NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|740854253|ref|WP_038639506|]
View 

MULTISPECIES: Crp/Fnr family transcriptional regulator [Citrobacter]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 23-221 2.99e-26

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: 100.83  E-value: 2.99e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253  23 EKIFLELLSETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQLDIVAE 102
Cdd:COG0664    8 ELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGD-FFGELSLLGGEPSPATAEAL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253 103 EPLTVAVCSCERLEEALNQHPRLAIFFASAMAVDYQDMLEIFLHRMLYPIVHNVAYDLYRQHQNKQPMDGFHKKYQE-AE 181
Cdd:COG0664   87 EDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRIDLPLTQEEiAS 166

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 740854253 182 RFGTTDRVYRRAVKALTDAGLVTRTKQGLEIKDLEGLRQF 221
Cdd:COG0664  167 YLGLTRETVSRILKKLEKEGLIELERGRITILDREALERL 206
 
Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 23-221 2.99e-26

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: 100.83  E-value: 2.99e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253  23 EKIFLELLSETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQLDIVAE 102
Cdd:COG0664    8 ELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGD-FFGELSLLGGEPSPATAEAL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253 103 EPLTVAVCSCERLEEALNQHPRLAIFFASAMAVDYQDMLEIFLHRMLYPIVHNVAYDLYRQHQNKQPMDGFHKKYQE-AE 181
Cdd:COG0664   87 EDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRIDLPLTQEEiAS 166

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 740854253 182 RFGTTDRVYRRAVKALTDAGLVTRTKQGLEIKDLEGLRQF 221
Cdd:COG0664  167 YLGLTRETVSRILKKLEKEGLIELERGRITILDREALERL 206
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 18-130 4.46e-12

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: 60.80  E-value: 4.46e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253  18 DDALIEKIFLELlsETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQL 97
Cdd:cd00038    6 DDEELEELADAL--EERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGD-LFGELALLGNGPRSA 82

                         90       100       110
                 ....*....|....*....|....*....|...
gi 740854253  98 DIVAEEPLTVAVCSCERLEEALNQHPRLAIFFA 130
Cdd:cd00038   83 TVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 36-122 1.70e-10

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: 55.69  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253   36 IQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQLDIVAEEPLTVAVCSCERL 115
Cdd:pfam00027   4 YKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGREQILAVLGPGD-FFGELALLGGEPRSATVVALTDSELLVIPREDF 82


                  ....*..
gi 740854253  116 EEALNQH 122
Cdd:pfam00027  83 LELLERD 89
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 18-130 1.10e-04

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: 40.46  E-value: 1.10e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253    18 DDALIEKIFLELlsETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTgYRCQL 97
Cdd:smart00100   6 DAEELRELADAL--EPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEEQIVGTLGPGD-FFGELALLT-NSRRA 81

                           90       100       110
                   ....*....|....*....|....*....|...
gi 740854253    98 DIVAEEPLTVAVCSCERLEEALNQHPRLAIFFA 130
Cdd:smart00100  82 ASAAAVALELATLLRIDFRDFLQLLPELPQLLL 114
 
Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 23-221 2.99e-26

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: 100.83  E-value: 2.99e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253  23 EKIFLELLSETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQLDIVAE 102
Cdd:COG0664    8 ELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGD-FFGELSLLGGEPSPATAEAL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253 103 EPLTVAVCSCERLEEALNQHPRLAIFFASAMAVDYQDMLEIFLHRMLYPIVHNVAYDLYRQHQNKQPMDGFHKKYQE-AE 181
Cdd:COG0664   87 EDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRIDLPLTQEEiAS 166

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 740854253 182 RFGTTDRVYRRAVKALTDAGLVTRTKQGLEIKDLEGLRQF 221
Cdd:COG0664  167 YLGLTRETVSRILKKLEKEGLIELERGRITILDREALERL 206
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 18-130 4.46e-12

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: 60.80  E-value: 4.46e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253  18 DDALIEKIFLELlsETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQL 97
Cdd:cd00038    6 DDEELEELADAL--EERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGD-LFGELALLGNGPRSA 82

                         90       100       110
                 ....*....|....*....|....*....|...
gi 740854253  98 DIVAEEPLTVAVCSCERLEEALNQHPRLAIFFA 130
Cdd:cd00038   83 TVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 36-122 1.70e-10

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: 55.69  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253   36 IQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTGYRCQLDIVAEEPLTVAVCSCERL 115
Cdd:pfam00027   4 YKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGREQILAVLGPGD-FFGELALLGGEPRSATVVALTDSELLVIPREDF 82


                  ....*..
gi 740854253  116 EEALNQH 122
Cdd:pfam00027  83 LELLERD 89
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 18-130 1.10e-04

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: 40.46  E-value: 1.10e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740854253    18 DDALIEKIFLELlsETQIIQEDEYLYRQGQIVDRLIMVQSGRISLRYSAENGRRFQLGAMECDEqLFGEMEFFTgYRCQL 97
Cdd:smart00100   6 DAEELRELADAL--EPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEEQIVGTLGPGD-FFGELALLT-NSRRA 81

                           90       100       110
                   ....*....|....*....|....*....|...
gi 740854253    98 DIVAEEPLTVAVCSCERLEEALNQHPRLAIFFA 130
Cdd:smart00100  82 ASAAAVALELATLLRIDFRDFLQLLPELPQLLL 114
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH