3ZHO - JenaLib

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Title :   X-RAY STRUCTURE OF E.COLI WRBA IN COMPLEX WITH FMN AT 1.2 A RESOLUTION

Authors :   I. Kishko, M. Lapkouski, J. Brynda, M. Kuty, J. Carey, I. K. Smatanova,

Date :   23 Dec 12 (Deposition) - 28 Aug 13 (Release) - 11 Sep 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.20

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

Keywords :   Oxidoreductase, Trp Repressor, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   I. Kishko, J. Carey, D. Reha, J. Brynda, R. Winkler, B. Harish, R. Guerra, O. Ettrichova, Z. Kukacka, O. Sheryemyetyeva, P. Novak, M. Kuty, I. Kuta Smatanova, R. Ettrich, M. Lapkouski
1. 2 A Resolution Crystal Structure Of Escherichia Coli Wrba Holoprotein
Acta Crystallogr. , Sect. D V. 69 1757 2013
PubMed-ID: 23999298 | Reference-DOI: 10.1107/S0907444913017162

Molecule 1 - FLAVOPROTEIN WRBA
	Chains	:	A, B
	EC Number	:	1.6.5.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	TRP REPRESSOR-BINDING PROTEIN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SME	2	Mod. Amino Acid	METHIONINE SULFOXIDE

Biological Unit 1 (2, 8)

No.	Name	Count	Type	Full Name
1	FMN	4	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SME	4	Mod. Amino Acid	METHIONINE SULFOXIDE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:9 , SME A:10 , TYR A:11 , GLY A:12 , HIS A:13 , ILE A:14 , PRO A:76 , THR A:77 , ARG A:78 , PHE A:79 , GLY A:80 , SER A:112 , THR A:113 , GLY A:114 , THR A:115 , GLY A:116 , GLY A:117 , HOH A:2088 , HOH A:2145 , HOH A:2170 , ASP B:91 , HIS B:132	BINDING SITE FOR RESIDUE FMN A1198
2	AC2	SOFTWARE	ASP A:91 , HIS A:132 , SER B:9 , SME B:10 , TYR B:11 , GLY B:12 , HIS B:13 , ILE B:14 , PRO B:76 , THR B:77 , ARG B:78 , PHE B:79 , GLY B:80 , SER B:112 , THR B:113 , GLY B:114 , THR B:115 , GLY B:116 , GLY B:117 , HOH B:2094 , HOH B:2116 , HOH B:2146 , HOH B:2147 , HOH B:2148	BINDING SITE FOR RESIDUE FMN B1198

(no "SS Bond" information available for 3ZHO)

(no "Cis Peptide Bond" information available for 3ZHO)

(no "SAP(SNP)/Variant" information available for 3ZHO)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	NQOR_ECOLI	4-189	2	A:3-188 B:3-188

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	NQOR_ECOLI	4-189	4	A:3-188 B:3-188

(no "Exon" information available for 3ZHO)

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:194
 aligned with NQOR_ECOLI | P0A8G6 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:197
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       
           NQOR_ECOLI     2 AKVLVLYYSMYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAGGKTQTAPVATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQEQTITSTWTTLAHHGMVIVPIGYAAQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEELSIARYQGEYVAGLAVKLNG 198
               SCOP domains d3zhoa_ A: automated matches                                                                                                                                                                          SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhhhhhhh....eeeeee.....hhhhhhhh...........hhhhhhh.eeeeeee......hhhhhhhhh.hhhhhhhh.....eeeeeee.....hhhhhhhhhhhhhhhh..ee......hhhhh.....---.................hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --FLAVODOXIN_LIKE  PDB: A:3-188 UniProt: 4-189                                                                                                                                              --------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zho A   1 AKVLVLYYSmYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAGGKTQTAPVATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQEQTITSTWTTLAHHGMVIVPIGYAAQELFDVSQV---TPYGATTIAGGDGSRQPSQEELSIARYQGEYVAGLAVKLNG 197
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150  |   |160       170       180       190       
                                    10-SME                                                                                                                                        153 157

Chain B from PDB  Type:PROTEIN  Length:179
 aligned with NQOR_ECOLI | P0A8G6 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:197
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       
           NQOR_ECOLI     2 AKVLVLYYSMYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAGGKTQTAPVATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQEQTITSTWTTLAHHGMVIVPIGYAAQELFDVSQVRGGTPYGATTIAGGDGSRQPSQEELSIARYQGEYVAGLAVKLNG 198
               SCOP domains d3zhob_ B: automated matches                                                                                                                                                                          SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhhhhhhh....eeeeee.....hhhhhhhh...........hhhhhhh.eeeeeee......hhhhhhhhh.hhhhhhhh.....eeeeeeee....hhhhhhhhhhhhhhhh..ee.....-------------......eee..-----..hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --FLAVODOXIN_LIKE  PDB: B:3-188 UniProt: 4-189                                                                                                                                              --------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zho B   1 AKVLVLYYSmYGHIETMARAVAEGASKVDGAEVVVKRVPETMPPQLFEKAGGKTQTAPVATPQELADYDAIIFGTPTRFGNMSGQMRTFLDQTGGLWASGALYGKLASVFSSTGTGGGQEQTITSTWTTLAHHGMVIVPIGY-------------GTPYGATTIAG-----QPSQEELSIARYQGEYVAGLAVKLNG 197
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 |       -     | 160     |   - |     180       190       
                                    10-SME                                                                                                                             142           156       166   172

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( (-)

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Organisms( (-)

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

Fold: Flavodoxin-like (1057)

Superfamily: Flavoproteins (208)

Family: WrbA-like (12)

Protein domain: automated matches (3)

Escherichia coli [TaxId: 405955] (2)

1a	d3zhoa_	A:
1b	d3zhob_	B:

(no "CATH Domain" information available for 3ZHO)

(no "Pfam Domain" information available for 3ZHO)

Asymmetric Unit(hide GO term definitions)

Chain A,B (NQOR_ECOLI | P0A8G6)

molecular function
	GO:0010181	FMN binding	Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0051287	NAD binding	Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
	GO:0003955	NAD(P)H dehydrogenase (quinone) activity	Catalysis of the reaction: NAD(P)H + H+ + a quinone = NAD(P)+ + a hydroquinone.
	GO:0050661	NADP binding	Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	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:0045892	negative regulation of transcription, DNA-templated	Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
	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: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:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	3zho
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	NQOR_ECOLI \| P0A8G6	:	2r96 2r97 2rg1 3b6i 3b6j 3b6k 3b6m 4yqe 5f12

(no "Related Entries Specified in the PDB File" available for 3ZHO)

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Ligands, Modified Residues, Ions (2, 4)

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