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Conserved domains on  [gi|119497877|ref|XP_001265696|]
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GAF domain nucleotide-binding protein [Aspergillus fischeri NRRL 181]

Protein Classification

GAF domain-containing protein( domain architecture ID 10005003)

GAF (cyclic GMP, adenylyl cyclase, FhlA) domain-containing protein similar to Saccharomyces cerevisiae free methionine-R-sulfoxide reductase (fRMsr), which catalyzes the reversible oxidation-reduction of the R-enantiomer of free methionine sulfoxide to methionine, protecting the cell from oxidative stress

CATH:  3.30.450.40
Gene Ontology:  GO:0005515
PubMed:  9433123|12518043
SCOP:  4001852

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MsrC COG1956
GAF domain-containing protein, putative methionine-R-sulfoxide reductase [Defense mechanisms, ...
 84-261 2.21e-66

GAF domain-containing protein, putative methionine-R-sulfoxide reductase [Defense mechanisms, Signal transduction mechanisms];


:

Pssm-ID: 441559 [Multi-domain]  Cd Length: 156  Bit Score: 203.14  E-value: 2.21e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877  84 TKAEVYAQVLEQAKGLVTGQRNWATqpsNFSNIASLLWHAYaalpppsSSVNWAGFYIRQDKfpalgsqntpsnstnNLL 163
Cdd:COG1956    4 SKEEDYDELLAQLSALLAGETDLIA---NLANISALLFEAL-------PDYNWVGFYLVDGG---------------GEL 58

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877 164 LLGPFQGRPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHIACDASSRSEIVVPILVGGETVAIIDVDCTEPAGFDDE 243
Cdd:COG1956   59 VLGPFQGPPACTRIPFGKGVCGTAAAEGETQLVPDVHAFPGHIACDSASRSEIVVPIFKDGEVIGVLDIDSPTPGRFDEE 138

                        170
                 ....*....|....*...
gi 119497877 244 DKKWLEELASLLSECCDW 261
Cdd:COG1956  139 DQAGLEALAALLAEALDA 156
 
Name Accession Description Interval E-value
MsrC COG1956
GAF domain-containing protein, putative methionine-R-sulfoxide reductase [Defense mechanisms, ...
 84-261 2.21e-66

GAF domain-containing protein, putative methionine-R-sulfoxide reductase [Defense mechanisms, Signal transduction mechanisms];


Pssm-ID: 441559 [Multi-domain]  Cd Length: 156  Bit Score: 203.14  E-value: 2.21e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877  84 TKAEVYAQVLEQAKGLVTGQRNWATqpsNFSNIASLLWHAYaalpppsSSVNWAGFYIRQDKfpalgsqntpsnstnNLL 163
Cdd:COG1956    4 SKEEDYDELLAQLSALLAGETDLIA---NLANISALLFEAL-------PDYNWVGFYLVDGG---------------GEL 58

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877 164 LLGPFQGRPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHIACDASSRSEIVVPILVGGETVAIIDVDCTEPAGFDDE 243
Cdd:COG1956   59 VLGPFQGPPACTRIPFGKGVCGTAAAEGETQLVPDVHAFPGHIACDSASRSEIVVPIFKDGEVIGVLDIDSPTPGRFDEE 138

                        170
                 ....*....|....*...
gi 119497877 244 DKKWLEELASLLSECCDW 261
Cdd:COG1956  139 DQAGLEALAALLAEALDA 156
GAF_2 pfam13185
GAF domain; The GAF domain is named after some of the proteins it is found in, including ...
 166-256 3.26e-15

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: 70.57  E-value: 3.26e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877  166 GPFQGRPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHI---ACDASSRSEIVVPILVGGETVAIIDVDCTEPAGFDD 242
Cdd:pfam13185  40 GAADELSAALDDPPGEGLVGEALRTGRPVIVNDLAADPAKKglpAGHAGLRSFLSVPLVSGGRVVGVLALGSNRPGAFDE 119

                          90
                  ....*....|....
gi 119497877  243 EDKKWLEELASLLS 256
Cdd:pfam13185 120 EDLELLELLAEQAA 133
GAF smart00065
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ...
 172-256 6.21e-10

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: 56.24  E-value: 6.21e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877   172 PACQEIRF--GRGVCGTAAEKRETVIVPDVL---SFPGHIACDASS-RSEIVVPILVGGETVAIIDVD-CTEPAGFDDED 244
Cdd:smart00065  45 LPTLGIRFplDEGLAGRVAETGRPLNIPDVEadpLFAEDLLGRYQGvRSFLAVPLVADGELVGVLALHnKKSPRPFTEED 124

                           90
                   ....*....|..
gi 119497877   245 KKWLEELASLLS 256
Cdd:smart00065 125 EELLQALANQLA 136
 
Name Accession Description Interval E-value
MsrC COG1956
GAF domain-containing protein, putative methionine-R-sulfoxide reductase [Defense mechanisms, ...
 84-261 2.21e-66

GAF domain-containing protein, putative methionine-R-sulfoxide reductase [Defense mechanisms, Signal transduction mechanisms];


