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Conserved domains on  [gi|1069353956|ref|XP_018116896|]
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cAMP-dependent protein kinase type II-alpha regulatory subunit [Xenopus laevis]

Protein Classification

cyclic nucleotide-binding domain-containing protein( domain architecture ID 10186680)

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.

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 ...
 263-383 1.40e-29

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: 110.88  E-value: 1.40e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 263 ILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELAL 342
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLD------EDGREQIVGFLGPGDLFGELAL 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1069353956 343 VTNKPRAASAYAVGDVKCLVIDVQAFERLLGPCMDIMKRNI 383
Cdd:cd00038    75 LGNGPRSATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 141-254 1.06e-26

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: 103.17  E-value: 1.06e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 141 IFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQ-RDGQSRCVGKYDEHGSFGELALMYNTPR 219
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLdEDGREQIVGFLGPGDLFGELALLGNGPR 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1069353956 220 AATIVATTEGALWGLDRVTFRRIILKNNAKKRKTY 254
Cdd:cd00038    81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
DD_RIIalpha_PKA cd12103
dimerization/docking (D/D) domain of the Type II alpha Regulatory subunit of cAMP-dependent ...
 3-43 1.18e-21

dimerization/docking (D/D) domain of the Type II alpha Regulatory subunit of cAMP-dependent protein kinase; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. RII subunits contain a phosphorylation site in their inhibitory site and are both substrates and inhibitors. RIIalpha plays a role in the association and dissociation of PKA with the centrosome during interphase and mitosis, respectively. It is also involved in endosome-to-Golgi and Golgi-to-ER transport. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence, and two c-AMP binding domains. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. PKA is present ubiquitously in cells and interacts with many different downstream targets. It plays a role in the regulation of diverse processes such as growth, development, memory, metabolism, gene expression, immunity, and lipolysis.


:

Pssm-ID: 438524  Cd Length: 41  Bit Score: 86.81  E-value: 1.18e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1069353956   3 IEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:cd12103     1 IQIPPGLTELLQGYTVEVLRQQPPDLVEFAVEYFTRLREAR 41
 
Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 263-383 1.40e-29

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: 110.88  E-value: 1.40e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 263 ILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELAL 342
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLD------EDGREQIVGFLGPGDLFGELAL 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1069353956 343 VTNKPRAASAYAVGDVKCLVIDVQAFERLLGPCMDIMKRNI 383
Cdd:cd00038    75 LGNGPRSATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 141-254 1.06e-26

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: 103.17  E-value: 1.06e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 141 IFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQ-RDGQSRCVGKYDEHGSFGELALMYNTPR 219
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLdEDGREQIVGFLGPGDLFGELALLGNGPR 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1069353956 220 AATIVATTEGALWGLDRVTFRRIILKNNAKKRKTY 254
Cdd:cd00038    81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 263-383 1.52e-23

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: 94.78  E-value: 1.52e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956  263 ILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMmksktkTGQESNQEVEIARCKSGQYFGELAL 342
Cdd:smart00100   1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVY------KVLEDGEEQIVGTLGPGDFFGELAL 74

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|...
gi 1069353956  343 VTNKPRAASAYAV--GDVKCLVIDVQAFERLLGPCMDIMKRNI 383
Cdd:smart00100  75 LTNSRRAASAAAValELATLLRIDFRDFLQLLPELPQLLLELL 117
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 141-259 2.06e-23

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: 94.39  E-value: 2.06e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956  141 IFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQ-RDGQSRCVGKYDEHGSFGELALMYNTPR 219
Cdd:smart00100   1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVlEDGEEQIVGTLGPGDFFGELALLTNSRR 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|
gi 1069353956  220 AATIVATTEGaLWGLDRVTFRRIILKNNAKKRKTYEIFIE 259
Cdd:smart00100  81 AASAAAVALE-LATLLRIDFRDFLQLLPELPQLLLELLLE 119
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 282-372 5.55e-22

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: 89.21  E-value: 5.55e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 282 KVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELALVTNKPRAASAYAVGDVKCL 361
Cdd:pfam00027   2 RSYKAGEVIFREGDPADSLYIVLSGKVKVYRTL------EDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELL 75

