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Title :   THE STRUCTURE OF THE RESPONSE REGULATOR REGX3 FROM MYCOBACTERIUM TUBERCULOSIS

Authors :   J. King-Scott

Date :   01 Feb 07 (Deposition) - 16 Oct 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.03

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

Keywords :   Response Regulator, Winged-Helix-Turn-Helix, Dna-Binding, 3D Domain Swapping, Regx3, Two Component System, Transcription, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. King-Scott, E. Nowak, E. Mylonas, S. Panjikar, M. Roessle, D. I. Svergun, P. A. Tucker
The Structure Of A Full-Length Response Regulator From Mycobacterium Tuberculosis In A Stabilized Three-Dimensiona Domain-Swapped, Activated State.
J. Biol. Chem. V. 282 37717 2007
PubMed-ID: 17942407 | Reference-DOI: 10.1074/JBC.M705081200

Molecule 1 - SENSORY TRANSDUCTION PROTEIN REGX3
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PETM11
	Expression System Strain	:	ROSETTA (DE3) PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	REGX3
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS H37RV
	Organism Taxid	:	83332
	Strain	:	H37RV

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 8)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	BME	1	Ligand/Ion	BETA-MERCAPTOETHANOL
3	LA	5	Ligand/Ion	LANTHANUM (III) ION

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	ACT	4	Ligand/Ion	ACETATE ION
2	BME	2	Ligand/Ion	BETA-MERCAPTOETHANOL
3	LA	-1	Ligand/Ion	LANTHANUM (III) ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MET A:77 , ARG A:111 , VAL A:115 , HOH A:459	BINDING SITE FOR RESIDUE ACT A 228
2	AC2	SOFTWARE	TYR A:164 , HOH A:531 , HOH A:537	BINDING SITE FOR RESIDUE ACT A 229
3	AC3	SOFTWARE	ASP A:86 , ASP A:97 , TYR A:98 , HOH A:460 , HOH A:462 , HOH A:463 , HOH A:465 , HOH A:466	BINDING SITE FOR RESIDUE LA A 301
4	AC4	SOFTWARE	GLU A:24 , ASP A:180 , ASP A:186 , HOH A:548 , HOH A:549 , HOH A:550 , HOH A:551 , HOH A:552	BINDING SITE FOR RESIDUE LA A 302
5	AC5	SOFTWARE	GLU A:11 , ASP A:15 , ASP A:122 , ASP A:123 , ASP A:128 , HOH A:432 , HOH A:433 , HOH A:439	BINDING SITE FOR RESIDUE LA A 303
6	AC6	SOFTWARE	GLU A:11 , ASP A:121 , ASP A:122 , ASP A:123 , GLU A:141 , HOH A:434 , HOH A:435 , HOH A:509	BINDING SITE FOR RESIDUE LA A 304
7	AC7	SOFTWARE	ASP A:9 , ASP A:52 , MET A:54 , GLU A:84 , HOH A:420 , HOH A:421 , HOH A:422	BINDING SITE FOR RESIDUE LA A 305
8	AC8	SOFTWARE	TYR A:103 , HOH A:423 , HOH A:471	BINDING SITE FOR RESIDUE BME A 401

(no "SS Bond" information available for 2OQR)

(no "Cis Peptide Bond" information available for 2OQR)

(no "SAP(SNP)/Variant" information available for 2OQR)

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RESPONSE_REGULATORY	PS50110	Response regulatory domain profile.	REGX3_MYCTO	3-116	1	A:3-116
1	RESPONSE_REGULATORY	PS50110	Response regulatory domain profile.	REGX3_MYCTU	3-116	1	A:3-116
2	OMPR_PHOB	PS51755	OmpR/PhoB-type DNA-binding domain profile.	REGX3_MYCTO	128-227	1	A:128-226
2	OMPR_PHOB	PS51755	OmpR/PhoB-type DNA-binding domain profile.	REGX3_MYCTU	128-227	1	A:128-226

Biological Unit 1 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RESPONSE_REGULATORY	PS50110	Response regulatory domain profile.	REGX3_MYCTO	3-116	2	A:3-116
1	RESPONSE_REGULATORY	PS50110	Response regulatory domain profile.	REGX3_MYCTU	3-116	2	A:3-116
2	OMPR_PHOB	PS51755	OmpR/PhoB-type DNA-binding domain profile.	REGX3_MYCTO	128-227	2	A:128-226
2	OMPR_PHOB	PS51755	OmpR/PhoB-type DNA-binding domain profile.	REGX3_MYCTU	128-227	2	A:128-226

