sensor histidine kinase [Bordetella parapertussis]
Protein Classification
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||||||
| PRK13557 super family | cl36263 | histidine kinase; Provisional |
565-985 | 1.08e-99 | ||||||||
histidine kinase; Provisional The actual alignment was detected with superfamily member PRK13557: Pssm-ID: 237425 [Multi-domain] Cd Length: 540 Bit Score: 323.93 E-value: 1.08e-99
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| PAS super family | cl21578 | PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ... |
488-600 | 2.16e-12 | ||||||||
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. The actual alignment was detected with superfamily member TIGR00229: Pssm-ID: 473914 [Multi-domain] Cd Length: 124 Bit Score: 65.00 E-value: 2.16e-12
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| GAF | COG2203 | GAF domain [Signal transduction mechanisms]; |
16-547 | 6.83e-12 | ||||||||
GAF domain [Signal transduction mechanisms]; : Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 69.45 E-value: 6.83e-12
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| Name | Accession | Description | Interval | E-value | ||||||||
| PRK13557 | PRK13557 | histidine kinase; Provisional |
565-985 | 1.08e-99 | ||||||||
histidine kinase; Provisional Pssm-ID: 237425 [Multi-domain] Cd Length: 540 Bit Score: 323.93 E-value: 1.08e-99
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| NtrB | COG3852 | Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms]; |
486-850 | 2.01e-82 | ||||||||
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms]; Pssm-ID: 443061 [Multi-domain] Cd Length: 361 Bit Score: 271.33 E-value: 2.01e-82
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| HATPase_CckA-like | cd16919 | Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar ... |
729-844 | 2.33e-44 | ||||||||
Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar to Brucella abortus 2308 CckA; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinase (HKs) similar to Brucella abortus 2308 CckA, which is a component of an essential protein phosphorelay that regulates expression of genes required for growth, division, and intracellular survival; phosphoryl transfer initiates from the sensor kinase CckA and proceeds via the ChpT phosphotransferase to two regulatory substrates: the DNA-binding response regulator CtrA and the phospho-receiver protein CpdR. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), a REC signal receiver domain, and some contain PAS or PAS and GAF sensor domain(s). Pssm-ID: 340396 [Multi-domain] Cd Length: 116 Bit Score: 156.00 E-value: 2.33e-44
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| HATPase_c | smart00387 | Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
725-844 | 1.69e-23 | ||||||||
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 96.18 E-value: 1.69e-23
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| HATPase_c | pfam02518 | Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
732-844 | 4.07e-21 | ||||||||
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90. Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 89.35 E-value: 4.07e-21
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| sensory_box | TIGR00229 | PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ... |
488-600 | 2.16e-12 | ||||||||
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions] Pssm-ID: 272971 [Multi-domain] Cd Length: 124 Bit Score: 65.00 E-value: 2.16e-12
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| PAS | cd00130 | PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ... |
492-578 | 6.72e-12 | ||||||||
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. Pssm-ID: 238075 [Multi-domain] Cd Length: 103 Bit Score: 63.04 E-value: 6.72e-12
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| GAF | COG2203 | GAF domain [Signal transduction mechanisms]; |
16-547 | 6.83e-12 | ||||||||
GAF domain [Signal transduction mechanisms]; Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 69.45 E-value: 6.83e-12
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| GAF_2 | pfam13185 | GAF domain; The GAF domain is named after some of the proteins it is found in, including ... |
35-178 | 1.20e-11 | ||||||||
GAF domain; The GAF domain is named after some of the proteins it is found in, including cGMP-specific phosphodiesterases, adenylyl cyclases and FhlA. It is also found in guanylyl cyclases and phytochromes. The structure of a GAF domain shows that the domain shares a similar fold with the PAS domain. This domain can bind O2, CO and NO (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Pssm-ID: 433019 [Multi-domain] Cd Length: 137 Bit Score: 63.25 E-value: 1.20e-11
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| PAS | COG2202 | PAS domain [Signal transduction mechanisms]; |
477-600 | 5.94e-11 | ||||||||
PAS domain [Signal transduction mechanisms]; Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 63.89 E-value: 5.94e-11
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| PAS_3 | pfam08447 | PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ... |
506-572 | 8.73e-10 | ||||||||
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Pssm-ID: 430001 [Multi-domain] Cd Length: 89 Bit Score: 56.19 E-value: 8.73e-10
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| nifL_nitrog | TIGR02938 | nitrogen fixation negative regulator NifL; NifL is a modulator of the nitrogen fixation ... |
474-844 | 2.16e-09 | ||||||||
nitrogen fixation negative regulator NifL; NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes. [Central intermediary metabolism, Nitrogen fixation, Regulatory functions, Protein interactions] Pssm-ID: 131984 [Multi-domain] Cd Length: 494 Bit Score: 61.07 E-value: 2.16e-09
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| PAS | smart00091 | PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ... |
483-545 | 3.60e-08 | ||||||||
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. Pssm-ID: 214512 Cd Length: 67 Bit Score: 50.86 E-value: 3.60e-08
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| PRK09776 | PRK09776 | putative diguanylate cyclase; Provisional |
471-602 | 1.74e-04 | ||||||||
putative diguanylate cyclase; Provisional Pssm-ID: 182070 [Multi-domain] Cd Length: 1092 Bit Score: 45.82 E-value: 1.74e-04
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| PRK11359 | PRK11359 | cyclic-di-GMP phosphodiesterase; Provisional |
106-184 | 4.53e-04 | ||||||||
cyclic-di-GMP phosphodiesterase; Provisional Pssm-ID: 183097 [Multi-domain] Cd Length: 799 Bit Score: 44.38 E-value: 4.53e-04
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| GAF | smart00065 | Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
52-187 | 9.64e-04 | ||||||||
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa. Pssm-ID: 214500 [Multi-domain] Cd Length: 149 Bit Score: 40.83 E-value: 9.64e-04
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| Name | Accession | Description | Interval | E-value | |||||||||
| PRK13557 | PRK13557 | histidine kinase; Provisional |
565-985 | 1.08e-99 | |||||||||
histidine kinase; Provisional Pssm-ID: 237425 [Multi-domain] Cd Length: 540 Bit Score: 323.93 E-value: 1.08e-99
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| NtrB | COG3852 | Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms]; |
486-850 | 2.01e-82 | |||||||||
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms]; Pssm-ID: 443061 [Multi-domain] Cd Length: 361 Bit Score: 271.33 E-value: 2.01e-82
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| COG4191 | COG4191 | Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal ... |
471-846 | 2.80e-81 | |||||||||
Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Pssm-ID: 443345 [Multi-domain] Cd Length: 361 Bit Score: 268.20 E-value: 2.80e-81
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| NtrY | COG5000 | Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism ... |
422-850 | 2.48e-65 | |||||||||
Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Pssm-ID: 444024 [Multi-domain] Cd Length: 422 Bit Score: 226.38 E-value: 2.48e-65
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| BaeS | COG0642 | Signal transduction histidine kinase [Signal transduction mechanisms]; |
505-846 | 2.07e-49 | |||||||||
Signal transduction histidine kinase [Signal transduction mechanisms]; Pssm-ID: 440407 [Multi-domain] Cd Length: 328 Bit Score: 178.18 E-value: 2.07e-49
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| KinE | COG5809 | Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ... |
492-851 | 1.23e-48 | |||||||||
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]; Pssm-ID: 444511 [Multi-domain] Cd Length: 489 Bit Score: 180.56 E-value: 1.23e-48
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| HATPase_CckA-like | cd16919 | Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar ... |
729-844 | 2.33e-44 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar to Brucella abortus 2308 CckA; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinase (HKs) similar to Brucella abortus 2308 CckA, which is a component of an essential protein phosphorelay that regulates expression of genes required for growth, division, and intracellular survival; phosphoryl transfer initiates from the sensor kinase CckA and proceeds via the ChpT phosphotransferase to two regulatory substrates: the DNA-binding response regulator CtrA and the phospho-receiver protein CpdR. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), a REC signal receiver domain, and some contain PAS or PAS and GAF sensor domain(s). Pssm-ID: 340396 [Multi-domain] Cd Length: 116 Bit Score: 156.00 E-value: 2.33e-44
