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Conserved domains on  [gi|498343406|ref|WP_010657562|]
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MULTISPECIES: cyclic nucleotide-binding domain-containing protein [Brucella/Ochrobactrum group]

Protein Classification

cyclic nucleotide-binding domain-containing protein( domain architecture ID 10034975)

cyclic nucleotide-binding domain-containing protein binds cyclic nucleotides (cAMP or cGMP) where binding of the effector leads to conformational changes; may be involved in regulating transcription, be present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK), or be part of vertebrate cyclic nucleotide-gated ion-channels.

CATH:  2.60.120.10
Gene Ontology:  GO:0030552|GO:0030551
PubMed:  6280140|12087135|17601606|11734894
SCOP:  4000272

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 15-128 1.54e-25

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: 93.54  E-value: 1.54e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  15 LFESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSR 93
Cdd:cd00038    1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGReQIVGFLGPGDLFGELALLGNGPR 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 498343406  94 LTGAVAEAETEVIRISRAIFRRILEEYPEVAAALH 128
Cdd:cd00038   81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
 
Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 15-128 1.54e-25

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: 93.54  E-value: 1.54e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  15 LFESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSR 93
Cdd:cd00038    1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGReQIVGFLGPGDLFGELALLGNGPR 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 498343406  94 LTGAVAEAETEVIRISRAIFRRILEEYPEVAAALH 128
Cdd:cd00038   81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 16-143 4.17e-24

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: 92.74  E-value: 4.17e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  16 FESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSRL 94
Cdd:COG0664    1 FAGLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGReQILGFLGPGDFFGELSLLGGEPSP 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 498343406  95 TGAVAEAETEVIRISRAIFRRILEEYPEVAAALHAHVSRNLLELIGEIE 143
Cdd:COG0664   81 ATAEALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLV 129
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 33-120 2.48e-19

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: 76.88  E-value: 2.48e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406   33 RLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSRLTGAVAEAETEVIRISRA 111
Cdd:pfam00027   1 LRSYKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGReQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPRE 80


                  ....*....
gi 498343406  112 IFRRILEEY 120
Cdd:pfam00027  81 DFLELLERD 89
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 15-122 5.31e-14

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: 64.34  E-value: 5.31e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406    15 LFESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSR 93
Cdd:smart00100   1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEeQIVGTLGPGDFFGELALLTNSRR 80

                           90       100
                   ....*....|....*....|....*....
gi 498343406    94 LTGAVAEAETEViRISRAIFRRILEEYPE 122
Cdd:smart00100  81 AASAAAVALELA-TLLRIDFRDFLQLLPE 108
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
42-137 6.65e-11

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 57.68  E-value: 6.65e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  42 LFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSRLTGAV-AEAETEVIRISRAIFRRILEE 119
Cdd:PRK11753  31 LIHAGEKAETLYYIVKGSVAVLIKDEEGKeMILSYLNQGDFIGELGLFEEGQERSAWVrAKTACEVAEISYKKFRQLIQV 110

                         90
                 ....*....|....*...
gi 498343406 120 YPEVAAALHAHVSRNLLE 137
Cdd:PRK11753 111 NPDILMALSAQMARRLQN 128
 
Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 15-128 1.54e-25

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: 93.54  E-value: 1.54e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  15 LFESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSR 93
Cdd:cd00038    1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGReQIVGFLGPGDLFGELALLGNGPR 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 498343406  94 LTGAVAEAETEVIRISRAIFRRILEEYPEVAAALH 128
Cdd:cd00038   81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 16-143 4.17e-24

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: 92.74  E-value: 4.17e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  16 FESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSRL 94
Cdd:COG0664    1 FAGLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGReQILGFLGPGDFFGELSLLGGEPSP 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 498343406  95 TGAVAEAETEVIRISRAIFRRILEEYPEVAAALHAHVSRNLLELIGEIE 143
Cdd:COG0664   81 ATAEALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLV 129
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 33-120 2.48e-19

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: 76.88  E-value: 2.48e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406   33 RLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSRLTGAVAEAETEVIRISRA 111
Cdd:pfam00027   1 LRSYKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGReQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPRE 80


                  ....*....
gi 498343406  112 IFRRILEEY 120
Cdd:pfam00027  81 DFLELLERD 89
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 15-122 5.31e-14

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: 64.34  E-value: 5.31e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406    15 LFESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSR 93
Cdd:smart00100   1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEeQIVGTLGPGDFFGELALLTNSRR 80

                           90       100
                   ....*....|....*....|....*....
gi 498343406    94 LTGAVAEAETEViRISRAIFRRILEEYPE 122
Cdd:smart00100  81 AASAAAVALELA-TLLRIDFRDFLQLLPE 108
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
42-137 6.65e-11

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 57.68  E-value: 6.65e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406  42 LFREGQSADCAYIVVSGNITLFHEQDEGR-IAIRPVGPGAMIGEMALIAQTSRLTGAV-AEAETEVIRISRAIFRRILEE 119
Cdd:PRK11753  31 LIHAGEKAETLYYIVKGSVAVLIKDEEGKeMILSYLNQGDFIGELGLFEEGQERSAWVrAKTACEVAEISYKKFRQLIQV 110

                         90
                 ....*....|....*...
gi 498343406 120 YPEVAAALHAHVSRNLLE 137
Cdd:PRK11753 111 NPDILMALSAQMARRLQN 128
ftrB PRK09392
transcriptional activator FtrB; Provisional
 4-126 2.57e-05

transcriptional activator FtrB; Provisional


Pssm-ID: 181817 [Multi-domain]  Cd Length: 236  Bit Score: 42.32  E-value: 2.57e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498343406   4 DDDIRILGTVGLFESFTPEQLRLLAFGAERLVLRAGRELFREGQSADCAYIVVSGNITLFHEQDEGRIAIRPVGPGAMIG 83
Cdd:PRK09392   3 REDLIRLRNLPLFADMADATFERLMRGAFLQRFPPGTMLITEGEPADFLFVVLDGLVELSASSQDRETTLAILRPVSTFI 82

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 498343406  84 EMALIAQTSRLTGAVAEAETEVIRISRAIFRRILEEYPEVAAA 126
Cdd:PRK09392  83 LAAVVLDAPYLMSARTLTRSRVLMIPAELVREAMSEDPGFMRA 125
 
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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