                          90
                  ....*....|.
gi 1069353956 362 VIDVQAFERLL 372
Cdd:pfam00027  76 VIPREDFLELL 86
DD_RIIalpha_PKA cd12103
dimerization/docking (D/D) domain of the Type II alpha Regulatory subunit of cAMP-dependent ...
 3-43 1.18e-21

dimerization/docking (D/D) domain of the Type II alpha Regulatory subunit of cAMP-dependent protein kinase; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. RII subunits contain a phosphorylation site in their inhibitory site and are both substrates and inhibitors. RIIalpha plays a role in the association and dissociation of PKA with the centrosome during interphase and mitosis, respectively. It is also involved in endosome-to-Golgi and Golgi-to-ER transport. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence, and two c-AMP binding domains. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. PKA is present ubiquitously in cells and interacts with many different downstream targets. It plays a role in the regulation of diverse processes such as growth, development, memory, metabolism, gene expression, immunity, and lipolysis.


Pssm-ID: 438524  Cd Length: 41  Bit Score: 86.81  E-value: 1.18e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1069353956   3 IEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:cd12103     1 IQIPPGLTELLQGYTVEVLRQQPPDLVEFAVEYFTRLREAR 41
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 264-401 9.86e-19

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: 83.88  E-value: 9.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 264 LKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELALV 343
Cdd:COG0664     1 FAGLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRIS------EDGREQILGFLGPGDFFGELSLL 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1069353956 344 TNKPRAASAYAVGDVKCLVIDVQAFERLLG-------PCMDIMKRNITHYEEQLVALFGSSMDLR 401
Cdd:COG0664    75 GGEPSPATAEALEDSELLRIPREDLEELLErnpelarALLRLLARRLRQLQERLVSLAFLSAEER 139
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 159-246 3.45e-15

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: 70.33  E-value: 3.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 159 ERRVEPQEHVIDQGDDGDNFYVIDRGQYDIF-VQRDGQSRCVGKYDEHGSFGELALMYNTPRAATIVATTEGALWGLDRV 237
Cdd:pfam00027   1 LRSYKAGEVIFREGDPADSLYIVLSGKVKVYrTLEDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPRE 80


                  ....*....
gi 1069353956 238 TFRRIILKN 246
Cdd:pfam00027  81 DFLELLERD 89
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 142-246 1.68e-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: 68.86  E-value: 1.68e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 142 FKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIF-VQRDGQSRCVGKYDEHGSFGELALMYNTPRA 220
Cdd:COG0664     1 FAGLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYrISEDGREQILGFLGPGDFFGELSLLGGEPSP 80

                          90       100
                  ....*....|....*....|....*.
gi 1069353956 221 ATIVATTEGALWGLDRVTFRRIILKN 246
Cdd:COG0664    81 ATAEALEDSELLRIPREDLEELLERN 106
RIIa pfam02197
Regulatory subunit of type II PKA R-subunit;
7-43 1.54e-11

Regulatory subunit of type II PKA R-subunit;


Pssm-ID: 396669  Cd Length: 37  Bit Score: 58.48  E-value: 1.54e-11
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1069353956   7 PGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:pfam02197   1 HGLQALLEDLTVEVLRAQPSDPLQFAADYFEKLEEER 37
RIIa smart00394
RIIalpha, Regulatory subunit portion of type II PKA R-subunit; RIIalpha, Regulatory subunit ...
 7-43 2.27e-11

RIIalpha, Regulatory subunit portion of type II PKA R-subunit; RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).


Pssm-ID: 197697  Cd Length: 38  Bit Score: 58.11  E-value: 2.27e-11
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 1069353956    7 PGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:smart00394   1 HGLQALLEDLTVEVLRAQPSDLVQFAADYFEKLEEQR 37
PLN02868 PLN02868
acyl-CoA thioesterase family protein
 257-363 3.21e-06

acyl-CoA thioesterase family protein


Pssm-ID: 178459 [Multi-domain]  Cd Length: 413  Bit Score: 48.95  E-value: 3.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 257 FIESVPILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMmkskTKTGQESNQEVEIarcKSGQY 336
Cdd:PLN02868    9 FLGSVPLLQRLPSSSLKKIAEVVVPKRYGKGEYVVREGEPGDGLYFIWKGEAEVS----GPAEEESRPEFLL---KRYDY 81

                          90       100
                  ....*....|....*....|....*..
gi 1069353956 337 FGElALVTNKpRAASAYAVGDVKCLVI 363
Cdd:PLN02868   82 FGY-GLSGSV-HSADVVAVSELTCLVL 106
cyc_nuc_ocin TIGR03896
bacteriocin-type transport-associated protein; Members of this protein family are ...
 275-369 4.13e-05

bacteriocin-type transport-associated protein; Members of this protein family are uncharacterized and contain two copies of the cyclic nucleotide-binding domain pfam00027. Members are restricted to select cyanobacteria but are found regularly in association with a transport operon that, in turn, is associated with the production of putative bacteriocins. The models describing the transport operon are TIGR03794, TIGR03796, and TIGR03797.