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| KdpD | COG2205 | K+-sensing histidine kinase KdpD [Signal transduction mechanisms]; |
600-846 | 2.65e-43 | |||||||||
K+-sensing histidine kinase KdpD [Signal transduction mechanisms]; Pssm-ID: 441807 [Multi-domain] Cd Length: 239 Bit Score: 157.38 E-value: 2.65e-43
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| KinA | COG5805 | Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle ... |
492-844 | 5.37e-43 | |||||||||
Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]; Pssm-ID: 444507 [Multi-domain] Cd Length: 496 Bit Score: 164.13 E-value: 5.37e-43
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| PRK13837 | PRK13837 | two-component system VirA-like sensor kinase; |
593-990 | 1.09e-42 | |||||||||
two-component system VirA-like sensor kinase; Pssm-ID: 237526 [Multi-domain] Cd Length: 828 Bit Score: 168.32 E-value: 1.09e-42
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| KinC | COG5807 | Sporulation sensor histidine kinase C [Cell cycle control, cell division, chromosome ... |
493-845 | 4.19e-42 | |||||||||
Sporulation sensor histidine kinase C [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]; Pssm-ID: 444509 [Multi-domain] Cd Length: 358 Bit Score: 158.03 E-value: 4.19e-42
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| PRK11360 | PRK11360 | two-component system sensor histidine kinase AtoS; |
495-849 | 1.00e-37 | |||||||||
two-component system sensor histidine kinase AtoS; Pssm-ID: 236901 [Multi-domain] Cd Length: 607 Bit Score: 150.50 E-value: 1.00e-37
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| WalK | COG5002 | Sensor histidine kinase WalK [Signal transduction mechanisms]; |
464-845 | 1.31e-35 | |||||||||
Sensor histidine kinase WalK [Signal transduction mechanisms]; Pssm-ID: 444026 [Multi-domain] Cd Length: 390 Bit Score: 140.07 E-value: 1.31e-35
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| HATPase_AtoS-like | cd16943 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
728-845 | 2.35e-27 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli K-12 AtoS; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs) such as Escherichia coli AtoS, an HK of the AtoS-AtoC TCS. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some have accessory domains such as HAMP or PAS sensor domains or CBS-pair domains. Pssm-ID: 340419 [Multi-domain] Cd Length: 105 Bit Score: 107.12 E-value: 2.35e-27
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| PRK10364 | PRK10364 | two-component system sensor histidine kinase ZraS; |
601-844 | 2.52e-27 | |||||||||
two-component system sensor histidine kinase ZraS; Pssm-ID: 236674 [Multi-domain] Cd Length: 457 Bit Score: 116.81 E-value: 2.52e-27
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| COG4251 | COG4251 | Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal ... |
421-846 | 1.37e-24 | |||||||||
Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Pssm-ID: 443393 [Multi-domain] Cd Length: 503 Bit Score: 109.10 E-value: 1.37e-24
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| HATPase_c | smart00387 | Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
725-844 | 1.69e-23 | |||||||||
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 96.18 E-value: 1.69e-23
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| HATPase_c | pfam02518 | Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
732-844 | 4.07e-21 | |||||||||
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90. Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 89.35 E-value: 4.07e-21
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| HATPase_HupT_MifS-like | cd16976 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
730-843 | 2.43e-20 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Rhodobacter capsulatus HupT and Pseudomonas aeruginosa MifS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Rhodobacter capsulatus HupT of the HupT-HupR two-component regulatory system (TCS), which regulates the synthesis of HupSL, a membrane bound [NiFe]hydrogenase. It also contains the HATPase domain of Pseudomonas aeruginosa MifS, the HK of the MifS-MifR TCS, which may be involved in sensing alpha-ketoglutarate and regulating its transport and subsequent metabolism. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some also have a C-terminal PAS sensor domain. Pssm-ID: 340435 [Multi-domain] Cd Length: 102 Bit Score: 86.74 E-value: 2.43e-20
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| CitA | COG3290 | Sensor histidine kinase DipB regulating citrate/malate metabolism [Signal transduction ... |
451-845 | 8.36e-20 | |||||||||
Sensor histidine kinase DipB regulating citrate/malate metabolism [Signal transduction mechanisms]; Pssm-ID: 442519 [Multi-domain] Cd Length: 389 Bit Score: 92.60 E-value: 8.36e-20
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| COG4192 | COG4192 | Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ... |
600-831 | 9.69e-20 | |||||||||
Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Pssm-ID: 443346 [Multi-domain] Cd Length: 640 Bit Score: 94.75 E-value: 9.69e-20
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| CheY | COG0784 | CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ... |
875-989 | 1.14e-19 | |||||||||
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms]; Pssm-ID: 440547 [Multi-domain] Cd Length: 128 Bit Score: 85.67 E-value: 1.14e-19
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| REC_hyHK_blue-like | cd18161 | phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ... |
875-972 | 5.21e-17 | |||||||||
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators similar to Pseudomonas savastanoi blue-light-activated histidine kinase; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase (HK)/response regulators contain all the elements of a classical TCS in a single polypeptide chain. Pseudomonas savastanoi blue-light-activated histidine kinase is a photosensitive HK and RR that is involved in increased bacterial virulence upon exposure to light. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381145 [Multi-domain] Cd Length: 102 Bit Score: 77.39 E-value: 5.21e-17
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| AtoC | COG2204 | DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
875-989 | 6.08e-17 | |||||||||
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms]; Pssm-ID: 441806 [Multi-domain] Cd Length: 418 Bit Score: 84.24 E-value: 6.08e-17
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| OmpR | COG0745 | DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ... |
875-989 | 1.73e-16 | |||||||||
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription]; Pssm-ID: 440508 [Multi-domain] Cd Length: 204 Bit Score: 79.23 E-value: 1.73e-16
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| HATPase_TmoS-FixL-DctS-like | cd16920 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
730-844 | 3.45e-16 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Rhizobium meliloti FixL, and Rhodobacter capsulatus DctS; includes hybrid sensor histidine kinase similar to Pseudomonas mendocina TmoS; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs), such as Pseudomonas mendocina TmoS HK of the TmoS-TmoT TCS, which controls the expression of the toluene-4-monooxygenase pathway, Rhizobium meliloti FixL HK of the FixL-FixJ TCS, which regulates the expression of the genes related to nitrogen fixation in the root nodule in response to O(2) levels, and Rhodobacter capsulatus DctS of the DctS-DctR TCS, which controls synthesis of the high-affinity C4-dicarboxylate transport system. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and PAS sensor domain(s); many are hybrid sensor histidine kinases as they also contain a REC signal receiver domain. Pssm-ID: 340397 [Multi-domain] Cd Length: 104 Bit Score: 75.13 E-value: 3.45e-16
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| PAS | COG2202 | PAS domain [Signal transduction mechanisms]; |
475-681 | 1.17e-14 | |||||||||
PAS domain [Signal transduction mechanisms]; Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 75.06 E-value: 1.17e-14
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| RpfG | COG3437 | Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ... |
875-986 | 1.31e-14 | |||||||||
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms]; Pssm-ID: 442663 [Multi-domain] Cd Length: 224 Bit Score: 74.05 E-value: 1.31e-14
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| REC | cd00156 | phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ... |
875-971 | 1.32e-14 | |||||||||
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381085 [Multi-domain] Cd Length: 99 Bit Score: 70.33 E-value: 1.32e-14
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| Response_reg | pfam00072 | Response regulator receiver domain; This domain receives the signal from the sensor partner in ... |
875-981 | 1.92e-14 | |||||||||
Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. Pssm-ID: 395025 [Multi-domain] Cd Length: 111 Bit Score: 70.26 E-value: 1.92e-14
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| PRK11100 | PRK11100 | sensory histidine kinase CreC; Provisional |
631-846 | 1.57e-13 | |||||||||
sensory histidine kinase CreC; Provisional Pssm-ID: 236846 [Multi-domain] Cd Length: 475 Bit Score: 74.11 E-value: 1.57e-13
