Response regulator

From Proteopedia

proteopedia linkproteopedia link

Revision as of 08:41, 13 October 2013 (edit) Michal Harel (Talk | contribs) ← Previous diff		Revision as of 08:12, 20 April 2014 (edit) (undo) Michal Harel (Talk | contribs) Next diff →
Line 84:		Line 84:
	[[1xhe]] – EcArcA receiver domain <br/ >		[[1xhe]] – EcArcA receiver domain <br/ >
	[[1xhf]] – EcArcA receiver domain + BeF3<BR/ >		[[1xhf]] – EcArcA receiver domain + BeF3<BR/ >
		+	[[2y79]] – MtDevs GAF domain (mutant)<br />
		+	[[3zxo]] - MtDevs ATP-binding domain (mutant)<br />
	===Social motility RR===		===Social motility RR===
Line 95:		Line 97:
	[[2wb4]], [[1w25]] - CvPleD + GMP		[[2wb4]], [[1w25]] - CvPleD + GMP
-	===Hypoxic RR===	+	===Hypoxia RR===
	[[3c3w]], [[1zlj]] – MtDosR<br/ >		[[3c3w]], [[1zlj]] – MtDosR<br/ >
	[[3c57]] – MtDosR C terminal<br />		[[3c57]] – MtDosR C terminal<br />
	[[1zlk]] – MtDosR C terminal + DNA<br />		[[1zlk]] – MtDosR C terminal + DNA<br />
		+	[[3zxo]] – MtDost ATP-binding domain<br />
	===Transcriptional RR===		===Transcriptional RR===
Line 105:		Line 108:
	[[2zwm]] – BsYycF receiver domain<br/ >		[[2zwm]] – BsYycF receiver domain<br/ >
	[[3ulq]] – BsComA DNA-binding domain + RR aspartate phosphatase<br />		[[3ulq]] – BsComA DNA-binding domain + RR aspartate phosphatase<br />
-	[[2pkx]] – EcPhoP regulatory domain	+	[[2pkx]] – EcPhoP regulatory domain<br />
		+	[[3nhz]] – MtMtra N terminal<br />
	===Stress RR===		===Stress RR===
Line 176:		Line 180:
	[[2oqr]] – MtRR Regx3 <br />		[[2oqr]] – MtRR Regx3 <br />
	[[3sy8]] – PaRR Rocr <br />		[[3sy8]] – PaRR Rocr <br />
		+	[[4ixa]] – RR Saer DNA-binding domain – ''Staphylococcus epidermidis''<br />
		+	[[4ml3]], [[4mld]] – SpRR Rec domain (mutant)<br />
		+	[[4cbv]] – SpRR (mutant)<br />
	===RR complex with histidine kinase===		===RR complex with histidine kinase===
	[[3dge]], [[3dgf]] – TmRR + sensor protein<br/ >		[[3dge]], [[3dgf]] – TmRR + sensor protein<br/ >
-	[[3a0r]] – TmTrrA (mutant) + sensor protein	+	[[3a0r]] – TmTrrA (mutant) + sensor protein<br />
-		+	[[4jas]], [[4jav]] – TmRR (mutant) + histidine kinase<br />

---

Revision as of 08:12, 20 April 2014

Template:STRUCTURE 1kgs

Response regulators (RR) are part of the two-component signal transduction systems which enable bacteria to sense and respond to a wide range of environments. Two-component RR is a complex of histidine kinase (sensor protein SP) and RR. The RR act as phosphorylation-activated switches. Most RR consist of N terminal shich is the signal receiving domain and C terminal which is the DNA-binding domain. RR CheY is a chemotaxis response regulator in bacteria. RR Spo0 is the sporulation response regulator. For details see:
For PleD:

• PleD activation
  
• PleD allosteric product inhibition
  
• PleD catalysis
  
• Response regulator PLED in complex with C-di-GMP
  

For PhoP:

• PhoP Regulatory Domain
  
• PhoP-PhoQ
  

For photosynthetic apparatus RR:

• PrrA in Rhodobacter sphaeroides
  

For WspR RR:

• WspR.

3D Structures of response regulator

Updated on 20-April-2014

Nitrate/nitrite RR

1rnl, 1a04 – EcNarL – Escherichia coli
1je8, 1zg1, 1zg5 – EcNarL DNA-binding domain + DNA

Sporulation RR

1srr, 2jvi, 2jvj, 2jvk – BsSpo0F (mutant) – Bacillus subtilis
1nat - BsSpo0F
3q15 - BsSpo0F + RR aspartate phosphatase
1ixm - BsSpo0B
1fc3 – GsSpo0A trans-activation domain – Geobacillus stearothermophilus
1dz3, 1qmp - GsSpo0A reciever domain

DNA-binding RR

1kgs – TmDrrD – Thermotoga maritima
3nnn – TmDrrD receiver domain + BeF3
1p2f – TmDrrB
3nns - TmDrrB receiver domain + BeF3
1nxo, 1nxp, 1nxs, 1nxt, 1nxv, 1nxw, 1nxx – SpMicArec receiver domain – Streptococcus pneumonia
2gwr - MtMtrA – Mycobacterium tuberculosis
2hwv – VicR C terminal – Enterococcus faecalis
2qsj – LuxR – Silicibbacter pomeroyi
3cnb, 3eqz – MerR receiver domain – Colwellia psychrerythraea
2rnj – SaVraR DNA-binding domain – Staphylococcus aureus – NMR
2zxj - SaWalR DNA-binding domain
4gvp – SaVraR
4if4 – SaVraR + Mg + BeF3
3q9s – DrRR receiver domain – Deinococcus radiodurans
3q9v - DrRR C terminal
3rjp - RR DNA -binding domain – Streptococcus pyogenes