Pssm-ID: 274839 [Multi-domain]  Cd Length: 317  Bit Score: 45.27  E-value: 4.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 275 IVDVIGAKVYKDGDRIIAQGDQADCFFIVESGevKIMMKSKTKTGQESNQEVEIARCKSGQYFGELALVTNKPRAASAYA 354
Cdd:TIGR03896   4 MVAIGHQREIAAGTTLIEEGKAADFLFILLDG--TFTVTTPQPEDNPLTRAFELARLSRGEIVGEMSLLETRPPVATIKA 81

                          90
                  ....*....|....*
gi 1069353956 355 VGDVKCLVIDVQAFE 369
Cdd:TIGR03896  82 VPKSRVMSIPVGELA 96
PLN03192 PLN03192
Voltage-dependent potassium channel; Provisional
 138-292 4.57e-03

Voltage-dependent potassium channel; Provisional


Pssm-ID: 215625 [Multi-domain]  Cd Length: 823  Bit Score: 39.47  E-value: 4.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 138 DILIFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQRDGQSRCVGKYDEHGSFGELALMYNT 217
Cdd:PLN03192  378 KVYLFKGVSREILLLLVTKMKAEYIPPREDVIMQNEAPDDVYIVVSGEVEIIDSEGEKERVVGTLGCGDIFGEVGALCCR 457

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 218 PRAATIVATTEGALWGLDRVTfrriiLKNNAKKRKTyeifiESVPILKSL-----ELSErMKIVDVIGAKVYKDGDRIIA 292
Cdd:PLN03192  458 PQSFTFRTKTLSQLLRLKTST-----LIEAMQTRQE-----DNVVILKNFlqhhkELHD-LNVGDLLGDNGGEHDDPNMA 526
 
Name Accession Description Interval E-value
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 263-383 1.40e-29

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: 110.88  E-value: 1.40e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 263 ILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELAL 342
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLD------EDGREQIVGFLGPGDLFGELAL 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1069353956 343 VTNKPRAASAYAVGDVKCLVIDVQAFERLLGPCMDIMKRNI 383
Cdd:cd00038    75 LGNGPRSATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 141-254 1.06e-26

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: 103.17  E-value: 1.06e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 141 IFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQ-RDGQSRCVGKYDEHGSFGELALMYNTPR 219
Cdd:cd00038     1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLdEDGREQIVGFLGPGDLFGELALLGNGPR 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1069353956 220 AATIVATTEGALWGLDRVTFRRIILKNNAKKRKTY 254
Cdd:cd00038    81 SATVRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 263-383 1.52e-23

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: 94.78  E-value: 1.52e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956  263 ILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMmksktkTGQESNQEVEIARCKSGQYFGELAL 342
Cdd:smart00100   1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVY------KVLEDGEEQIVGTLGPGDFFGELAL 74

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|...
gi 1069353956  343 VTNKPRAASAYAV--GDVKCLVIDVQAFERLLGPCMDIMKRNI 383
Cdd:smart00100  75 LTNSRRAASAAAValELATLLRIDFRDFLQLLPELPQLLLELL 117
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 141-259 2.06e-23

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: 94.39  E-value: 2.06e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956  141 IFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQ-RDGQSRCVGKYDEHGSFGELALMYNTPR 219
Cdd:smart00100   1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVlEDGEEQIVGTLGPGDFFGELALLTNSRR 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|
gi 1069353956  220 AATIVATTEGaLWGLDRVTFRRIILKNNAKKRKTYEIFIE 259
Cdd:smart00100  81 AASAAAVALE-LATLLRIDFRDFLQLLPELPQLLLELLLE 119
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 282-372 5.55e-22

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: 89.21  E-value: 5.55e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 282 KVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELALVTNKPRAASAYAVGDVKCL 361
Cdd:pfam00027   2 RSYKAGEVIFREGDPADSLYIVLSGKVKVYRTL------EDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELL 75