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| PleD | COG3706 | Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ... |
875-981 | 5.77e-13 | |||||||||
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription]; Pssm-ID: 442920 [Multi-domain] Cd Length: 179 Bit Score: 68.01 E-value: 5.77e-13
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| sensory_box | TIGR00229 | PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ... |
488-600 | 2.16e-12 | |||||||||
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions] Pssm-ID: 272971 [Multi-domain] Cd Length: 124 Bit Score: 65.00 E-value: 2.16e-12
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| HATPase_NtrY-like | cd16944 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
725-844 | 4.90e-12 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Azorhizobium caulinodans NtrY; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs) such as Azorhizobium caulinodans ORS571 NtrY of the NtrY-NtrX TCS, which is involved in nitrogen fixation and metabolism. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and a HAMP sensor domain; some also have PAS sensor domains. Pssm-ID: 340420 [Multi-domain] Cd Length: 108 Bit Score: 63.33 E-value: 4.90e-12
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| PAS | cd00130 | PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ... |
492-578 | 6.72e-12 | |||||||||
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. Pssm-ID: 238075 [Multi-domain] Cd Length: 103 Bit Score: 63.04 E-value: 6.72e-12
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| GAF | COG2203 | GAF domain [Signal transduction mechanisms]; |
16-547 | 6.83e-12 | |||||||||
GAF domain [Signal transduction mechanisms]; Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 69.45 E-value: 6.83e-12
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| GAF_2 | pfam13185 | GAF domain; The GAF domain is named after some of the proteins it is found in, including ... |
35-178 | 1.20e-11 | |||||||||
GAF domain; The GAF domain is named after some of the proteins it is found in, including cGMP-specific phosphodiesterases, adenylyl cyclases and FhlA. It is also found in guanylyl cyclases and phytochromes. The structure of a GAF domain shows that the domain shares a similar fold with the PAS domain. This domain can bind O2, CO and NO (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Pssm-ID: 433019 [Multi-domain] Cd Length: 137 Bit Score: 63.25 E-value: 1.20e-11
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| REC_OmpR | cd17574 | phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ... |
875-928 | 2.05e-11 | |||||||||
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381116 [Multi-domain] Cd Length: 99 Bit Score: 61.27 E-value: 2.05e-11
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| PAS | COG2202 | PAS domain [Signal transduction mechanisms]; |
477-600 | 5.94e-11 | |||||||||
PAS domain [Signal transduction mechanisms]; Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 63.89 E-value: 5.94e-11
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| PRK15347 | PRK15347 | two component system sensor kinase; |
623-844 | 1.12e-10 | |||||||||
two component system sensor kinase; Pssm-ID: 237951 [Multi-domain] Cd Length: 921 Bit Score: 65.82 E-value: 1.12e-10
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| YesN | COG4753 | Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ... |
875-953 | 1.31e-10 | |||||||||
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription]; Pssm-ID: 443786 [Multi-domain] Cd Length: 103 Bit Score: 59.02 E-value: 1.31e-10
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| PtsP | COG3605 | Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; |
23-203 | 1.45e-10 | |||||||||
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Pssm-ID: 442824 [Multi-domain] Cd Length: 188 Bit Score: 61.45 E-value: 1.45e-10
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| PRK11466 | PRK11466 | hybrid sensory histidine kinase TorS; Provisional |
769-986 | 1.67e-10 | |||||||||
hybrid sensory histidine kinase TorS; Provisional Pssm-ID: 236914 [Multi-domain] Cd Length: 914 Bit Score: 65.31 E-value: 1.67e-10
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| REC_OmpR_PhoB | cd17618 | phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ... |
875-985 | 1.89e-10 | |||||||||
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The transcription factor PhoB is a component of the PhoR/PhoB two-component system, a key regulatory protein network that facilitates response to inorganic phosphate (Pi) starvation conditions by turning on the phosphate (pho) regulon whose products are involved in phosphorus uptake and metabolism. PhoB is a member of the OmpR family of DNA-binding response regulators that contains REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381133 [Multi-domain] Cd Length: 118 Bit Score: 59.19 E-value: 1.89e-10
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| HATPase_BasS-like | cd16940 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
732-843 | 3.45e-10 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli BasS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) similar to Escherichia coli BasS HK of the BasS-BasR two-component regulatory system (TCS). Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some contain a HAMP sensory domain, while some an N-terminal two-component sensor kinase domain. Pssm-ID: 340417 [Multi-domain] Cd Length: 113 Bit Score: 58.19 E-value: 3.45e-10
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| COG3920 | COG3920 | Two-component sensor histidine kinase, HisKA and HATPase domains [Signal transduction ... |
323-844 | 3.96e-10 | |||||||||
Two-component sensor histidine kinase, HisKA and HATPase domains [Signal transduction mechanisms]; Pssm-ID: 443125 [Multi-domain] Cd Length: 495 Bit Score: 63.39 E-value: 3.96e-10
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| HATPase_DpiB-CitA-like | cd16915 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
735-844 | 4.34e-10 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli K-12 DpiB, DcuS, and Bacillus subtilis CitS, DctS, and YufL; This family includes histidine kinase-like ATPase domains of Escherichia coli K-12 DpiB and DcuS, and Bacillus subtilis CitS, DctS and MalK histidine kinases (HKs) all of which are two component transduction systems (TCSs). E. coli K-12 DpiB (also known as CitA) is the histidine kinase (HK) of DpiA-DpiB, a two-component signal transduction system (TCS) required for the expression of citrate-specific fermentation genes and genes involved in plasmid inheritance. E. coli K-12 DcuS (also known as YjdH) is the HK of DcuS-DcuR, a TCS that in the presence of the extracellular C4-dicarboxlates, activates the expression of the genes of anaerobic fumarate respiration and of aerobic C4-dicarboxylate uptake. CitS is the HK of Bacillus subtilis CitS-CitT, a TCS which regulates expression of CitM, the Mg-citrate transporter. Bacillus subtilis DctS forms a tripartite sensor unit (DctS/DctA/DctB) for sensing C4 dicarboxylates. Bacillus subtilis MalK (also known as YfuL) is the HK of MalK-MalR (YufL-YufM) a TCS which regulates the expression of the malate transporters MaeN (YufR) and YflS, and is essential for utilization of malate in minimal medium. Proteins having this DpiB-CitA-like HATPase domain generally have sensor domains such as Cache and PAS, and a histidine kinase A (HisKA)-like SpoOB-type, alpha-helical domain. Pssm-ID: 340392 [Multi-domain] Cd Length: 104 Bit Score: 57.68 E-value: 4.34e-10
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| HATPase_EvgS-ArcB-TorS-like | cd16922 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases, many are hybrid ... |
733-844 | 6.26e-10 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases, many are hybrid sensor histidine kinases, similar to Escherichia coli EvgS, ArcB, TorS, BarA, RcsC; This family contains the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinases (HKs), including the following Escherichia coli HKs: EvgS, a HK of the EvgS-EvgA two-component system (TCS) that confers acid resistance; ArcB, a HK of the ArcB-ArcA TCS that modulates the expression of numerous genes in response to respiratory growth conditions; TorS, a HK of the TorS-TorR TCS which is involved in the anaerobic utilization of trimethylamine-N-oxide; BarA, a HK of the BarA-UvrY TCS involved in the regulation of carbon metabolism; and RcsC, a HK of the RcsB-RcsC TCS which regulates the expression of the capsule operon and of the cell division gene ftsZ. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), with most having accessory sensor domain(s) such as GAF, PAS and CHASE; many are hybrid sensor histidine kinases as they also contain a REC signal receiver domain. Pssm-ID: 340399 [Multi-domain] Cd Length: 110 Bit Score: 57.50 E-value: 6.26e-10
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| PAS_3 | pfam08447 | PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ... |
506-572 | 8.73e-10 | |||||||||
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Pssm-ID: 430001 [Multi-domain] Cd Length: 89 Bit Score: 56.19 E-value: 8.73e-10
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| CitB | COG4565 | DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ... |
875-990 | 9.45e-10 | |||||||||
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms]; Pssm-ID: 443622 [Multi-domain] Cd Length: 138 Bit Score: 57.67 E-value: 9.45e-10
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| HATPase_Glnl-NtrB-like | cd16918 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
