1QWI - JenaLib

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Title :   CRYSTAL STRUCTURE OF E. COLI OSMC

Authors :   J. Lesniak, W. A. Barton, D. B. Nikolov

Date :   02 Sep 03 (Deposition) - 16 Dec 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Hydroperoxide Resistance, Hydroperoxide Reductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Lesniak, W. A. Barton, D. B. Nikolov
Structural And Functional Features Of The Escherichia Coli Hydroperoxide Resistance Protein Osmc
Protein Sci. V. 12 2838 2003
PubMed-ID: 14627744 | Reference-DOI: 10.1110/PS.03375603
(for further references see the PDB file header)

Molecule 1 - OSMOTICALLY INDUCIBLE PROTEIN
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	OSMC
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	OSMC

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 8)

No.	Name	Count	Type	Full Name
1	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 4)

No.	Name	Count	Type	Full Name
1	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 1QWI)

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

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

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

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

(no "Exon" information available for 1QWI)

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:142
 aligned with OSMC_ECOLI | P0C0L2 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141  
           OSMC_ECOLI     2 TIHKKGQAHWEGDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSMALSLMLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
               SCOP domains d1qwia_ A: Osmotically inducible protein OsmC                                                                                                  SCOP domains
               CATH domains 1qwiA00 A:2-143  [code=3.30.300.20, no name defined]                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee......eeeeee.......eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeee..eeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qwi A   2 TIHKKGQAHWESDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSmALSLmLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
                                    11        21        31        41        51        61|    |  71        81        91       101       111       121       131       141  
                                                                                       62-MSE|                                                                            
                                                                                            67-MSE

Chain B from PDB  Type:PROTEIN  Length:142
 aligned with OSMC_ECOLI | P0C0L2 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141  
           OSMC_ECOLI     2 TIHKKGQAHWEGDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSMALSLMLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
               SCOP domains d1qwib_ B: Osmotically inducible protein OsmC                                                                                                  SCOP domains
               CATH domains 1qwiB00 B:2-143  [code=3.30.300.20, no name defined]                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee......eeeeee.......eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeee..eeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qwi B   2 TIHKKGQAHWESDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSmALSLmLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
                                    11        21        31        41        51        61|    |  71        81        91       101       111       121       131       141  
                                                                                       62-MSE|                                                                            
                                                                                            67-MSE

Chain C from PDB  Type:PROTEIN  Length:142
 aligned with OSMC_ECOLI | P0C0L2 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141  
           OSMC_ECOLI     2 TIHKKGQAHWEGDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSMALSLMLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
               SCOP domains d1qwic_ C: Osmotically inducible protein OsmC                                                                                                  SCOP domains
               CATH domains 1qwiC00 C:2-143  [code=3.30.300.20, no name defined]                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee......eeeeee.......eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeee..eeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qwi C   2 TIHKKGQAHWESDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSmALSLmLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
                                    11        21        31        41        51        61|    |  71        81        91       101       111       121       131       141  
                                                                                       62-MSE|                                                                            
                                                                                            67-MSE

Chain D from PDB  Type:PROTEIN  Length:142
 aligned with OSMC_ECOLI | P0C0L2 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:142
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141  
           OSMC_ECOLI     2 TIHKKGQAHWEGDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSMALSLMLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
               SCOP domains d1qwid_ D: Osmotically inducible protein OsmC                                                                                                  SCOP domains
               CATH domains 1qwiD00 D:2-143  [code=3.30.300.20, no name defined]                                                                                           CATH domains
           Pfam domains (1) ---------------------------------------OsmC-1qwiD01 D:41-140                                                                               --- Pfam domains (1)
           Pfam domains (2) ---------------------------------------OsmC-1qwiD02 D:41-140                                                                               --- Pfam domains (2)
           Pfam domains (3) ---------------------------------------OsmC-1qwiD03 D:41-140                                                                               --- Pfam domains (3)
           Pfam domains (4) ---------------------------------------OsmC-1qwiD04 D:41-140                                                                               --- Pfam domains (4)
         Sec.struct. author .eeeeeeeeee......eeeeee.......eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeee..eeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qwi D   2 TIHKKGQAHWESDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNPEELIGAAHAACFSmALSLmLGEAGFTPTSIDTTADVSLDKVDAGFAITKIALKSEVAVPGIDASTFDGIIQKAKAGCPVSQVLKAEITLDYQLKS 143
                                    11        21        31        41        51        61|    |  71        81        91       101       111       121       131       141  
                                                                                       62-MSE|                                                                            
                                                                                            67-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 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: Osmotically inducible protein OsmC (2)

Escherichia coli [TaxId: 562] (2)

1a	d1qwia_	A:
1b	d1qwib_	B:
1c	d1qwic_	C:
1d	d1qwid_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: GMP Synthetase; Chain A, domain 3 (192)

Homologous Superfamily: [code=3.30.300.20, no name defined] (129)

Escherichia coli. Organism_taxid: 562. Strain: 0157:h7 edl399. (1)

1a	1qwiA00	A:2-143
1b	1qwiB00	B:2-143
1c	1qwiC00	C:2-143
1d	1qwiD00	D:2-143

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

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

Family: OsmC (11)

Escherichia coli (strain K12) (1)

1a	OsmC-1qwiD01	D:41-140
1b	OsmC-1qwiD02	D:41-140
1c	OsmC-1qwiD03	D:41-140
1d	OsmC-1qwiD04	D:41-140

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (OSMC_ECOLI | P0C0L2)

molecular function
	GO:0016209	antioxidant activity	Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
	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.
	GO:0051920	peroxiredoxin activity	Catalysis of the reaction: 2 R'-SH + ROOH = R'-S-S-R' + H2O + ROH.
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:0006972	hyperosmotic response	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 detection of, or exposure to, a hyperosmotic environment, i.e. an environment with a higher concentration of solutes than the organism or cell.
	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:0033194	response to hydroperoxide	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 a hydroperoxide stimulus. Hydroperoxides are monosubstitution products of hydrogen peroxide, HOOH.
	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.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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Description

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Ligands, Modified Residues, Ions (1, 8)

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