(no "Exon" information available for 2OQR)

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:226
 aligned with REGX3_MYCTO | P9WGL8 from UniProtKB/Swiss-Prot  Length:227

    Alignment length:226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      
          REGX3_MYCTO     1 MTSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAGADIVLLDLMLPGMSGTDVCKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGGDDDSEMSDGVLESGPVRMDVERHVVSVNGDTITLPLKEFDLLEYLMRNSGRVLTRGQLIDRVWGADYVGDTKTLDVHVKRLRSKIEADPANPVHLVTVRGLGYKLE 226
               SCOP domains d2oqra1 A:1-128 automated matches                                                                                               d2oqra2 A:129-226 automated matches                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---Response_reg-2oqrA01 A:4-113                                                                                  -----------------------------------Trans_reg_C-2oqrA02 A:149-225                                                - Pfam domains
         Sec.struct. author ..eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhh.........hhhhhhhhhhhhhh.............eee..eeee....eeee.eee...hhhhhhhhhhhhhh....eehhhhhhhhh.....hhhhhhhhhhhhhhhhhh........eeee...eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) --RESPONSE_REGULATORY  PDB: A:3-116 UniProt: 3-116                                                                  -----------OMPR_PHOB  PDB: A:128-226 UniProt: 128-227                                                          PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqr A   1 ATSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAGADIVLLDLMLPGMSGTDVCKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGGDDDSEMSDGVLESGPVRMDVERHVVSVNGDTITLPLKEFDLLEYLMRNSGRVLTRGQLIDRVWGADYVGDTKTLDVHVKRLRSKIEADPANPVHLVTVRGLGYKLE 226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

Chain A from PDB  Type:PROTEIN  Length:226
 aligned with REGX3_MYCTU | P9WGL9 from UniProtKB/Swiss-Prot  Length:227

    Alignment length:226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      
          REGX3_MYCTU     1 MTSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAGADIVLLDLMLPGMSGTDVCKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGGDDDSEMSDGVLESGPVRMDVERHVVSVNGDTITLPLKEFDLLEYLMRNSGRVLTRGQLIDRVWGADYVGDTKTLDVHVKRLRSKIEADPANPVHLVTVRGLGYKLE 226
               SCOP domains d2oqra1 A:1-128 automated matches                                                                                               d2oqra2 A:129-226 automated matches                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---Response_reg-2oqrA01 A:4-113                                                                                  -----------------------------------Trans_reg_C-2oqrA02 A:149-225                                                - Pfam domains
         Sec.struct. author ..eeeee..hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhh.........hhhhhhhhhhhhhh.............eee..eeee....eeee.eee...hhhhhhhhhhhhhh....eehhhhhhhhh.....hhhhhhhhhhhhhhhhhh........eeee...eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --RESPONSE_REGULATORY  PDB: A:3-116 UniProt: 3-116                                                                  -----------OMPR_PHOB  PDB: A:128-226 UniProt: 128-227                                                          PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqr A   1 ATSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAGADIVLLDLMLPGMSGTDVCKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGGDDDSEMSDGVLESGPVRMDVERHVVSVNGDTITLPLKEFDLLEYLMRNSGRVLTRGQLIDRVWGADYVGDTKTLDVHVKRLRSKIEADPANPVHLVTVRGLGYKLE 226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

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 '\|'

(no "CATH Domain" information available for 2OQR)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: CheY (97)

Family: Response_reg (94)

Mycobacterium tuberculosis (5)

Response_reg-2oqrA01

A:4-113

Clan: HTH (544)

Family: Trans_reg_C (13)

Mycobacterium tuberculosis (3)

Trans_reg_C-2oqrA02

A:149-225

Asymmetric Unit(hide GO term definitions)

Chain A (REGX3_MYCTU | P9WGL9)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
	GO:0000160	phosphorelay signal transduction system	A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
	GO:0019217	regulation of fatty acid metabolic process	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving fatty acids.
	GO:0019220	regulation of phosphate metabolic process	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates.
	GO:0080134	regulation of response to stress	Any process that modulates the frequency, rate or extent of a response to stress. Response to stress is 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 disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

Chain A (REGX3_MYCTO | P9WGL8)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
	GO:0000160	phosphorelay signal transduction system	A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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(no "Cis Peptide Bonds" information available for 2oqr)

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	REGX3_MYCTO \| P9WGL8
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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