730-844 | 1.93e-09 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli GlnL (synonyms NtrB and NRII); This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs), similar to Escherichia coli GlnL/NtrB/NRII HK of the two-component regulatory system (TCS) GlnL/GlnG (NtrB-NtrC, or NRII-NRI), which regulates the transcription of genes encoding metabolic enzymes and permeases in response to carbon and nitrogen status in E. coli and related bacteria. Also included in this family are Rhodobacter capsulatus NtrB, Azospirillum brasilense NtrB, Vibrio alginolyticus NtrB, Rhizobium leguminosarum biovar phaseoli NtrB, and Herbaspirillum seropedicae NtrB. Escherichia coli GlnL/NtrB/NRII is both a kinase and a phosphatase, catalyzing the phosphorylation and dephosphorylation of GlnG/NtrC/NRI. The kinase and phosphatase activities of GlnL/NtrB/NRII are regulated by the PII signal transduction protein, which on binding to GlnL/NtrB/NRII, inhibits the kinase activity of GlnL/NtrB/NRII and activates the GlnL/NtrB/NRII phosphatase activity. Proteins having this HATPase domain also have a histidine kinase dimerization and phosphoacceptor domain (HisKA); some also contain PAS sensor domain(s). Pssm-ID: 340395 [Multi-domain] Cd Length: 109 Bit Score: 55.87 E-value: 1.93e-09
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| nifL_nitrog | TIGR02938 | nitrogen fixation negative regulator NifL; NifL is a modulator of the nitrogen fixation ... |
474-844 | 2.16e-09 | |||||||||
nitrogen fixation negative regulator NifL; NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes. [Central intermediary metabolism, Nitrogen fixation, Regulatory functions, Protein interactions] Pssm-ID: 131984 [Multi-domain] Cd Length: 494 Bit Score: 61.07 E-value: 2.16e-09
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| REC_CpdR_CckA-like | cd18160 | phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ... |
875-972 | 4.58e-09 | |||||||||
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; Two-component systems (TCSs), consisting of a sensor and a response regulator, are used by bacteria to adapt to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis and membrane transport. Response regulators share the common phosphoacceptor REC domain and differ output domains such as DNA, RNA, ligand, and protein-binding, or enzymatic domain. CpdR is a stand-alone REC protein. CckA is a sensor histidine kinase containing N-terminal PAS domains and a C-terminal REC domain. CpdR and CckA are components of a regulatory phosphorelay system (composed of CckA, ChpT, CtrA and CpdR) that controls Brucella abortus cell growth, division, and intracellular survival inside mammalian host cells. CckA autophosphorylates in the presence of ATP and transfers a phosphoryl group to the conserved aspartic acid residue on its C-terminal REC domain, which is relayed to the ChpT phosphotransferase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381144 [Multi-domain] Cd Length: 103 Bit Score: 54.82 E-value: 4.58e-09
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| REC_CheY4-like | cd17562 | phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ... |
875-985 | 5.72e-09 | |||||||||
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY4 and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381110 [Multi-domain] Cd Length: 118 Bit Score: 55.00 E-value: 5.72e-09
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| REC_2_DhkD-like | cd17580 | second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ... |
875-979 | 1.07e-08 | |||||||||
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381118 [Multi-domain] Cd Length: 112 Bit Score: 54.00 E-value: 1.07e-08
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| HATPase_TutC-TodS-like | cd16925 | Histidine kinase-like ATPase domain of hybrid sensor histidine kinases similar to Pseudomonas ... |
725-844 | 1.17e-08 | |||||||||
Histidine kinase-like ATPase domain of hybrid sensor histidine kinases similar to Pseudomonas putida TodS and Thauera aromatica TutC; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinase (HKs) such Pseudomonas putida TodS HK of the TodS-TodT two-component regulatory system (TCS) which controls the expression of a toluene degradation pathway. Thauera aromatica TutC may be part of a TCS that is involved in anaerobic toluene metabolism. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), PAS sensor domain(s) and a REC domain. Pssm-ID: 340402 [Multi-domain] Cd Length: 110 Bit Score: 53.65 E-value: 1.17e-08
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| REC_TrrA-like | cd17554 | phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ... |
875-959 | 1.84e-08 | |||||||||
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and similar domains; Thermotoga maritima contains a two-component signal transduction system (TCS) composed of the ThkA sensory histidine kinase (HK) and its cognate response regulator (RR) TrrA; the specific function of the system is unknown. TCSs couple environmental stimuli to adaptive responses. TrrA is a stand-alone RR containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381106 [Multi-domain] Cd Length: 113 Bit Score: 53.38 E-value: 1.84e-08
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| PAS | smart00091 | PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ... |
483-545 | 3.60e-08 | |||||||||
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. Pssm-ID: 214512 Cd Length: 67 Bit Score: 50.86 E-value: 3.60e-08
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| HATPase_BceS-YxdK-YvcQ-like | cd16948 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
736-844 | 5.36e-08 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis BceS, YxdK, and Bacillus thuringiensis YvcQ; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Bacillus subtilis BceS and Bacillus thuringiensis YvcQ, the HKs of the two-component regulatory system (TCSs) BceS-BceR and YvcQ-YvcP, repsectively, which are both involved in regulating bacitracin resistance. It also includes the HATPase domain of YxdK, the HK of YxdK-YxdJ TCS involved in sensing antimicrobial compounds. Pssm-ID: 340424 [Multi-domain] Cd Length: 109 Bit Score: 51.90 E-value: 5.36e-08
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| PRK11361 | PRK11361 | acetoacetate metabolism transcriptional regulator AtoC; |
875-985 | 5.82e-08 | |||||||||
acetoacetate metabolism transcriptional regulator AtoC; Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 56.40 E-value: 5.82e-08
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| COG4567 | COG4567 | DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ... |
875-952 | 5.89e-08 | |||||||||
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription]; Pssm-ID: 443624 [Multi-domain] Cd Length: 177 Bit Score: 53.38 E-value: 5.89e-08
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| REC | smart00448 | cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ... |
875-924 | 1.08e-07 | |||||||||
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues. Pssm-ID: 214668 [Multi-domain] Cd Length: 55 Bit Score: 49.10 E-value: 1.08e-07
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| HATPase_CreC-like | cd16945 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
730-838 | 2.30e-07 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli CreC; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Escherichia coli CreC of the CreC-CreB two-component regulatory system (TCS) involved in catabolic regulation. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), and accessory sensory domain(s) such as HAMP, CACHE or PAS. Pssm-ID: 340421 [Multi-domain] Cd Length: 106 Bit Score: 50.15 E-value: 2.30e-07
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| REC_HupR-like | cd17569 | phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ... |
876-952 | 2.54e-07 | |||||||||
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar domains; This family is composed of mostly uncharacterized response regulators with similarity to the REC domains of response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It contains an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. Members of this family contain a REC domain and various output domains including the cyclase homology domain (CHD) and the c-di-GMP phosphodiesterase domains, HD-GYP and EAL. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381113 [Multi-domain] Cd Length: 118 Bit Score: 50.09 E-value: 2.54e-07
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| PRK10337 | PRK10337 | sensor protein QseC; Provisional |
665-841 | 2.61e-07 | |||||||||
sensor protein QseC; Provisional Pssm-ID: 182388 [Multi-domain] Cd Length: 449 Bit Score: 54.27 E-value: 2.61e-07
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| REC_RR468-like | cd17552 | phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ... |
875-985 | 2.66e-07 | |||||||||
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and similar domains; Thermotoga maritima RR468 (encoded by gene TM0468) is the cognate response regulator (RR) of the class I histidine kinase HK853 (product of gene TM0853). HK853/RR468 comprise a two-component system (TCS) that couples environmental stimuli to adaptive responses. This subfamily also includes Fremyella diplosiphon complementary adaptation response regulator homolog RcaF, a small RR that is involved in four-step phosphorelays of the complementary chromatic adaptation (CCA) system that occurs in many cyanobacteria. Both RR468 and RcaF are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381104 [Multi-domain] Cd Length: 121 Bit Score: 50.24 E-value: 2.66e-07
