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Conserved domains on  [gi|489246095|ref|WP_003154263|]
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MULTISPECIES: GTP-sensing pleiotropic transcriptional regulator CodY [Bacillus]

Protein Classification

GTP-sensing pleiotropic transcriptional regulator CodY( domain architecture ID 11480156)

GTP-sensing pleiotropic transcriptional regulator CodY is a DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase and sporulation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK04158 PRK04158
GTP-sensing pleiotropic transcriptional regulator CodY;
1-254 1.14e-170

GTP-sensing pleiotropic transcriptional regulator CodY;


:

Pssm-ID: 235230 [Multi-domain]  Cd Length: 256  Bit Score: 470.81  E-value: 1.14e-170
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   1 MALLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLF 80
Cdd:PRK04158   2 MSLLEKTRKINRLLQKSAGEPVDFNEMAEVLSDVIDCNVYIVSRKGKILGYSMKEKIENDRVEQMLEERQFPEEYNEKLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  81 NVPETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAE 160
Cdd:PRK04158  82 NVYETEANLDVESELTVFPVENKCLFPDKLTTIVPIIGGGERLGTLILARFDKEFTDDDLILAEYAATVVGMEILREKAE 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095 161 EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT 240
Cdd:PRK04158 162 EIEEEARKKAVVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT 241

                        250
                 ....*....|....
gi 489246095 241 YIKVLNNKFLIELE 254
Cdd:PRK04158 242 YIKVLNDKLLDELK 255
 
Name Accession Description Interval E-value
PRK04158 PRK04158
GTP-sensing pleiotropic transcriptional regulator CodY;
1-254 1.14e-170

GTP-sensing pleiotropic transcriptional regulator CodY;


Pssm-ID: 235230 [Multi-domain]  Cd Length: 256  Bit Score: 470.81  E-value: 1.14e-170
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   1 MALLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLF 80
Cdd:PRK04158   2 MSLLEKTRKINRLLQKSAGEPVDFNEMAEVLSDVIDCNVYIVSRKGKILGYSMKEKIENDRVEQMLEERQFPEEYNEKLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  81 NVPETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAE 160
Cdd:PRK04158  82 NVYETEANLDVESELTVFPVENKCLFPDKLTTIVPIIGGGERLGTLILARFDKEFTDDDLILAEYAATVVGMEILREKAE 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095 161 EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT 240
Cdd:PRK04158 162 EIEEEARKKAVVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT 241

                        250
                 ....*....|....
gi 489246095 241 YIKVLNNKFLIELE 254
Cdd:PRK04158 242 YIKVLNDKLLDELK 255
CodY COG4465
GTP-sensing pleiotropic transcriptional regulator CodY [Transcription];
1-257 3.36e-169

GTP-sensing pleiotropic transcriptional regulator CodY [Transcription];


Pssm-ID: 443562  Cd Length: 259  Bit Score: 467.33  E-value: 3.36e-169
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   1 MALLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMK-KMLEDRQFPEEYTRNL 79
Cdd:COG4465    2 MSLLEKTRKINKLLQKSAGEPVDFKEMAEVLSEVLDANVYIVSRKGKILGYALLEEFECDRMEdEMLEEKRFPEEYNEKL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  80 FNVPETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKA 159
Cdd:COG4465   82 LKINETKANIPIDSDLCVFPVEERCLFPNKLTTIVPIYGGGERLGTLILARFDEEFTDEDLILAEYGATVVGMEILREKA 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095 160 EEIEEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKG 239
Cdd:COG4465  162 EEIEEEARKKAVVQMAIGTLSYSELEAVEHIFEELDGKEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKG 241

                        250
                 ....*....|....*...
gi 489246095 240 TYIKVLNNKFLIELENLK 257
Cdd:COG4465  242 TYIKVLNDKLLEELKKLK 259
codY_Gpos TIGR02787
GTP-sensing transcriptional pleiotropic repressor CodY; This model represents the full length ...
 3-253 1.36e-147

GTP-sensing transcriptional pleiotropic repressor CodY; This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam. [Regulatory functions, DNA interactions]


Pssm-ID: 131834  Cd Length: 251  Bit Score: 412.59  E-value: 1.36e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095    3 LLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLFNV 82
Cdd:TIGR02787   1 LLEKTRRINSILQKSAQTELPFNEMAEVLADVIDCNAYVISRKGRLLGYSLTYKTNNDRVEQFFQDRKFPEEYNSALMMI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   83 PETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAEEI 162
Cdd:TIGR02787  81 YDTEANIPVDSELTVFPEESRDLFPKGLTTIVPIYGGGERLGTLILARSDKEFNDDDLVLAEYAATVVGMELLRAQAEEI 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  163 EEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYI 242
Cdd:TIGR02787 161 EEEARKKAAVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYI 240