                          90
                  ....*....|.
gi 1069353956 362 VIDVQAFERLL 372
Cdd:pfam00027  76 VIPREDFLELL 86
DD_RIIalpha_PKA cd12103
dimerization/docking (D/D) domain of the Type II alpha Regulatory subunit of cAMP-dependent ...
 3-43 1.18e-21

dimerization/docking (D/D) domain of the Type II alpha Regulatory subunit of cAMP-dependent protein kinase; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. RII subunits contain a phosphorylation site in their inhibitory site and are both substrates and inhibitors. RIIalpha plays a role in the association and dissociation of PKA with the centrosome during interphase and mitosis, respectively. It is also involved in endosome-to-Golgi and Golgi-to-ER transport. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence, and two c-AMP binding domains. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. PKA is present ubiquitously in cells and interacts with many different downstream targets. It plays a role in the regulation of diverse processes such as growth, development, memory, metabolism, gene expression, immunity, and lipolysis.


Pssm-ID: 438524  Cd Length: 41  Bit Score: 86.81  E-value: 1.18e-21
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1069353956   3 IEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:cd12103     1 IQIPPGLTELLQGYTVEVLRQQPPDLVEFAVEYFTRLREAR 41
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 264-401 9.86e-19

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: 83.88  E-value: 9.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 264 LKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMMKSktktgqESNQEVEIARCKSGQYFGELALV 343
Cdd:COG0664     1 FAGLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRIS------EDGREQILGFLGPGDFFGELSLL 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1069353956 344 TNKPRAASAYAVGDVKCLVIDVQAFERLLG-------PCMDIMKRNITHYEEQLVALFGSSMDLR 401
Cdd:COG0664    75 GGEPSPATAEALEDSELLRIPREDLEELLErnpelarALLRLLARRLRQLQERLVSLAFLSAEER 139
DD_RIIbeta_PKA cd12104
dimerization/docking (D/D) domain of the Type II beta Regulatory subunit of cAMP-dependent ...
 3-43 3.58e-17

dimerization/docking (D/D) domain of the Type II beta Regulatory subunit of cAMP-dependent protein kinase; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. RII subunits contain a phosphorylation site in their inhibitory site and are both substrates and inhibitors. RIIbeta plays an important role in adipocytes and neuronal tissues. Mice deficient with RIIbeta have small fat cells, and are resistant to obesity, diet-induced diabetes, and alcohol-induced motor defects. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence, and two c-AMP binding domains. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. PKA is present ubiquitously in cells and interacts with many different downstream targets. It plays a role in the regulation of diverse processes such as growth, development, memory, metabolism, gene expression, immunity, and lipolysis.


Pssm-ID: 438525  Cd Length: 43  Bit Score: 74.55  E-value: 3.58e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1069353956   3 IEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:cd12104     1 IEIPEGLTELLQGFTVEVLRNQPGDLLEFALQYFTRLKQAQ 41
DD_RII_PKA cd12099
dimerization/docking (D/D) domain of the Type II Regulatory subunit of cAMP-dependent protein ...
 5-41 1.02e-16

dimerization/docking (D/D) domain of the Type II Regulatory subunit of cAMP-dependent protein kinase; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. RII subunits contain a phosphorylation site in their inhibitory site and are both substrates and inhibitors. RIIalpha plays a role in the association and dissociation of PKA with the centrosome during interphase and mitosis, respectively. RIIbeta plays an important role in adipocytes and neuronal tissues. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence, and two c-AMP binding domains. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. PKA is present ubiquitously in cells and interacts with many different downstream targets. It plays a role in the regulation of diverse processes such as growth, development, memory, metabolism, gene expression, immunity, and lipolysis.


