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Conserved domains on  [gi|1889692205|ref|WP_182734900|]
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Crp/Fnr family transcriptional regulator [Pseudoalteromonas sp. SG44-8]

Protein Classification

Crp/Fnr family transcriptional regulator( domain architecture ID 11429533)

Crp/Fnr family transcriptional regulator containing a DNA-binding Crp-like helix-turn-helix (HTH) domain, may bind cyclic nucleotides

CATH:  2.60.120.10|1.10.10.10
Gene Ontology:  GO:0003677|GO:0030552
PubMed:  11407111|14638413

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 13-214 2.08e-47

cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms];


:

Pssm-ID: 440428 [Multi-domain]  Cd Length: 207  Bit Score: 155.53  E-value: 2.08e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  13 FPLAAKNKVFSQLKLVMLPLGKVIYESGQNLTCVYFPIDCIVSLLYVTENGSSAEISVVGNEGLVGIAVFMGGESTPKRA 92
Cdd:COG0664     4 LSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGDFFGELSLLGGEPSPATA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  93 VVQSAGYAYCLPAAILRSEFNNDATIRMLLLRYTQTLIAQMAQTAVCNRHHSIDQQLCRWLLLSLDRLRTN-NLTMTQEL 171
Cdd:COG0664    84 EALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRiDLPLTQEE 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1889692205 172 IANMLGVRREGVTEAAGKLQKLGVITYKRGHITVTDRCKLETL 214
Cdd:COG0664   164 IASYLGLTRETVSRILKKLEKEGLIELERGRITILDREALERL 206
 
Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 13-214 2.08e-47

cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms];


Pssm-ID: 440428 [Multi-domain]  Cd Length: 207  Bit Score: 155.53  E-value: 2.08e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  13 FPLAAKNKVFSQLKLVMLPLGKVIYESGQNLTCVYFPIDCIVSLLYVTENGSSAEISVVGNEGLVGIAVFMGGESTPKRA 92
Cdd:COG0664     4 LSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGDFFGELSLLGGEPSPATA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  93 VVQSAGYAYCLPAAILRSEFNNDATIRMLLLRYTQTLIAQMAQTAVCNRHHSIDQQLCRWLLLSLDRLRTN-NLTMTQEL 171
Cdd:COG0664    84 EALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRiDLPLTQEE 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1889692205 172 IANMLGVRREGVTEAAGKLQKLGVITYKRGHITVTDRCKLETL 214
Cdd:COG0664   164 IASYLGLTRETVSRILKKLEKEGLIELERGRITILDREALERL 206
HTH_Crp_2 pfam13545
Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain ...
 147-214 6.70e-13

Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain that is likely to bind DNA.


Pssm-ID: 463917 [Multi-domain]  Cd Length: 68  Bit Score: 61.70  E-value: 6.70e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205 147 QQLCRWLLLSLDRLRTN--NLTMTQELIANMLGVRREGVTEAAGKLQKLGVITykRGHITVTDRCKLETL 214
Cdd:pfam13545   1 QRLARFLLELAARDGGGriDLPLTQEDLADLLGTTRETVSRVLSELRREGLIE--RGRITILDPEALEAL 68
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 151-207 1.25e-07

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 47.28  E-value: 1.25e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1889692205 151 RWLLLSLDRLRTNNLTMTQELIANMLGVRREGVTEAAGKLQKLGVITYK-RGHITVTD 207
Cdd:cd00092    10 LNLSLRYGAGDLVQLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRRgRGKYRVNP 67
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
164-206 2.45e-07

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 46.28  E-value: 2.45e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1889692205  164 NLTMTQELIANMLGVRREGVTEAAGKLQKLGVITYKRGHITVT 206
Cdd:smart00419   6 RLPLTRQEIAELLGLTRETVSRTLKRLEKEGLISREGGRIVIL 48
PRK11161 PRK11161
fumarate/nitrate reduction transcriptional regulator Fnr;
165-214 2.99e-04

fumarate/nitrate reduction transcriptional regulator Fnr;


Pssm-ID: 183004 [Multi-domain]  Cd Length: 235  Bit Score: 40.85  E-value: 2.99e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1889692205 165 LTMTQELIANMLGVRREGVTEAAGKLQKLGVITYKRGHITVTDRCKLETL 214
Cdd:PRK11161  183 LTMTRGDIGNYLGLTVETISRLLGRFQKSGMLAVKGKYITIENNDALAQL 232
 
Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 13-214 2.08e-47

cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms];


Pssm-ID: 440428 [Multi-domain]  Cd Length: 207  Bit Score: 155.53  E-value: 2.08e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  13 FPLAAKNKVFSQLKLVMLPLGKVIYESGQNLTCVYFPIDCIVSLLYVTENGSSAEISVVGNEGLVGIAVFMGGESTPKRA 92
Cdd:COG0664     4 LSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGDFFGELSLLGGEPSPATA 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  93 VVQSAGYAYCLPAAILRSEFNNDATIRMLLLRYTQTLIAQMAQTAVCNRHHSIDQQLCRWLLLSLDRLRTN-NLTMTQEL 171
Cdd:COG0664    84 EALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRiDLPLTQEE 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1889692205 172 IANMLGVRREGVTEAAGKLQKLGVITYKRGHITVTDRCKLETL 214
Cdd:COG0664   164 IASYLGLTRETVSRILKKLEKEGLIELERGRITILDREALERL 206
HTH_Crp_2 pfam13545
Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain ...
 147-214 6.70e-13

Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain that is likely to bind DNA.


