFLTIDIEPDIETLLSQ 194
                                    19        29        39     |  49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
                                                              45-SE7

Chain B from PDB  Type:PROTEIN  Length:185
 aligned with GPX1_BOVIN | P00435 from UniProtKB/Swiss-Prot  Length:205

    Alignment length:185
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196     
           GPX1_BOVIN    17 RTVYAFSARPLAGGEPFNLSSLRGKVLLIENVASLUGTTVRDYTQMNDLQRRLGPRGLVVLGFPCNQFGHQENAKNEEILNCLKYVRPGGGFEPNFMLFEKCEVNGEKAHPLFAFLREVLPTPSDDATALMTDPKFITWSPVCRNDVSWNFEKFLVGPDGVPVRRYSRRFLTIDIEPDIETLLSQ 201
               SCOP domains d1gp1b_ B: Glutathione peroxidase                                                                                                                                                         SCOP domains
               CATH domains 1gp1B00 B:10-194 Glutaredoxin                                                                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh.............hhh....eeeeeee......hhhhhhhhhhhhhhhh..eeeeeeeee..........hhhhhhhhh..........................hhhhhhhhh..............hhh..............eeeeeee...eeeeee........hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------GLUTATHIONE_PERO---------------------GLUTATHI--------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gp1 B  10 RTVYAFSARPLAGGEPFNLSSLRGKVLLIENVASLaGTTVRDYTQMNDLQRRLGPRGLVVLGFPCNQFGHQENAKNEEILNCLKYVRPGGGFEPNFMLFEKCEVNGEKAHPLFAFLREVLPTPSDDATALMTDPKFITWSPVCRNDVSWNFEKFLVGPDGVPVRRYSRRFLTIDIEPDIETLLSQ 194
                                    19        29        39     |  49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
                                                              45-SE7

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 Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

)

Organisms( (-)

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Class: Alpha and beta proteins (a/b) (23833)

Fold: Thioredoxin fold (994)

Superfamily: Thioredoxin-like (992)

Family: Glutathione peroxidase-like (136)

Protein domain: Glutathione peroxidase (2)

Cow (Bos taurus) [TaxId: 9913] (1)

1a	d1gp1a_	A:
1b	d1gp1b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Glutaredoxin (620)

Homologous Superfamily: Glutaredoxin (617)

Bovine (Bos taurus) (1)

1a	1gp1A00	A:10-194
1b	1gp1B00	B:10-194

(no "Pfam Domain" information available for 1GP1)

Asymmetric Unit(hide GO term definitions)

Chain A,B (GPX1_BOVIN | P00435)

molecular function
	GO:0004602	glutathione peroxidase activity	Catalysis of the reaction: 2 glutathione + hydrogen peroxide = oxidized glutathione + 2 H2O.
	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:0004601	peroxidase activity	Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
biological process
	GO:0098869	cellular oxidant detoxification	Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
	GO:0006749	glutathione metabolic process	The chemical reactions and pathways involving glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins; it has a specific role in the reduction of hydrogen peroxide (H2O2) and oxidized ascorbate, and it participates in the gamma-glutamyl cycle.
	GO:0042744	hydrogen peroxide catabolic process	The chemical reactions and pathways resulting in the breakdown of hydrogen peroxide (H2O2).
	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:1902905	positive regulation of supramolecular fiber organization	Any process that activates or increases the frequency, rate or extent of supramolecular fiber organization.
	GO:0006979	response to oxidative stress	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		SE7	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
(no "Sites" information available for 1gp1)

	Cis Peptide Bonds
		Arg A:96 - Pro A:97	[ RasMol ]
		Arg B:96 - Pro B:97	[ RasMol ]
		Ser A:149 - Pro A:150	[ RasMol ]
		Ser B:149 - Pro B:150	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	1gp1
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Description

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Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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