                         250
                  ....*....|.
gi 489246095  243 KVLNNKFLIEL 253
Cdd:TIGR02787 241 KVLNDKLIEEL 251
CodY pfam06018
CodY GAF-like domain; This domain is a GAF-like domain found at the N-terminus of several ...
 3-178 9.02e-99

CodY GAF-like domain; This domain is a GAF-like domain found at the N-terminus of several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. This domain is involved in GTP binding and also branched chain amino acids (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk.


Pssm-ID: 399189  Cd Length: 177  Bit Score: 286.08  E-value: 9.02e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095    3 LLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLFNV 82
Cdd:pfam06018   2 LLEKTRKINSILQKSLGKPVPFNEMAETLADVIECNVYIVSRKGKLLGYSLTYKTENDRVKQFFEDRKFPEEYTSSLLNV 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   83 PETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAEEI 162
Cdd:pfam06018  82 YETSANLPIDSELTVFPVENKELFPNGLTTIVPIYGGGERLGTLILARVDKEFTDDDLILAEYAATVVGMEILREKAEEI 161

                         170
                  ....*....|....*.
gi 489246095  163 EEEARSKAVVQMAISS 178
Cdd:pfam06018 162 EEEARKKAVVQMAINT 177
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 203-257 2.23e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 36.12  E-value: 2.23e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489246095 203 ASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNNKFLIELENLK 257
Cdd:cd00090   23 VSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTDAERLLALLESLL 77
 
Name Accession Description Interval E-value
PRK04158 PRK04158
GTP-sensing pleiotropic transcriptional regulator CodY;
1-254 1.14e-170

GTP-sensing pleiotropic transcriptional regulator CodY;


Pssm-ID: 235230 [Multi-domain]  Cd Length: 256  Bit Score: 470.81  E-value: 1.14e-170
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   1 MALLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLF 80
Cdd:PRK04158   2 MSLLEKTRKINRLLQKSAGEPVDFNEMAEVLSDVIDCNVYIVSRKGKILGYSMKEKIENDRVEQMLEERQFPEEYNEKLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  81 NVPETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAE 160
Cdd:PRK04158  82 NVYETEANLDVESELTVFPVENKCLFPDKLTTIVPIIGGGERLGTLILARFDKEFTDDDLILAEYAATVVGMEILREKAE 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095 161 EIEEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT 240
Cdd:PRK04158 162 EIEEEARKKAVVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGT 241

                        250
                 ....*....|....
gi 489246095 241 YIKVLNNKFLIELE 254
Cdd:PRK04158 242 YIKVLNDKLLDELK 255
CodY COG4465
GTP-sensing pleiotropic transcriptional regulator CodY [Transcription];
1-257 3.36e-169

GTP-sensing pleiotropic transcriptional regulator CodY [Transcription];


Pssm-ID: 443562  Cd Length: 259  Bit Score: 467.33  E-value: 3.36e-169
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   1 MALLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMK-KMLEDRQFPEEYTRNL 79
Cdd:COG4465    2 MSLLEKTRKINKLLQKSAGEPVDFKEMAEVLSEVLDANVYIVSRKGKILGYALLEEFECDRMEdEMLEEKRFPEEYNEKL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  80 FNVPETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKA 159
Cdd:COG4465   82 LKINETKANIPIDSDLCVFPVEERCLFPNKLTTIVPIYGGGERLGTLILARFDEEFTDEDLILAEYGATVVGMEILREKA 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095 160 EEIEEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKG 239
Cdd:COG4465  162 EEIEEEARKKAVVQMAIGTLSYSELEAVEHIFEELDGKEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKG 241

                        250
                 ....*....|....*...
gi 489246095 240 TYIKVLNNKFLIELENLK 257
Cdd:COG4465  242 TYIKVLNDKLLEELKKLK 259
codY_Gpos TIGR02787
GTP-sensing transcriptional pleiotropic repressor CodY; This model represents the full length ...
 3-253 1.36e-147

GTP-sensing transcriptional pleiotropic repressor CodY; This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam. [Regulatory functions, DNA interactions]