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| HisKA | pfam00512 | His Kinase A (phospho-acceptor) domain; dimerization and phospho-acceptor domain of histidine ... |
615-682 | 2.75e-07 | |||||||||
His Kinase A (phospho-acceptor) domain; dimerization and phospho-acceptor domain of histidine kinases. Pssm-ID: 459839 [Multi-domain] Cd Length: 66 Bit Score: 48.36 E-value: 2.75e-07
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| GAF | pfam01590 | GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ... |
97-177 | 2.83e-07 | |||||||||
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyze ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regulating catalytic activity by binding to the regulatory GAF domain(s). The opposite hydrolysis reaction is catalyzed by phosphodiesterase. cGMP-dependent 3',5'-cyclic phosphodiesterase catalyzes the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. Here too, cGMP regulates catalytic activity by GAF-domain binding. Phytochromes are regulatory photoreceptors in plants and bacteria which exist in two thermally-stable states that are reversibly inter-convertible by light: the Pr state absorbs maximally in the red region of the spectrum, while the Pfr state absorbs maximally in the far-red region. This domain is also found in FhlA (formate hydrogen lyase transcriptional activator) and NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54. This domain can bind biliverdine and phycocyanobilin (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Pssm-ID: 460259 [Multi-domain] Cd Length: 133 Bit Score: 50.56 E-value: 2.83e-07
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| REC_YesN-like | cd17536 | phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ... |
875-952 | 3.93e-07 | |||||||||
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381091 [Multi-domain] Cd Length: 121 Bit Score: 49.64 E-value: 3.93e-07
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| REC_OmpR_BsPhoP-like | cd19937 | phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ... |
875-985 | 3.93e-07 | |||||||||
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus subtilis PhoP (BsPhoP) is part of the PhoPR two-component system that participates in a signal transduction network that controls adaptation of the bacteria to phosphate deficiency by regulating (activating or repressing) genes of the Pho regulon upon phosphorylation by PhoR. When activated, PhoPR directs expression of phosphate scavenging enzymes, lowers synthesis of the phosphate-rich wall teichoic acid (WTA) and initiates synthesis of teichuronic acid, a non-phosphate containing replacement anionic polymer. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381164 [Multi-domain] Cd Length: 116 Bit Score: 49.58 E-value: 3.93e-07
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| PRK10604 | PRK10604 | sensor protein RstB; Provisional |
670-855 | 7.37e-07 | |||||||||
sensor protein RstB; Provisional Pssm-ID: 236724 [Multi-domain] Cd Length: 433 Bit Score: 52.68 E-value: 7.37e-07
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| REC_DctD-like | cd17549 | phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ... |
875-987 | 8.42e-07 | |||||||||
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381101 [Multi-domain] Cd Length: 130 Bit Score: 49.03 E-value: 8.42e-07
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| REC_NarL-like | cd17535 | phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ... |
875-986 | 2.68e-06 | |||||||||
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family response regulators; The NarL family is one of the more abundant families of DNA-binding response regulators (RRs). Members of the NarL family contain a REC domain and a helix-turn-helix (HTH) DNA-binding output domain, with a majority of members containing a LuxR-type HTH domain. They function as transcriptional regulators. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381090 [Multi-domain] Cd Length: 117 Bit Score: 47.12 E-value: 2.68e-06
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| PAS | pfam00989 | PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ... |
483-581 | 2.91e-06 | |||||||||
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Pssm-ID: 395786 [Multi-domain] Cd Length: 113 Bit Score: 47.03 E-value: 2.91e-06
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| phoR | PRK11006 | phosphate regulon sensor histidine kinase PhoR; |
654-816 | 3.46e-06 | |||||||||
phosphate regulon sensor histidine kinase PhoR; Pssm-ID: 182895 [Multi-domain] Cd Length: 430 Bit Score: 50.78 E-value: 3.46e-06
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| REC_OmpR_DrrD-like | cd17625 | phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ... |
875-985 | 3.50e-06 | |||||||||
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a OmpR/PhoB homolog from Thermotoga maritima whose function is not yet known. This subfamily also includes Streptococcus agalactiae transcriptional regulatory protein DltR, part of the DltS/DltR two-component system (TCS), and Pseudomonas aeruginosa transcriptional activator protein PfeR, part of the PfeR/PfeS TCS, which activates expression of the ferric enterobactin receptor. The DltS/DltR TCS regulates the expression of the dlt operon, which comprises four genes (dltA, dltB, dltC, and dltD) that catalyze the incorporation of D-alanine residues into the lipoteichoic acids. Members of this subfamily belong to the OmpR/PhoB family, which comprises of two domains, an N-terminal receiver domain and a C-terminal DNA-binding winged helix-turn-helix effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381140 [Multi-domain] Cd Length: 115 Bit Score: 46.83 E-value: 3.50e-06
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| HATPase_EnvZ-like | cd16950 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
732-844 | 4.68e-06 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli EnvZ and Pseudomonas aeruginosa BfmS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Escherichia coli EnvZ of the EnvZ-OmpR two-component regulatory system (TCS), which functions in osmoregulation. It also contains the HATPase domain of Pseudomonas aeruginosa BfmS, the HK of the BfmSR TCS, which functions in the regulation of the rhl quorum-sensing system and bacterial virulence in P. aeruginosa. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and a HAMP sensor domain; some also contain a periplasmic domain. Pssm-ID: 340426 [Multi-domain] Cd Length: 101 Bit Score: 46.29 E-value: 4.68e-06
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| REC_DivK-like | cd17548 | phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ... |
875-928 | 4.75e-06 | |||||||||
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus DivK is an essential response regulator that is involved in the complex phosphorelay pathways controlling both cell division and motility. It localizes cell cycle regulators to specific poles of the cell during division. DivK contains a stand-alone REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381100 [Multi-domain] Cd Length: 115 Bit Score: 46.38 E-value: 4.75e-06
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| REC_2_GGDEF | cd17544 | second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ... |
875-928 | 4.88e-06 | |||||||||
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins, described in this model, contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381098 [Multi-domain] Cd Length: 122 Bit Score: 46.74 E-value: 4.88e-06
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| YesM | COG2972 | Sensor histidine kinase YesM [Signal transduction mechanisms]; |
661-845 | 6.23e-06 | |||||||||
Sensor histidine kinase YesM [Signal transduction mechanisms]; Pssm-ID: 442211 [Multi-domain] Cd Length: 445 Bit Score: 50.02 E-value: 6.23e-06
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| FixJ | COG4566 | DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ... |
876-990 | 6.46e-06 | |||||||||
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription]; Pssm-ID: 443623 [Multi-domain] Cd Length: 196 Bit Score: 47.79 E-value: 6.46e-06
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| dpiB | PRK15053 | sensor histidine kinase DpiB; Provisional |
725-845 | 8.01e-06 | |||||||||
sensor histidine kinase DpiB; Provisional Pssm-ID: 185013 [Multi-domain] Cd Length: 545 Bit Score: 49.83 E-value: 8.01e-06
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| AmiR | COG3707 | Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ... |
875-979 | 1.23e-05 | |||||||||
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription]; Pssm-ID: 442921 [Multi-domain] Cd Length: 194 Bit Score: 47.26 E-value: 1.23e-05
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| GAF | COG2203 | GAF domain [Signal transduction mechanisms]; |
153-764 | 1.24e-05 | |||||||||
GAF domain [Signal transduction mechanisms]; Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 49.42 E-value: 1.24e-05
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| REC_OmpR_ArcA_TorR-like | cd17619 | phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ... |
875-981 | 1.47e-05 | |||||||||