Pssm-ID: 441559 [Multi-domain]  Cd Length: 156  Bit Score: 203.14  E-value: 2.21e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877  84 TKAEVYAQVLEQAKGLVTGQRNWATqpsNFSNIASLLWHAYaalpppsSSVNWAGFYIRQDKfpalgsqntpsnstnNLL 163
Cdd:COG1956    4 SKEEDYDELLAQLSALLAGETDLIA---NLANISALLFEAL-------PDYNWVGFYLVDGG---------------GEL 58

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877 164 LLGPFQGRPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHIACDASSRSEIVVPILVGGETVAIIDVDCTEPAGFDDE 243
Cdd:COG1956   59 VLGPFQGPPACTRIPFGKGVCGTAAAEGETQLVPDVHAFPGHIACDSASRSEIVVPIFKDGEVIGVLDIDSPTPGRFDEE 138

                        170
                 ....*....|....*...
gi 119497877 244 DKKWLEELASLLSECCDW 261
Cdd:COG1956  139 DQAGLEALAALLAEALDA 156
GAF_2 pfam13185
GAF domain; The GAF domain is named after some of the proteins it is found in, including ...
 166-256 3.26e-15

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: 70.57  E-value: 3.26e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877  166 GPFQGRPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHI---ACDASSRSEIVVPILVGGETVAIIDVDCTEPAGFDD 242
Cdd:pfam13185  40 GAADELSAALDDPPGEGLVGEALRTGRPVIVNDLAADPAKKglpAGHAGLRSFLSVPLVSGGRVVGVLALGSNRPGAFDE 119

                          90
                  ....*....|....
gi 119497877  243 EDKKWLEELASLLS 256
Cdd:pfam13185 120 EDLELLELLAEQAA 133
GAF COG2203
GAF domain [Signal transduction mechanisms];
171-256 1.68e-14

GAF domain [Signal transduction mechanisms];


Pssm-ID: 441805 [Multi-domain]  Cd Length: 712  Bit Score: 72.92  E-value: 1.68e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877 171 RPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHIACDASS------RSEIVVPILVGGETVAIIDVDCTEPAGFDDED 244
Cdd:COG2203  250 EEELGRLPLGEGLAGRALRTGEPVVVNDASTDPRFAPSLRELllalgiRSLLCVPLLVDGRLIGVLALYSKEPRAFTEED 329

                         90
                 ....*....|..
gi 119497877 245 KKWLEELASLLS 256
Cdd:COG2203  330 LELLEALADQAA 341
GAF smart00065
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ...
 172-256 6.21e-10

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: 56.24  E-value: 6.21e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877   172 PACQEIRF--GRGVCGTAAEKRETVIVPDVL---SFPGHIACDASS-RSEIVVPILVGGETVAIIDVD-CTEPAGFDDED 244
Cdd:smart00065  45 LPTLGIRFplDEGLAGRVAETGRPLNIPDVEadpLFAEDLLGRYQGvRSFLAVPLVADGELVGVLALHnKKSPRPFTEED 124

                           90
                   ....*....|..
gi 119497877   245 KKWLEELASLLS 256
Cdd:smart00065 125 EELLQALANQLA 136
PtsP COG3605
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms];
177-257 7.29e-09

Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms];


Pssm-ID: 442824 [Multi-domain]  Cd Length: 188  Bit Score: 54.13  E-value: 7.29e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877 177 IRFGRGVCGTAAEKRETVIVPDVLSFPGHIACDA----SSRSEIVVPILVGGETVAIIDVDCTEPAGFDDEDKKWLEELA 252
Cdd:COG3605   69 LPLGEGLVGLVAERGEPLNLADAASHPRFKYFPEtgeeGFRSFLGVPIIRRGRVLGVLVVQSREPREFTEEEVEFLVTLA 148


                 ....*
gi 119497877 253 SLLSE 257
Cdd:COG3605  149 AQLAE 153
GAF pfam01590
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ...
 173-256 1.74e-08

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: 51.71  E-value: 1.74e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877  173 ACQEIRFGRGVCGTAAEKRETVIVPDVL-----SFPGHIACDASSRSEIVVPILVGGETVAIIDVDCTEPAgFDDEDKKW 247
Cdd:pfam01590  43 KAAGLEIPPGTGVTVLRTGRPLVVPDAAgdprfLDPLLLLRNFGIRSLLAVPIIDDGELLGVLVLHHPRPP-FTEEELEL 121


                  ....*....
gi 119497877  248 LEELASLLS 256
Cdd:pfam01590 122 LEVLADQVA 130
FhlA COG3604
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ...
 155-256 1.25e-05

FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 442823 [Multi-domain]  Cd Length: 338  Bit Score: 45.61  E-value: 1.25e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119497877 155 PSNSTNNLLLLGPFQGRPACQEIRFGRGVCGTAAEKRETVIVPDVLSFPGHIACDASSRSEIVVPILVGGETVAIIDVDC 234
Cdd:COG3604   16 LALALLLLVLLLLALLLRGDLLASALVLEESLELLALALSEALLAAQARQAALAARERQLFLGVPLRVGGEVLGVLTLDS 95

                         90       100
                 ....*....|....*....|..
gi 119497877 235 TEPAGFDDEDKKWLEELASLLS 256
Cdd:COG3604   96 RRPGAFSEEDLRLLETLASLAA 117
 
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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