Pssm-ID: 463917 [Multi-domain]  Cd Length: 68  Bit Score: 61.70  E-value: 6.70e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205 147 QQLCRWLLLSLDRLRTN--NLTMTQELIANMLGVRREGVTEAAGKLQKLGVITykRGHITVTDRCKLETL 214
Cdd:pfam13545   1 QRLARFLLELAARDGGGriDLPLTQEDLADLLGTTRETVSRVLSELRREGLIE--RGRITILDPEALEAL 68
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 151-207 1.25e-07

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 47.28  E-value: 1.25e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1889692205 151 RWLLLSLDRLRTNNLTMTQELIANMLGVRREGVTEAAGKLQKLGVITYK-RGHITVTD 207
Cdd:cd00092    10 LNLSLRYGAGDLVQLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRRgRGKYRVNP 67
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
164-206 2.45e-07

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 46.28  E-value: 2.45e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 1889692205  164 NLTMTQELIANMLGVRREGVTEAAGKLQKLGVITYKRGHITVT 206
Cdd:smart00419   6 RLPLTRQEIAELLGLTRETVSRTLKRLEKEGLISREGGRIVIL 48
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 30-115 6.65e-07

Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, oxygen and 2-oxoglutarate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 459637 [Multi-domain]  Cd Length: 89  Bit Score: 46.06  E-value: 6.65e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205  30 LPLGKVIYESGQNLTCVYFPIDCIVSLLYVTENGSSAEISVVGNEGLVGIAVFMGGESTPKRAVVQSAGYAYCLPAAILR 109
Cdd:pfam00027   4 YKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPREDFL 83


                  ....*.
gi 1889692205 110 SEFNND 115
Cdd:pfam00027  84 ELLERD 89
PRK11161 PRK11161
fumarate/nitrate reduction transcriptional regulator Fnr;
165-214 2.99e-04

fumarate/nitrate reduction transcriptional regulator Fnr;


Pssm-ID: 183004 [Multi-domain]  Cd Length: 235  Bit Score: 40.85  E-value: 2.99e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1889692205 165 LTMTQELIANMLGVRREGVTEAAGKLQKLGVITYKRGHITVTDRCKLETL 214
Cdd:PRK11161  183 LTMTRGDIGNYLGLTVETISRLLGRFQKSGMLAVKGKYITIENNDALAQL 232
MntR COG1321
Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];
154-208 6.16e-04

Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];


Pssm-ID: 440932 [Multi-domain]  Cd Length: 135  Bit Score: 38.65  E-value: 6.16e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1889692205 154 LLSLDRLRTNNLTMTQELIANMLGVRREGVTEAAGKLQKLGVITY-KRGHITVTDR 208
Cdd:COG1321    12 LKAIYELSEEGGPVRTSDIAERLGVSPPSVTEMLKKLEEKGLVEYePYGGITLTEE 67
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 20-136 1.39e-03

Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a prokaryotic homologue of eukaryotic cNMP-binding domains, present in ion channels, and cNMP-dependent kinases.


Pssm-ID: 197516 [Multi-domain]  Cd Length: 120  Bit Score: 37.38  E-value: 1.39e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205   20 KVFSQLKLVMLPLGKVIYESGQNLTCVYFPIDCIVSLLYVTENGSSAEISVVGNEGLVGIAVFMGGESTPKRAVVQSagy 99
Cdd:smart00100  12 ELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEEQIVGTLGPGDFFGELALLTNSRRAASAAAVA--- 88

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1889692205  100 ayCLPAAILRSEFNNdatIRMLLLRYTQTLIAQMAQT 136
Cdd:smart00100  89 --LELATLLRIDFRD---FLQLLPELPQLLLELLLEL 120
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 9-123 2.61e-03

effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of the structural integrity of the beta-barrel; CooA is a homodimeric transcription factor that belongs to CAP family; cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain; cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain; cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section; also found in vertebrate cyclic nucleotide-gated ion-channels


Pssm-ID: 237999 [Multi-domain]  Cd Length: 115  Bit Score: 36.53  E-value: 2.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889692205   9 LLNFFPLAAKNKVFSQLKLVMLPLGKVIYESGQNLTCVYFPIDCIVSLLYVTENGSSAEISVVGNEGLVGIAVFMGGEST 88
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGELALLGNGPR 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1889692205  89 PKRAVVQSAGYAYCLPAAILRSEFNNDATIRMLLL 123
Cdd:cd00038    81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
 
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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