Pssm-ID: 438520  Cd Length: 37  Bit Score: 73.28  E-value: 1.02e-16
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1069353956   5 IPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKE 41
Cdd:cd12099     1 VPPGLTELLQDFTVAVLREQPTDLVDFAAEYFTRLRE 37
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 159-246 3.45e-15

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: 70.33  E-value: 3.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 159 ERRVEPQEHVIDQGDDGDNFYVIDRGQYDIF-VQRDGQSRCVGKYDEHGSFGELALMYNTPRAATIVATTEGALWGLDRV 237
Cdd:pfam00027   1 LRSYKAGEVIFREGDPADSLYIVLSGKVKVYrTLEDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPRE 80


                  ....*....
gi 1069353956 238 TFRRIILKN 246
Cdd:pfam00027  81 DFLELLERD 89
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 142-246 1.68e-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: 68.86  E-value: 1.68e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 142 FKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIF-VQRDGQSRCVGKYDEHGSFGELALMYNTPRA 220
Cdd:COG0664     1 FAGLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYrISEDGREQILGFLGPGDFFGELSLLGGEPSP 80

                          90       100
                  ....*....|....*....|....*.
gi 1069353956 221 ATIVATTEGALWGLDRVTFRRIILKN 246
Cdd:COG0664    81 ATAEALEDSELLRIPREDLEELLERN 106
RIIa pfam02197
Regulatory subunit of type II PKA R-subunit;
7-43 1.54e-11

Regulatory subunit of type II PKA R-subunit;


Pssm-ID: 396669  Cd Length: 37  Bit Score: 58.48  E-value: 1.54e-11
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1069353956   7 PGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:pfam02197   1 HGLQALLEDLTVEVLRAQPSDPLQFAADYFEKLEEER 37
DD_RII_PKA-like cd12084
dimerization/docking (D/D) domain of the type II Regulatory subunit of cAMP-dependent protein ...
 5-39 2.21e-11

dimerization/docking (D/D) domain of the type II Regulatory subunit of cAMP-dependent protein kinase and similar domains; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence (IS), and two c-AMP binding domains. RI and RII subunits are distinguished by their IS; RII subunits contain a phosphorylation site and are both substrates and inhibitors while RI subunits are pseudo-substrates. RI subunits require ATP and Mg ions to form a stable holoenzyme while RII subunits do not. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. PKA is present ubiquitously in cells and interacts with many different downstream targets. It plays a role in the regulation of diverse processes such as growth, development, memory, metabolism, gene expression, immunity, and lipolysis.


Pssm-ID: 438517  Cd Length: 36  Bit Score: 58.20  E-value: 2.21e-11
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1069353956   5 IPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRL 39
Cdd:cd12084     1 VPEGLRELLEDFTREVLREQPEDVYEFAADYFEKL 35
RIIa smart00394
RIIalpha, Regulatory subunit portion of type II PKA R-subunit; RIIalpha, Regulatory subunit ...
 7-43 2.27e-11

RIIalpha, Regulatory subunit portion of type II PKA R-subunit; RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).


Pssm-ID: 197697  Cd Length: 38  Bit Score: 58.11  E-value: 2.27e-11
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 1069353956    7 PGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:smart00394   1 HGLQALLEDLTVEVLRAQPSDLVQFAADYFEKLEEQR 37
DD_CrRSP11-like cd22985
dimerization/docking (D/D) domain found in Chlamydomonas reinhardtii flagellar radial spoke ...
 3-43 1.68e-10

dimerization/docking (D/D) domain found in Chlamydomonas reinhardtii flagellar radial spoke protein 11 (RSP11) and similar proteins; Flagellar radial spokes contribute to the regulation of dynein arm activity and thus the pattern of flagellar bending. They consist of a thin stalk, which is attached to a subfiber of the outer doublet microtubule, and a bulbous head, which is attached to the stalk and appears to interact with the projections from the central pair of microtubules. RSP11 is a non-PKA (cAMP-dependent protein kinase) RIIa protein that contains a RII domain but lack any features required for cAMP signaling or phosphorylation. It is involved in the control of ciliary and flagellar beating. RSP11 contains an N-terminal domain which shows high sequence similarity to the dimerization/docking (D/D) domain of regulatory subunit of PKA. The D/D domain of RSP11 heterodimerizes with the D/D domain of RSP7 to form an X-type four-helix bundle within the radial spoke RS1 complex.