Cyanobacterial phytochrome RR

1i3c – SyRcp1 – Synechocystis
1jlk – SyRcp1 + Mn
1k66 – ToRcpB – Tolypothrix
1k68 – ToRcpB

Phosphatase synthesis RR

1mvo – BsPhoP receiver domain
2jb9, 2jba – EcPhoB (mutant)
2pmu – MtPhoP DNA-binding domain

Polar differentiation RR

1m5t, 1m5u – CvDivK – Caulobacter vibrioides
1mav, 1mb0, 1mb3 – CvDivK + cation

Photosynthetic apparatus RR

1umq – PrrA DNA-binding domain – Rhodobacter sphaeroides – NMR
1ys6 – MtPrrA
1ys7 – MtPrrA + Mg

Redox RR

1xhe – EcArcA receiver domain
1xhf – EcArcA receiver domain + BeF3
2y79 – MtDevs GAF domain (mutant)
3zxo - MtDevs ATP-binding domain (mutant)

Social motility RR

2gkg, 2i6f – MxFrzS receiver domain – Myxococcus xanthus
2nt3, 2nt4 - MxFrzS receiver domain (mutant)

Stalked-cell differentiation RR

2v0n – CvPleD + GMP + GTP
2wb4, 1w25 - CvPleD + GMP

Hypoxia RR

3c3w, 1zlj – MtDosR
3c57 – MtDosR C terminal
1zlk – MtDosR C terminal + DNA
3zxo – MtDost ATP-binding domain

Transcriptional RR

2zwm – BsYycF receiver domain
3ulq – BsComA DNA-binding domain + RR aspartate phosphatase
2pkx – EcPhoP regulatory domain
3nhz – MtMtra N terminal

Stress RR

3n0r – CVPhyR

Chemotaxis RR

3t8y - EcCheB
1mih, 1jbe – EcCheY
1p6q – SmCheY2 - Sinorhizobium meliloti
1p6u – SmCheY2 + BeF3
3hzh – CheY-3 + CheX – Borrelia burgdorferi
1u0s – TmCheY + CheA
2chy – CheY – Salmonella typhimurium

CheY-like RR

3snk – RR – Mesorhizobium loti
3cg4, 3crn - RR receiver domain – Methanospirillum hungatei
3i42 – RR receiver domain – Methylobacter flagellates
3bre – PaRR – Pseudomonas aeruginosa

Two-component RR

2lpm – SmRR

Unspecified RR receiver domain

2a9o, 2a9p, 2a9q – SpRR + Mn + BeF3
2a9r – SpRR + phosphate + Mg
2pln – HP1043 – Helicobacter pylori
2qr3 – RR – Bacteroides fragilis
2qxy – TmRR
2qzj – RR – Clostridium difficile
3kht – RR – Hahella chejuensis
3c3m – RR – Methanoculleus marisnigri
3cz5 – RR – Aurantimonas
3heb - RR – Rhodospirillum rubrum
3lte – RR – Bermanella marisrubri
3jte, 3lua – RR – Clostridium thermocellum
4e7o – SpRR
4e7p – SpRR + BeF3
2b4a – RR Bh3024 – Bacillus halodurans

Unspecified RR

1yio, 1zn2 – StyR – Pseudomonas fluorescens
3a0u, 3a10 – TmTrrA + Mg + BeF3
2qvg – RR – Legionella pneumophila
3gl9 - TmRR
4hye – SpRR
2zay – RR – Desulfuromonas acetoxidans
2rdm – RR (mutant) – Sinorhizobium medicae
3hdv – RR – Pseudomonas putida
3i5a – PsWspR – Pseudomonas syringae
3ilh – RR – Cytophaga hutchinsonii
3i5b – PaWspR GGDEF domain
3i5c – PaWspR GGDEF domain/GCN4 leucine zipper
3ljx – McMmoQ – Methylococcus capsulatus
3p3q – McMmoQ (mutant)
3lsg – RR C terminal – Fusobacterium nucleatum
3nhm – MxRR
3m6m – XcRpfC REC domain + enoyl-CoA hydratase – Xanthomonas campestris
3qyy – XcRR GGDEF domain + GMP
3p01 – RR residues 134-315 – Nostoc
3rqi – RR + phosphate + Ca + citrate – Burkholderia pseudomallei
3kto – RR - Pseudoalteromonas atlantica
3t0y – CvRR anti-anti-σ domain + anti-σ factor NEPR
2oqr – MtRR Regx3
3sy8 – PaRR Rocr
4ixa – RR Saer DNA-binding domain – Staphylococcus epidermidis
4ml3, 4mld – SpRR Rec domain (mutant)
4cbv – SpRR (mutant)

RR complex with histidine kinase

3dge, 3dgf – TmRR + sensor protein
3a0r – TmTrrA (mutant) + sensor protein
4jas, 4jav – TmRR (mutant) + histidine kinase