Pssm-ID: 131834  Cd Length: 251  Bit Score: 412.59  E-value: 1.36e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095    3 LLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLFNV 82
Cdd:TIGR02787   1 LLEKTRRINSILQKSAQTELPFNEMAEVLADVIDCNAYVISRKGRLLGYSLTYKTNNDRVEQFFQDRKFPEEYNSALMMI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   83 PETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAEEI 162
Cdd:TIGR02787  81 YDTEANIPVDSELTVFPEESRDLFPKGLTTIVPIYGGGERLGTLILARSDKEFNDDDLVLAEYAATVVGMELLRAQAEEI 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  163 EEEARSKAVVQMAISSLSYSELEAIEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYI 242
Cdd:TIGR02787 161 EEEARKKAAVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYI 240

                         250
                  ....*....|.
gi 489246095  243 KVLNNKFLIEL 253
Cdd:TIGR02787 241 KVLNDKLIEEL 251
CodY pfam06018
CodY GAF-like domain; This domain is a GAF-like domain found at the N-terminus of several ...
 3-178 9.02e-99

CodY GAF-like domain; This domain is a GAF-like domain found at the N-terminus of several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. This domain is involved in GTP binding and also branched chain amino acids (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk.


Pssm-ID: 399189  Cd Length: 177  Bit Score: 286.08  E-value: 9.02e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095    3 LLQKTRIINSMLQAAAGKPVNFKEMAETLRDVIDSNIFVVSRRGKLLGYSINQQIENDRMKKMLEDRQFPEEYTRNLFNV 82
Cdd:pfam06018   2 LLEKTRKINSILQKSLGKPVPFNEMAETLADVIECNVYIVSRKGKLLGYSLTYKTENDRVKQFFEDRKFPEEYTSSLLNV 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095   83 PETSSNLDINSEYTAFPVENRDLFQAGLTTIVPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEILREKAEEI 162
Cdd:pfam06018  82 YETSANLPIDSELTVFPVENKELFPNGLTTIVPIYGGGERLGTLILARVDKEFTDDDLILAEYAATVVGMEILREKAEEI 161

                         170
                  ....*....|....*.
gi 489246095  163 EEEARSKAVVQMAISS 178
Cdd:pfam06018 162 EEEARKKAVVQMAINT 177
HTH_CodY pfam08222
CodY helix-turn-helix domain; This family consists of the C-terminal helix-turn-helix domain ...
 198-257 5.55e-24

CodY helix-turn-helix domain; This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk.


Pssm-ID: 429871 [Multi-domain]  Cd Length: 61  Bit Score: 91.28  E-value: 5.55e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489246095  198 EGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNNKFLIELENLK 257
Cdd:pfam08222   2 EGRLTASSIADEIGITRSVIVNALRKLESAGIIESRSLGMKGTYLKVINEGFFDELEEYK 61
HTH_20 pfam12840
Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in ...
 184-233 6.55e-04

Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in transcriptional regulatory proteins.


Pssm-ID: 432824 [Multi-domain]  Cd Length: 61  Bit Score: 37.13  E-value: 6.55e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 489246095  184 LEAIEH-----IFEELDGNEGLLvASKIADRVGITRSVIVNALRKLESAGVIESR 233
Cdd:pfam12840   4 AEALADptrlrILRALVGDEPLT-ASELARRLDISRNTLSYHLRKLEEAGLVEVV 57
HTH_27 pfam13463
Winged helix DNA-binding domain;
179-232 1.59e-03

Winged helix DNA-binding domain;


Pssm-ID: 433228 [Multi-domain]  Cd Length: 68  Bit Score: 36.11  E-value: 1.59e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 489246095  179 LSYSELEAIEHIFEELDGNEgllvASKIADRVGITRSVIVNALRKLESAGVIES 232
Cdd:pfam13463   1 LTRLEALILHNIGHRGDPKT----LADICFRLNVEDSHVSYSLKKLTEAGLVER 50
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 188-233 1.97e-03

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 35.49  E-value: 1.97e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 489246095  188 EHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGV-IESR 233
Cdd:pfam08279   1 LQILQLLLEARGPISGQELAEKLGVSRRTIRRDIKILEELGVpIEAE 47
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 203-257 2.23e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 36.12  E-value: 2.23e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489246095 203 ASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNNKFLIELENLK 257
Cdd:cd00090   23 VSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTDAERLLALLESLL 77
GAF pfam01590
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ...
 114-154 8.39e-03

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: 35.53  E-value: 8.39e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 489246095  114 VPIIGGGERLGTLILSRLQDQFEDDDLILAEYGATVVGMEI 154
Cdd:pfam01590  93 VPIIDDGELLGVLVLHHPRPPFTEEELELLEVLADQVAIAL 133
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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