Pssm-ID: 438554  Cd Length: 49  Bit Score: 56.03  E-value: 1.68e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1069353956   3 IEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:cd22985     9 INIPPELPDILKNYTKEVIRAQPADLYEFSAEYFAKLAKER 49
DD_CrRSP7-like cd22984
dimerization/docking (D/D) domain found in Chlamydomonas reinhardtii flagellar radial spoke ...
 2-42 3.31e-09

dimerization/docking (D/D) domain found in Chlamydomonas reinhardtii flagellar radial spoke protein 7 (RSP7) and similar proteins; Flagellar radial spokes contribute to the regulation of dynein arm activity and thus the pattern of flagellar bending. They consist of a thin stalk, which is attached to a subfiber of the outer doublet microtubule, and a bulbous head, which is attached to the stalk and appears to interact with the projections from the central pair of microtubules. RSP7 is a cAMP-dependent protein kinase (PKA) RII-like protein. RSP7 contains an N-terminal domain which shows high sequence similarity to the dimerization/docking (D/D) domain of regulatory subunit of PKA. The D/D domain of RSP7 heterodimerizes with the D/D domain of RSP11 to form an X-type four-helix bundle within the radial spoke RS1 complex.


Pssm-ID: 438553  Cd Length: 47  Bit Score: 52.21  E-value: 3.31e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1069353956   2 SIEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEK 42
Cdd:cd22984     7 KYTIPEEFPAILKDFAREVLREQPKDIYEFGAQYFKRLAEA 47
DD_CABYR_SP17 cd12100
dimerization/docking (D/D) domain of the sperm fibrous sheath proteins, Calcium-Binding ...
 5-39 4.92e-08

dimerization/docking (D/D) domain of the sperm fibrous sheath proteins, Calcium-Binding tYrosine-phosphorylation Regulated protein and Sperm Protein 17; CABYR and SP17 are naturally located in the human sperm fibrous sheath (FS). CABYR was originally isolated from spermatoza and was thought to be testis-specific, but has recently been observed in lung and brain tumors. It is a polymorphic calcium binding protein that is phosphorylated during capacitation. SP17 plays an important role in the interaction of sperm with the zona pellucida during fertilization. It also promotes cell-cell adhesion. SP17 is found in various human tumors of unrelated histological origin including metastatic squamous cell carcinoma, multiple myeloma, ovarian cancer, and primary nervous system tumors, among others. Both CABYR and SP17 contain an N-terminal dimerization/docking (D/D) domain with similarity to the D/D domain of the R subunit of cAMP-dependent protein kinase (PKA). The D/D domain of the R subunit dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. The D/D domain of CABYR and SP17 have been shown to bind to AKAP3, a protein that is also associated to the FS of mammalian spermatozoa.


Pssm-ID: 438521  Cd Length: 42  Bit Score: 48.61  E-value: 4.92e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1069353956   5 IPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRL 39
Cdd:cd12100     4 LPYGLKSLLEGLSREVLREQPEDIPEFAADYFEEL 38
DD_ROP-like cd22972
dimerization/docking (D/D) domain found in the ropporin (ROP)-like subfamily; The ROP-like ...
 2-39 5.89e-08

dimerization/docking (D/D) domain found in the ropporin (ROP)-like subfamily; The ROP-like family includes ropporin-1A (ROP1A, also called cancer/testis antigen 91, CT91, or rhophilin-associated protein 1A), ropporin-1B (ROP1B, also called rhophilin-associated protein 1B), and ropporin-1-like protein (ROPN1L, also called ROPN1-like protein, AKAP-associated sperm protein, or ASP), as well as Chlamydomonas reinhardtii flagellar radial spoke proteins, RSP7 and RSP11. ROP1A, ROP1B and ROPN1L play important roles in male fertility. They are involved in fibrous sheath integrity and sperm motility and play roles in cAMP-dependent protein kinase (PKA)-dependent signaling processes required for spermatozoa capacitation. RSP7 is a PKA RII-like protein. RSP11 is a non-PKA RIIa protein that contains a RII domain but lack any features required for cAMP signaling or phosphorylation. It is involved in the control of ciliary and flagellar beating. Members of this subfamily contain a conserved helical bundle domain that shows high sequence similarity to the dimerization/docking (D/D) domain of the regulatory subunit of PKA.


Pssm-ID: 438541  Cd Length: 43  Bit Score: 48.45  E-value: 5.89e-08
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1069353956   2 SIEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRL 39
Cdd:cd22972     3 QIVIPEGLPEILKAYAKEAIRSQPEDLIQWSAKYFRAL 40
DD_ROP cd23019
dimerization/docking (D/D) domain found in ropporins; The ROP subfamily includes ropporin-1A ...
 1-39 2.50e-06

dimerization/docking (D/D) domain found in ropporins; The ROP subfamily includes ropporin-1A (ROP1A, also called cancer/testis antigen 91, CT91, or rhophilin-associated protein 1A), ropporin-1B (ROP1B, also called rhophilin-associated protein 1B), and ropporin-1-like protein (ROPN1L, also called ROPN1-like protein, AKAP-associated sperm protein, or ASP). ROP1A, ROP1B and ROPN1L play important roles in male fertility. They are involved in fibrous sheath integrity and sperm motility and play roles in cAMP-dependent protein kinase (PKA)-dependent signaling processes required for spermatozoa capacitation. Members of this subfamily contain a conserved helical bundle domain that shows high sequence similarity to the dimerization/docking (D/D) domain of the regulatory subunit of PKA, which dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs). ROP1A and ROP1B have been shown to bind AKAP3.