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; This subfamily includes Escherichia coli TorR and ArcA, both OmpR family response regulators that mediate adaptation to changes in various respiratory growth conditions. The TorS-TorR two-component system (TCS) is responsible for the tight regulation of the torCAD operon, which encodes the trimethylamine N-oxide (TMAO) reductase respiratory system in response to anaerobic conditions and the presence of TMAO. The ArcA-ArcB TCS is involved in cell growth during anaerobiosis. ArcA is a global regulator that controls more than 30 operons involved in redox regulation (the Arc modulon). OmpR family DNA-binding response regulators are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381134 [Multi-domain] Cd Length: 113 Bit Score: 45.07 E-value: 1.47e-05
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| REC_RssB-like | cd17555 | phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ... |
875-949 | 1.48e-05 | |||||||||
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; Pseudomonas aeruginosa RssB is an orphan atypical response regulator containing a REC domain and a PP2C-type protein phosphatase output domain. Its function is still unknown. Escherichia RssB, which is not included in this subfamily, is a ClpX adaptor protein which alters ClpX specificity by mediating a specific interaction between ClpX and the substrates such as RpoS, an RNA polymerase sigma factor. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381107 [Multi-domain] Cd Length: 116 Bit Score: 45.27 E-value: 1.48e-05
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| PRK11086 | PRK11086 | sensory histidine kinase DcuS; Provisional |
735-844 | 1.60e-05 | |||||||||
sensory histidine kinase DcuS; Provisional Pssm-ID: 236839 [Multi-domain] Cd Length: 542 Bit Score: 48.76 E-value: 1.60e-05
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| PRK09835 | PRK09835 | Cu(+)/Ag(+) sensor histidine kinase; |
707-846 | 1.61e-05 | |||||||||
Cu(+)/Ag(+) sensor histidine kinase; Pssm-ID: 182101 [Multi-domain] Cd Length: 482 Bit Score: 48.61 E-value: 1.61e-05
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| glnL | PRK11073 | nitrogen regulation protein NR(II); |
601-815 | 1.62e-05 | |||||||||
nitrogen regulation protein NR(II); Pssm-ID: 182947 [Multi-domain] Cd Length: 348 Bit Score: 48.15 E-value: 1.62e-05
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| PRK11173 | PRK11173 | two-component response regulator; Provisional |
876-985 | 1.71e-05 | |||||||||
two-component response regulator; Provisional Pssm-ID: 183013 [Multi-domain] Cd Length: 237 Bit Score: 47.32 E-value: 1.71e-05
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| ompR | PRK09468 | osmolarity response regulator; Provisional |
875-981 | 1.82e-05 | |||||||||
osmolarity response regulator; Provisional Pssm-ID: 181883 [Multi-domain] Cd Length: 239 Bit Score: 47.28 E-value: 1.82e-05
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| glnG | PRK10923 | nitrogen regulation protein NR(I); Provisional |
875-990 | 2.11e-05 | |||||||||
nitrogen regulation protein NR(I); Provisional Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 48.33 E-value: 2.11e-05
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| HATPase_FilI-like | cd16921 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
734-844 | 2.41e-05 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Methanosaeta harundinacea FilI and some hybrid sensor histidine kinases; This family includes FilI, the histidine kinase (HK) component of FilI-FilRs, a two-component signal transduction system (TCS) of the methanogenic archaeon, Methanosaeta harundinacea, which is involved in regulating methanogenesis. The cytoplasmic HK core consists of a C-terminal HK-like ATPase domain (represented here) and a histidine kinase dimerization and phosphoacceptor domain (HisKA) domain, which, in FilI, are coupled to CHASE, HAMP, PAS, and GAF sensor domains. FilI-FilRs catalyzes the phosphotransfer between FilI (HK) and FilRs (FilR1 and FilR2, response regulators) of the TCS. TCSs are predicted to be of bacterial origin, and acquired by archaea by horizontal gene transfer. This model also includes related HATPase domains such as that of Synechocystis sp. PCC6803 phytochrome-like protein Cph1. Proteins having this HATPase domain and HisKA domain also have accessory sensor domains such as CHASE, GAF, HAMP and PAS; some are hybrid sensor histidine kinases as they also contain a REC signal receiver domain. Pssm-ID: 340398 [Multi-domain] Cd Length: 105 Bit Score: 44.24 E-value: 2.41e-05
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| REC_NtrC | cd19919 | phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ... |
875-952 | 3.67e-05 | |||||||||
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381146 [Multi-domain] Cd Length: 116 Bit Score: 43.80 E-value: 3.67e-05
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| PAS_4 | pfam08448 | PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ... |
489-595 | 3.86e-05 | |||||||||
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain is associated to signalling systems and works as a signal sensor domain. It recognizes differently substituted aromatic hydrocarbons, oxygen, different dodecanoic acids, autoinducers, 3,5-dimethyl-pyrazin-2-ol and N-alanyl-aminoacetone (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Pssm-ID: 312075 [Multi-domain] Cd Length: 110 Bit Score: 43.94 E-value: 3.86e-05
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| envZ | PRK09467 | osmolarity sensor protein; Provisional |
686-844 | 6.40e-05 | |||||||||
osmolarity sensor protein; Provisional Pssm-ID: 236531 [Multi-domain] Cd Length: 435 Bit Score: 46.44 E-value: 6.40e-05
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| PRK09303 | PRK09303 | histidine kinase; |
599-814 | 7.51e-05 | |||||||||
histidine kinase; Pssm-ID: 236462 [Multi-domain] Cd Length: 380 Bit Score: 46.10 E-value: 7.51e-05
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| REC_OmpR_PrrA-like | cd17627 | phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ... |
875-985 | 7.67e-05 | |||||||||
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381142 [Multi-domain] Cd Length: 116 Bit Score: 43.14 E-value: 7.67e-05
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| HATPase_RstB-like | cd16939 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
730-845 | 8.14e-05 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Salmonella typhimurium RstB; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Salmonella typhimurium RstB HK of the RstA-RstB two-component regulatory system (TCS), which regulates expression of the constituents participating in pyrimidine metabolism and iron acquisition, and may be required for regulation of Salmonella motility and invasion. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), and a HAMP sensor domain. Pssm-ID: 340416 [Multi-domain] Cd Length: 104 Bit Score: 42.80 E-value: 8.14e-05
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| REC_hyHK_CKI1_RcsC-like | cd17546 | phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ... |
875-977 | 8.75e-05 | |||||||||
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381099 [Multi-domain] Cd Length: 113 Bit Score: 42.84 E-value: 8.75e-05
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| HATPase_SpaK_NisK-like | cd16975 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
725-841 | 9.87e-05 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis SpaK and Lactococcus lactis NisK; This family includes histidine kinase-like ATPase (HATPase) domain of two-component sensor histidine kinases similar to Bacillus subtilis SpaK and Lactococcus lactis NisK. SpaK is the histidine kinase (HK) of the SpaK-SpaR two-component regulatory system (TCS), which is involved in the regulation of the biosynthesis of lantibiotic subtilin. NisK is the HK of the NisK-NisR TCS, which is involved in the regulation of the biosynthesis of lantibiotic nisin. SpaK and NisK may function as membrane-associated protein kinases that phosphorylate SpaR and NisR, respectively, in response to environmental signals. Pssm-ID: 340434 [Multi-domain] Cd Length: 107 Bit Score: 42.45 E-value: 9.87e-05
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| REC_CheV-like | cd19924 | phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ... |
875-929 | 1.27e-04 | |||||||||
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This subfamily includes the REC domains of Bacillus subtilis chemotaxis protein CheV, Myxococcus xanthus gliding motility regulatory protein FrzE, and similar proteins. CheV is a hybrid protein with an N-terminal CheW-like domain and a C-terminal CheY-like REC domain. The CheV pathway is one of three systems employed by B. subtilis for sensory adaptation that contribute to chemotaxis. It is involved in the transmission of sensory signals from chemoreceptors to flagellar motors. Together with CheW, it is involved in the coupling of methyl-accepting chemoreceptors to the central two-component histidine kinase CheA. FrzE is a hybrid sensor histidine kinase/response regulator that is part of the Frz pathway that controls cell reversal frequency to support directional motility during swarming and fruiting body formation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381151 [Multi-domain] Cd Length: 111 Bit Score: 42.37 E-value: 1.27e-04
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| PRK09959 | PRK09959 | acid-sensing system histidine kinase EvgS; |
472-957 | 1.67e-04 | |||||||||
acid-sensing system histidine kinase EvgS; Pssm-ID: 182169 [Multi-domain] Cd Length: 1197 Bit Score: 45.88 E-value: 1.67e-04
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| REC_OmpR_KdpE-like | cd17620 | phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ... |
