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Conserved domains on  [gi|1046878939|ref|XP_008760542|]
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cyclic nucleotide-binding domain-containing protein 2 isoform X3 [Rattus norvegicus]

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 ...
 123-222 8.16e-19

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: 82.37  E-value: 8.16e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 123 TEYLQLLLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRR 201
Cdd:cd00038     6 DDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYkLDEDGREQIVG----FLGPGDLFGELALLGNGPRS 81

                          90       100
                  ....*....|....*....|.
gi 1046878939 202 ATVVCMEETEFLVVDREDFLA 222
Cdd:cd00038    82 ATVRALTDSELLVLPRSDFRR 102
 
Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 123-222 8.16e-19

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: 82.37  E-value: 8.16e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 123 TEYLQLLLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRR 201
Cdd:cd00038     6 DDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYkLDEDGREQIVG----FLGPGDLFGELALLGNGPRS 81

                          90       100
                  ....*....|....*....|.
gi 1046878939 202 ATVVCMEETEFLVVDREDFLA 222
Cdd:cd00038    82 ATVRALTDSELLVLPRSDFRR 102
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 136-222 2.87e-16

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: 74.18  E-value: 2.87e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 136 FERFGRRRVIVKKGQRGNSFYFIYLGTVAV-TEDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRRATVVCMEETEFLV 214
Cdd:pfam00027   1 LRSYKAGEVIFREGDPADSLYIVLSGKVKVyRTLEDGREQILA----VLGPGDFFGELALLGGEPRSATVVALTDSELLV 76


                  ....*...
gi 1046878939 215 VDREDFLA 222
Cdd:pfam00027  77 IPREDFLE 84
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 129-266 6.40e-13

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: 68.09  E-value: 6.40e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 129 LLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAV-TEDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRRATVVCM 207
Cdd:COG0664    11 ALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLyRISEDGREQILG----FLGPGDFFGELSLLGGEPSPATAEAL 86

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1046878939 208 EETEFLVVDREDFLanklgDEVQKETQYRYDFFRKLDMFQSWSDEKLWQLV---ALGRIEKF 266
Cdd:COG0664    87 EDSELLRIPREDLE-----ELLERNPELARALLRLLARRLRQLQERLVSLAflsAEERLARF 143
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 120-221 1.20e-12

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: 64.73  E-value: 1.20e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939  120 RNYTEYLQLLLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLDphptLLHKGGFFGEMGLL--S 196
Cdd:smart00100   3 KNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYkVLEDGEEQIVG----TLGPGDFFGELALLtnS 78

                           90       100
                   ....*....|....*....|....*
gi 1046878939  197 TAVRRATVVCMEETEFLVVDREDFL 221
Cdd:smart00100  79 RRAASAAAVALELATLLRIDFRDFL 103
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
126-211 7.85e-06

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 47.28  E-value: 7.85e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 126 LQLLLAKVMRfERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLdphpTLLHKGGFFGEMGLL-STAVRRAT 203
Cdd:PRK11753   13 LEWFLSHCHI-HKYPAKSTLIHAGEKAETLYYIVKGSVAVLiKDEEGKEMIL----SYLNQGDFIGELGLFeEGQERSAW 87


                  ....*...
gi 1046878939 204 VVCMEETE 211
Cdd:PRK11753   88 VRAKTACE 95
 
Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 123-222 8.16e-19

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: 82.37  E-value: 8.16e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 123 TEYLQLLLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRR 201
Cdd:cd00038     6 DDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYkLDEDGREQIVG----FLGPGDLFGELALLGNGPRS 81

                          90       100
                  ....*....|....*....|.
gi 1046878939 202 ATVVCMEETEFLVVDREDFLA 222
Cdd:cd00038    82 ATVRALTDSELLVLPRSDFRR 102
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 136-222 2.87e-16

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: 74.18  E-value: 2.87e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 136 FERFGRRRVIVKKGQRGNSFYFIYLGTVAV-TEDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRRATVVCMEETEFLV 214
Cdd:pfam00027   1 LRSYKAGEVIFREGDPADSLYIVLSGKVKVyRTLEDGREQILA----VLGPGDFFGELALLGGEPRSATVVALTDSELLV 76


                  ....*...
gi 1046878939 215 VDREDFLA 222
Cdd:pfam00027  77 IPREDFLE 84
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 129-266 6.40e-13

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: 68.09  E-value: 6.40e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 129 LLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAV-TEDEDGSSAFLDphptLLHKGGFFGEMGLLSTAVRRATVVCM 207
Cdd:COG0664    11 ALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLyRISEDGREQILG----FLGPGDFFGELSLLGGEPSPATAEAL 86

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1046878939 208 EETEFLVVDREDFLanklgDEVQKETQYRYDFFRKLDMFQSWSDEKLWQLV---ALGRIEKF 266
Cdd:COG0664    87 EDSELLRIPREDLE-----ELLERNPELARALLRLLARRLRQLQERLVSLAflsAEERLARF 143
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 120-221 1.20e-12

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: 64.73  E-value: 1.20e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939  120 RNYTEYLQLLLAKVMRFERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLDphptLLHKGGFFGEMGLL--S 196
Cdd:smart00100   3 KNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYkVLEDGEEQIVG----TLGPGDFFGELALLtnS 78

                           90       100
                   ....*....|....*....|....*
gi 1046878939  197 TAVRRATVVCMEETEFLVVDREDFL 221
Cdd:smart00100  79 RRAASAAAVALELATLLRIDFRDFL 103
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
126-211 7.85e-06

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 47.28  E-value: 7.85e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 126 LQLLLAKVMRfERFGRRRVIVKKGQRGNSFYFIYLGTVAVT-EDEDGSSAFLdphpTLLHKGGFFGEMGLL-STAVRRAT 203
Cdd:PRK11753   13 LEWFLSHCHI-HKYPAKSTLIHAGEKAETLYYIVKGSVAVLiKDEEGKEMIL----SYLNQGDFIGELGLFeEGQERSAW 87


                  ....*...
gi 1046878939 204 VVCMEETE 211
Cdd:PRK11753   88 VRAKTACE 95
PLN02868 PLN02868
acyl-CoA thioesterase family protein
 130-218 1.38e-04

acyl-CoA thioesterase family protein


Pssm-ID: 178459 [Multi-domain]  Cd Length: 413  Bit Score: 44.71  E-value: 1.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046878939 130 LAKVMRFERFGRRRVIVKKGQRGNSFYFIYLG--TVAVTEDEDGSSAFldphptLLHKGGFFGEmGLLSTaVRRATVVCM 207
Cdd:PLN02868   27 IAEVVVPKRYGKGEYVVREGEPGDGLYFIWKGeaEVSGPAEEESRPEF------LLKRYDYFGY-GLSGS-VHSADVVAV 98

                          90
                  ....*....|.
gi 1046878939 208 EETEFLVVDRE 218
Cdd:PLN02868   99 SELTCLVLPHE 109
 
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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