Pssm-ID: 438555  Cd Length: 43  Bit Score: 43.82  E-value: 2.50e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1069353956   1 MSIEIPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRL 39
Cdd:cd23019     2 QQINIPPELPDILKQFTKAAIRTQPKDLLQWSAAYFRAL 40
PLN02868 PLN02868
acyl-CoA thioesterase family protein
 257-363 3.21e-06

acyl-CoA thioesterase family protein


Pssm-ID: 178459 [Multi-domain]  Cd Length: 413  Bit Score: 48.95  E-value: 3.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 257 FIESVPILKSLELSERMKIVDVIGAKVYKDGDRIIAQGDQADCFFIVESGEVKIMmkskTKTGQESNQEVEIarcKSGQY 336
Cdd:PLN02868    9 FLGSVPLLQRLPSSSLKKIAEVVVPKRYGKGEYVVREGEPGDGLYFIWKGEAEVS----GPAEEESRPEFLL---KRYDY 81

                          90       100
                  ....*....|....*....|....*..
gi 1069353956 337 FGElALVTNKpRAASAYAVGDVKCLVI 363
Cdd:PLN02868   82 FGY-GLSGSV-HSADVVAVSELTCLVL 106
cyc_nuc_ocin TIGR03896
bacteriocin-type transport-associated protein; Members of this protein family are ...
 275-369 4.13e-05

bacteriocin-type transport-associated protein; Members of this protein family are uncharacterized and contain two copies of the cyclic nucleotide-binding domain pfam00027. Members are restricted to select cyanobacteria but are found regularly in association with a transport operon that, in turn, is associated with the production of putative bacteriocins. The models describing the transport operon are TIGR03794, TIGR03796, and TIGR03797.


Pssm-ID: 274839 [Multi-domain]  Cd Length: 317  Bit Score: 45.27  E-value: 4.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 275 IVDVIGAKVYKDGDRIIAQGDQADCFFIVESGevKIMMKSKTKTGQESNQEVEIARCKSGQYFGELALVTNKPRAASAYA 354
Cdd:TIGR03896   4 MVAIGHQREIAAGTTLIEEGKAADFLFILLDG--TFTVTTPQPEDNPLTRAFELARLSRGEIVGEMSLLETRPPVATIKA 81

                          90
                  ....*....|....*
gi 1069353956 355 VGDVKCLVIDVQAFE 369
Cdd:TIGR03896  82 VPKSRVMSIPVGELA 96
DD_R_ScPKA-like cd12098
dimerization/docking (D/D) domain found in Saccharomyces cerevisiae cAMP-dependent protein ...
 5-43 1.53e-04

dimerization/docking (D/D) domain found in Saccharomyces cerevisiae cAMP-dependent protein kinase regulatory subunit and similar domains; cAMP-dependent protein kinase (PKA) is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of regulatory (R) subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. The R subunit of fungal PKA is encoded by a single gene, which is called by various names in different organisms (for example: Yarrowia lipolytica RKA1, Saccharomyces cerevisiae Bcy1, and Schizosaccharomyces pombe Cgs1). Although most characterized PKA holoenzymes are tetramers, Y. lipolytica PKA has been reported to be a dimer of RKA1 and the catalytic subunit TPK1. RKA1 is essential and promotes hyphal growth. Cgs1 is essential for sexual differentiation of S. pombe; mutants with defective Cgs1 are partially sterile. The R subunit contains an N-terminal dimerization/docking (D/D) domain, a linker with an inhibitory sequence, and two c-AMP binding domains. The D/D domain of metazoan R subunits dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs). The D/D domain of fungal R subunits may also serve as a dimerization domain, in the case of heterotetrameric PKAs. Fungal PKA plays a major role in controlling cell growth and metabolism in response to nutrients and stress conditions.