875-929 | 1.67e-04 | |||||||||
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a component of the KdpD/KdpE two-component system (TCS) and is activated when histidine kinase KdpD senses a drop in external K+ concentration or upshift in ionic osmolarity, resulting in the expression of a heterooligomeric transporter KdpFABC. In addition, the KdpD/KdpE TCS is also an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. KdpE is a member of the OmpR family of DNA-binding response regulators that contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381135 [Multi-domain] Cd Length: 99 Bit Score: 41.77 E-value: 1.67e-04
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| PRK09776 | PRK09776 | putative diguanylate cyclase; Provisional |
471-602 | 1.74e-04 | |||||||||
putative diguanylate cyclase; Provisional Pssm-ID: 182070 [Multi-domain] Cd Length: 1092 Bit Score: 45.82 E-value: 1.74e-04
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| REC_RegA-like | cd17563 | phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ... |
875-951 | 1.81e-04 | |||||||||
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381111 [Multi-domain] Cd Length: 112 Bit Score: 42.04 E-value: 1.81e-04
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| REC_Ycf29 | cd19927 | phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ... |
875-928 | 2.01e-04 | |||||||||
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a probable response regulator of a two-component system (TCS), typically consisting a sensor and a response regulator, that functions in adaptation to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Ycf29 contains an N-terminal REC domain and a LuxR-type helix-turn-helix DNA-binding output domain. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381154 [Multi-domain] Cd Length: 102 Bit Score: 41.59 E-value: 2.01e-04
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| REC_NtrX-like | cd17550 | phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ... |
876-951 | 3.22e-04 | |||||||||
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381102 [Multi-domain] Cd Length: 115 Bit Score: 41.33 E-value: 3.22e-04
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| REC_HupR | cd17596 | phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ... |
876-952 | 3.97e-04 | |||||||||
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of this subfamily are response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It belongs to the nitrogen regulatory protein C (NtrC) family of response regulators, which activate transcription by RNA polymerase (RNAP) in response to a change in the environment. HupR is an unusual member of this family as it activates transcription when unphosphorylated, and transcription is inhibited by phosphorylation. Proteins in this subfamily contain an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381127 [Multi-domain] Cd Length: 133 Bit Score: 41.58 E-value: 3.97e-04
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| PAS | COG2202 | PAS domain [Signal transduction mechanisms]; |
178-313 | 3.98e-04 | |||||||||
PAS domain [Signal transduction mechanisms]; Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 43.47 E-value: 3.98e-04
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| PRK11359 | PRK11359 | cyclic-di-GMP phosphodiesterase; Provisional |
106-184 | 4.53e-04 | |||||||||
cyclic-di-GMP phosphodiesterase; Provisional Pssm-ID: 183097 [Multi-domain] Cd Length: 799 Bit Score: 44.38 E-value: 4.53e-04
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| REC_OmpR_BfmR-like | cd19939 | phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ... |
875-985 | 5.61e-04 | |||||||||
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; Acinetobacter baumannii BfmR is part of the BfmR/S two-component system that functions as the master regulator of biofilm initiation. BfmR confers resistance to complement-mediated bactericidal activity, independent of capsular polysaccharide, and also increases resistance to the clinically important antimicrobials meropenem and colistin, making it a potential antimicrobial target. Its inhibition would have the dual benefit of significantly decreasing in vivo survival and increasing sensitivity to selected antimicrobials. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381166 [Multi-domain] Cd Length: 116 Bit Score: 40.43 E-value: 5.61e-04
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| REC_OmpR_BaeR-like | cd19938 | phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ... |
875-985 | 5.86e-04 | |||||||||
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is part of the BaeSR two-component system that is involved in regulating genes that confer multidrug and metal resistance. In Salmonella, BaeSR induces AcrD and MdtABC drug efflux systems, increasing multidrug and metal resistance. In Escherichia coli, BaeR stimulates multidrug resistance via mdtABC (multidrug transporter ABC, formerly known as yegMNO) genes, which encode a resistance-nodulation-cell division (RND) drug efflux system. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381165 [Multi-domain] Cd Length: 114 Bit Score: 40.44 E-value: 5.86e-04
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| REC_OmpR_PmrA-like | cd17624 | phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ... |
875-981 | 6.27e-04 | |||||||||
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This subfamily contains various OmpR family response regulators including PmrA, BasR, QseB, tctD, and RssB, which are components of two-component regulatory systems (TCSs). The PmrA/PmrB TCS controls transcription of genes that are involved in lipopolysaccharide modification in the outer membrane of bacteria, increasing bacterial resistance to host-derived antimicrobial peptides. The BasS/BasR TCS functions as an iron- and zinc-sensing transcription regulator. The QseB/QseC TCS activates the flagella regulon by activating transcription of FlhDC. The RssA/RssB TCS regulates swarming behavior in Serratia marcescens. OmpR family DNA-binding response regulators contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381139 [Multi-domain] Cd Length: 115 Bit Score: 40.55 E-value: 6.27e-04
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| PAS_9 | pfam13426 | PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ... |
503-572 | 6.53e-04 | |||||||||
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). Pssm-ID: 463873 [Multi-domain] Cd Length: 93 Bit Score: 39.75 E-value: 6.53e-04
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| REC_D1_PleD-like | cd17538 | first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ... |
876-929 | 7.17e-04 | |||||||||
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381093 [Multi-domain] Cd Length: 104 Bit Score: 39.79 E-value: 7.17e-04
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| HATPase_CpxA-like | cd16949 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
773-844 | 7.73e-04 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli CpxA; This family includes the histidine kinase-like ATPase (HATPase) domains of two-component sensor histidine kinase (HKs) similar to Escherichia coli CpxA, HK of the CpxA-CpxR two-component regulatory system (TCS) which may function in acid stress and in cell wall stability. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and a HAMP sensor domain; some also contain a CpxA family periplasmic domain. Pssm-ID: 340425 [Multi-domain] Cd Length: 104 Bit Score: 40.00 E-value: 7.73e-04
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| HATPase_BaeS-like | cd16946 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
725-844 | 8.47e-04 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli BasS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) similar to Escherichia coli BaeS HK of the BaeS/BaeR two-component regulatory system (TCS), which responds to envelope stress. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), and a HAMP sensory domain. Pssm-ID: 340422 [Multi-domain] Cd Length: 109 Bit Score: 39.75 E-value: 8.47e-04
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| LytT | COG3279 | DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ... |
875-986 | 9.46e-04 | |||||||||
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction mechanisms]; Pssm-ID: 442510 [Multi-domain] Cd Length: 235 Bit Score: 42.11 E-value: 9.46e-04
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| REC_OmpR_CpxR | cd17623 | phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ... |
875-981 | 9.53e-04 | |||||||||
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is part of the CpxA/CpxR two-component regulatory system that mediates envelope stress responses that is key for virulence and antibiotic resistance in several Gram negative pathogens. CpxR is a transcription factor/response regulator that controls the expression of numerous genes, including those of the classical porins OmpF and OmpC. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381138 [Multi-domain] Cd Length: 115 Bit Score: 39.98 E-value: 9.53e-04
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| CitB | COG2197 | DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ... |
875-928 | 9.62e-04 | |||||||||
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription]; Pssm-ID: 441799 [Multi-domain] Cd Length: 131 Bit Score: 40.26 E-value: 9.62e-04
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| GAF | smart00065 | Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
52-187 | 9.64e-04 | |||||||||
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa. Pssm-ID: 214500 [Multi-domain] Cd Length: 149 Bit Score: 40.83 E-value: 9.64e-04
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| REC_OmpR_VirG | cd17594 | phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ... |
875-981 | 1.09e-03 | |||||||||
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is part of the VirA/VirG two-component system that regulates the expression of virulence (vir) genes. The histidine kinase VirA senses a phenolic wound response signal, undergoes autophosphorylation, and phosphorelays to the VirG response regulator, which induces transcription of the vir regulon. VirG belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381125 [Multi-domain] Cd Length: 113 Bit Score: 39.74 E-value: 1.09e-03
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| REC_OmpR_EcPhoP-like | cd19934 | phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ... |
875-985 | 2.06e-03 | |||||||||
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; Escherichia coli PhoP (EcPhoP) is part of the PhoQ/PhoP two-component system (TCS) that regulates virulence genes and plays an essential role in the response of the bacteria to the environment of their mammalian hosts, sensing several stimuli such as extracellular magnesium limitation, low pH, the presence of cationic antimicrobial peptides, and osmotic upshift. This subfamily also includes Brucella suis FeuP, part of the FeuPQ TCS that is involved in the regulation of iron uptake, and Microchaete diplosiphon RcaC, which is required for chromatic adaptation. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381161 [Multi-domain] Cd Length: 117 Bit Score: 38.80 E-value: 2.06e-03
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| HATPase_BvrS-ChvG-like | cd16953 | Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
770-828 | 2.13e-03 | |||||||||
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Brucella abortus BvrS and Sinorhizobium meliloti ChvG; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Brucella abortus BvrS of the BvrR-BvrS two-component regulatory system (TCS), which controls cell invasion and intracellular survival, as well as Sinorhizobium meliloti and Agrobacterium tumefaciens ChvG of the ChvI-ChvG TCS necessary for endosymbiosis and pathogenicity in plants. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), an accessory HAMP sensor domain, a periplasmic stimulus-sensing domain, and some also have a sensor N-terminal transmembrane domain. Pssm-ID: 340429 [Multi-domain] Cd Length: 110 Bit Score: 38.71 E-value: 2.13e-03
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| REC_OmpR_CusR-like | cd19935 | phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ... |
875-928 | 2.35e-03 | |||||||||
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381162 [Multi-domain] Cd Length: 100 Bit Score: 38.19 E-value: 2.35e-03
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| PRK11091 | PRK11091 | aerobic respiration control sensor protein ArcB; Provisional |
770-928 | 2.43e-03 | |||||||||
aerobic respiration control sensor protein ArcB; Provisional Pssm-ID: 236842 [Multi-domain] Cd Length: 779 Bit Score: 41.85 E-value: 2.43e-03
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| PRK11083 | PRK11083 | DNA-binding response regulator CreB; Provisional |
908-981 | 4.11e-03 | |||||||||
DNA-binding response regulator CreB; Provisional Pssm-ID: 236838 [Multi-domain] Cd Length: 228 Bit Score: 39.95 E-value: 4.11e-03
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| REC_CheY | cd17542 | phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ... |
875-985 | 4.27e-03 | |||||||||
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381097 [Multi-domain] Cd Length: 117 Bit Score: 38.03 E-value: 4.27e-03
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| orf27 | CHL00148 | Ycf27; Reviewed |
876-985 | 4.83e-03 | |||||||||
Ycf27; Reviewed Pssm-ID: 214376 [Multi-domain] Cd Length: 240 Bit Score: 39.70 E-value: 4.83e-03
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| HATPase_PDK-like | cd16929 | Histidine kinase-like ATPase domain of pyruvate dehydrogenase kinase, branched-chain ... |
774-844 | 4.98e-03 | |||||||||
Histidine kinase-like ATPase domain of pyruvate dehydrogenase kinase, branched-chain alpha-ketoacid dehydrogenase kinase and related domains; This family includes the histidine kinase-like ATPase (HATPase) domains of all four PDK isoforms (pyruvate dehydrogenase kinases 1-4) that have been described in mammals, and other PDKs including Saccharomyces Pkp1p and Pkp2p. PDKs and phosphatases tightly regulate the mitochondrial pyruvate dehydrogenase complex (PDC) by reversible phosphorylation. PDC catalyzes the oxidative decarboxylation of pyruvate to acetyl-CoA, connecting glycolysis and the TCA acid cycle. Also included in this family is mammalian branched-chain alpha-ketoacid dehydrogenase kinase (BDK), a mitochondrial protein kinase that phosphorylates a subunit of the branched-chain a-ketoacid dehydrogenase (BCKD) complex, which catalyzes the oxidative decarboxylation of branched-chain alpha-ketoacids derived from leucine, isoleucine, and valine, a rate-limiting step in the oxidative degradation of these branched-chain amino acids. Pssm-ID: 340406 [Multi-domain] Cd Length: 169 Bit Score: 38.86 E-value: 4.98e-03
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| ComP | COG4585 | Signal transduction histidine kinase ComP [Signal transduction mechanisms]; |
625-846 | 5.05e-03 | |||||||||
Signal transduction histidine kinase ComP [Signal transduction mechanisms]; Pssm-ID: 443642 [Multi-domain] Cd Length: 252 Bit Score: 39.99 E-value: 5.05e-03
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| PRK10161 | PRK10161 | phosphate response regulator transcription factor PhoB; |
875-981 | 5.65e-03 | |||||||||
phosphate response regulator transcription factor PhoB; Pssm-ID: 182277 [Multi-domain] Cd Length: 229 Bit Score: 39.70 E-value: 5.65e-03
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| REC_PA4781-like | cd19920 | phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ... |
888-928 | 5.79e-03 | |||||||||
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar domains; Pseudomonas aeruginosa cyclic di-GMP phosphodiesterase PA4781 contains an N-terminal REC domain and a C-terminal catalytic HD-GYP domain, characteristics of RpfG family response regulators. PA4781 is involved in cyclic di-3',5'-GMP (c-di-GMP) hydrolysis/degradation in a two-step reaction via the linear intermediate pGpG to produce GMP. Its unphosphorylated REC domain prevents accessibility of c-di-GMP to the active site. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381147 [Multi-domain] Cd Length: 103 Bit Score: 37.49 E-value: 5.79e-03
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| REC_OmpR_MtrA-like | cd17626 | phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ... |
875-981 | 5.94e-03 | |||||||||
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is part of MtrA/MtrB (or MtrAB), a highly conserved two-component system (TCS) implicated in the regulation of cell division in the actinobacteria. In unicellular Mycobacterium tuberculosis, MtrAB coordinates DNA replication with cell division and regulates the transcription of resuscitation-promoting factor B. In filamentous Streptomyces venezuelae, it links antibiotic production to sporulation. MtrA belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381141 [Multi-domain] Cd Length: 115 Bit Score: 37.83 E-value: 5.94e-03
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| REC_typeB_ARR-like | cd17584 | phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ... |
876-979 | 6.01e-03 | |||||||||
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and similar domains; Type-B ARRs (Arabidopsis response regulators) are a class of MYB-type transcription factors that act as major players in the transcriptional activation of cytokinin-responsive genes. They directly regulate the expression of type-A ARR genes and other downstream target genes. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Cytokinin signaling involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-B ARRs contain a receiver (REC) domain and a large C-terminal extension that has characteristics of an effector or output domain, with a Myb-like DNA binding domain referred to as the GARP domain. The GARP domain is a motif specific to plant transcription factors. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381121 [Multi-domain] Cd Length: 115 Bit Score: 37.61 E-value: 6.01e-03
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| PRK10955 | PRK10955 | envelope stress response regulator transcription factor CpxR; |
875-988 | 6.85e-03 | |||||||||
envelope stress response regulator transcription factor CpxR; Pssm-ID: 182864 [Multi-domain] Cd Length: 232 Bit Score: 39.40 E-value: 6.85e-03
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| PRK11517 | PRK11517 | DNA-binding response regulator HprR; |
875-981 | 7.99e-03 | |||||||||
DNA-binding response regulator HprR; Pssm-ID: 183172 [Multi-domain] Cd Length: 223 Bit Score: 39.11 E-value: 7.99e-03
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| PRK15369 | PRK15369 | two component system response regulator; |
915-954 | 8.75e-03 | |||||||||
two component system response regulator; Pssm-ID: 185267 [Multi-domain] Cd Length: 211 Bit Score: 38.91 E-value: 8.75e-03
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