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Asym./Biol. Unit (Jmol Viewer)

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Title :   ORGANIC HYDROPEROXIDE RESISTANCE PROTEIN FROM DEINOCOCCUS RADIODURANS

Authors :   C. Meunier-Jamin, U. Kapp, G. Leonard, S. Mcsweeney

Date :   27 Nov 03 (Deposition) - 08 Apr 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Oxidoreductase, 2-Cys Peroxidase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Meunier-Jamin, U. Kapp, G. Leonard, S. Mcsweeney
The Structure Of The Organic Hydroperoxide Resistance Protein From Deinococcus Radiodurans: Do Conformational Changes Facilitate Recycling Of The Redox Disulfide?
J. Biol. Chem. V. 279 25830 2004
PubMed-ID: 15054099 | Reference-DOI: 10.1074/JBC.M312983200

Molecule 1 - ORGANIC HYDROPEROXIDE RESISTANCE PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector	:	GATEWAY PDEST17
	Organism Scientific	:	DEINOCOCCUS RADIODURANS
	Organism Taxid	:	243230
	Strain	:	R1

Molecule 2 - ORGANIC HYDROPEROXIDE RESISTANCE PROTEIN
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector	:	GATEWAY PDEST17
	Organism Scientific	:	DEINOCOCCUS RADIODURANS
	Organism Taxid	:	243230
	Strain	:	R1

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	5	Ligand/Ion	GLYCEROL
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:57 , GLY A:60 , ALA A:61 , PRO A:122 , GLU B:47 , HOH B:2028	BINDING SITE FOR RESIDUE GOL A1140
2	AC2	SOFTWARE	ARG A:15 , ALA A:16 , GLY A:17 , ASP A:29 , LEU A:30 , SER A:31 , PRO A:42 , GLY A:43 , HOH A:2011	BINDING SITE FOR RESIDUE GOL A1141
3	AC3	SOFTWARE	HIS B:101 , PHE B:102 , LEU B:105 , ALA B:110 , VAL B:137 , ARG B:138 , GLU B:139	BINDING SITE FOR RESIDUE GOL B1140
4	AC4	SOFTWARE	ALA B:34 , GLY B:38 , ASP B:39 , VAL B:64 , ARG B:67 , ARG B:68 , HOH B:2067	BINDING SITE FOR RESIDUE GOL B1141
5	AC5	SOFTWARE	GLU A:35 , ASN B:3 , VAL B:4 , TYR B:5 , THR B:6	BINDING SITE FOR RESIDUE GOL B1142

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

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

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

(no "PROSITE Motif" information available for 1USP)

(no "Exon" information available for 1USP)

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
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Chain A from PDB  Type:PROTEIN  Length:137
 aligned with Q9RTA8_DEIRA | Q9RTA8 from UniProtKB/TrEMBL  Length:139

    Alignment length:137
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       
         Q9RTA8_DEIRA     3 NVYTAEATATGGRAGTTRSSDDRLNLDLSVPAEMGGDGGPGTNPEQLFAAGYAACFQGALGVVSRRQKIDVPADSTITARVGLQKAGLAFALDVELEGHFPGLSREQAEGLMHAAHEVCPYSAATRNNVDVRLKVRE 139
               SCOP domains d1uspa_ A: Organic hydroperoxide resistance protein Ohr                                                                                   SCOP domains
               CATH domains 1uspA01 A:3-44                            1uspA02 A:45-139  [code=3.30.300.20, no name defined]                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.....eeee.....eee...hhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeeeee..eeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhh.....eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1usp A   3 NVYTAEATATGGRAGTTRSSDDRLNLDLSVPAEmGGDGGPGTNPEQLFAAGYAACFQGALGVVSRRQKIDVPADSTITARVGLQKAGLAFALDVELEGHFPGLSREQAEGLmHAAHEVCPYSAATRNNVDVRLKVRE 139
                                    12        22        32   |    42        52        62        72        82        92       102       112 |     122       132       
                                                            36-MSE                                                                       114-MSE

Chain B from PDB  Type:PROTEIN  Length:134
 aligned with Q9RTA8_DEIRA | Q9RTA8 from UniProtKB/TrEMBL  Length:139

    Alignment length:138
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        
         Q9RTA8_DEIRA     2 ANVYTAEATATGGRAGTTRSSDDRLNLDLSVPAEMGGDGGPGTNPEQLFAAGYAACFQGALGVVSRRQKIDVPADSTITARVGLQKAGLAFALDVELEGHFPGLSREQAEGLMHAAHEVCPYSAATRNNVDVRLKVRE 139
               SCOP domains d1uspb_ B: Organic hydroperoxide resistance protein Ohr                                                                                    SCOP domains
               CATH domains 1uspB01 B:2-44                             1uspB02 B:45-139  [code=3.30.300.20, no nam    e defined]                                       CATH domains
           Pfam domains (1) -----------------------------------OsmC-1uspB01 B:37-136                                                                               --- Pfam domains (1)
           Pfam domains (2) -----------------------------------OsmC-1uspB02 B:37-136                                                                               --- Pfam domains (2)
         Sec.struct. author ...eeeeeeee.....eeee.....eee...hhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee.----.eeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhh....eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1usp B   2 ANVYTAEATATGGRAGTTRSSDDRLNLDLSVPAEmGGDGGPGTNPEQLFAAGYAACFQGALGVVSRRNKIDVPADSTITARVGLQK----FALDVELEGHFPGLSREQAEGLmHAAHEVCPYSAATRNNVDVRLKVRE 139
                                    11        21        31    |   41        51        61        71        81     |   -|      101       111  |    121       131        
                                                             36-MSE                                             87   92                   114-MSE

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: Alpha and beta proteins (a+b) (23004)

Fold: OsmC-like (20)

Superfamily: OsmC-like (20)

Family: Ohr/OsmC resistance proteins (13)

Protein domain: Organic hydroperoxide resistance protein Ohr (4)

Deinococcus radiodurans [TaxId: 1299] (1)

1a	d1uspa_	A:
1b	d1uspb_	B:

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: OsmC] (11)

Family: OsmC (11)

Deinococcus radiodurans (1)

1a	OsmC-1uspB01	B:37-136
1b	OsmC-1uspB02	B:37-136

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q9RTA8_DEIRA | Q9RTA8)

biological process
	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.

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

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 9)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (1, 2)

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