Pssm-ID: 438519  Cd Length: 45  Bit Score: 39.05  E-value: 1.53e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1069353956   5 IPPGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTRLKEKQ 43
Cdd:cd12098     1 LPSEYPDELNELNREVLRAQPDDILQFCANYFNRKLEEQ 39
DD_R_PKA_DPY30-like cd22957
dimerization/docking (D/D) domains found in the cAMP-dependent protein kinase regulatory ...
 12-39 6.11e-04

dimerization/docking (D/D) domains found in the cAMP-dependent protein kinase regulatory subunit (PRKAR) and the DPY30/SDC1-like family; This hierarchy includes the dimerization/docking (D/D) domains of type I and type II cAMP-dependent protein kinase (PKA) regulatory (R) subunits, DPY30 from animals and its homologs, SDC1 from yeasts, and similar domains. PKA is a serine/threonine kinase (STK), catalyzing the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The inactive PKA holoenzyme is a heterotetramer composed of two phosphorylated and active catalytic subunits with a dimer of R subunits. Activation is achieved through the binding of the important second messenger cAMP to the R subunits, which leads to the dissociation of PKA into the R dimer and two active subunits. There are two classes of R subunits, RI and RII; each exists as two isoforms (alpha and beta) from distinct genes. These functionally non-redundant R isoforms allow for specificity in PKA signaling. The R subunit contains an N-terminal D/D domain, a linker with an inhibitory sequence (IS), and two c-AMP binding domains. The D/D domain dimerizes to form a four-helix bundle that serves as a docking site for A-kinase-anchoring proteins (AKAPs), which facilitates the localization of PKA to specific sites in the cell. DPY30, also called dumpy-30, was initially discovered in Caenorhabditis elegans as a key player in X chromosome dosage compensation. Human DPY30 plays a dual function in moderately regulating the methyltransferase activity of SET1/COMPASS (COMplex of Proteins ASsociated with Set1) enzymes and contributing to the recruitment of the complex to chromatin. Yeast SDC1 (suppressor of CDC25 protein 1) is the smallest subunit of COMPASS (COMplex of Proteins ASsociated with Set1) and interacts exclusively with Bre2 at the distal end of the catalytic module. It positively regulates the COMPASS catalytic module by stabilizing the non-canonical Bre2 SPRY domain. DPY30/SDC1 contains a C-terminal helical bundle domain that directly interacts with Ash2L (in human)/Bre2 (in yeast) COMPASS through the DPY30-binding motif (DBM). The DPY30/SDC1 helical bundle domain, also called D/D domain, is formed of two alpha-helices that may be analogous to the D/D domain found in regulatory subunit of PKA.


Pssm-ID: 438526  Cd Length: 29  Bit Score: 36.71  E-value: 6.11e-04
                          10        20
                  ....*....|....*....|....*...
gi 1069353956  12 LLQGYTVEVLRQKPPDLVEFAIQYFTRL 39
Cdd:cd22957     2 LLQDAVAKLLEERPEDPVEFLAEYFEKA 29
DD_CATIP cd22973
dimerization/docking (D/D) domain found in ciliogenesis-associated TTC17-interacting protein ...
 7-37 6.53e-04

dimerization/docking (D/D) domain found in ciliogenesis-associated TTC17-interacting protein (CATIP) and similar proteins; CATIP, also called C2orf62, plays a role in primary ciliogenesis by modulating actin polymerization. It interacts with TTC17. Mutations in CATIP may contribute to asthenozoospermia through its involvement in actin polymerization and the actin cytoskeleton. CATIP contains a C-terminal domain that shows high sequence similarity to the dimerization/docking (D/D) domain of regulatory subunit of cAMP-dependent protein kinase (PKA).


Pssm-ID: 438542  Cd Length: 40  Bit Score: 37.06  E-value: 6.53e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1069353956   7 PGLTDLLQGYTVEVLRQKPPDLVEFAIQYFT 37
Cdd:cd22973     7 PELKAILSDFLQALLLRKPEDVYQFAAEYFS 37
DD_RIIAD1 cd22971
dimerization/docking (D/D) domain found in RIIa domain-containing protein 1 (RIIAD1) and ...
 7-38 2.97e-03

dimerization/docking (D/D) domain found in RIIa domain-containing protein 1 (RIIAD1) and similar proteins; The family includes uncharacterized RIIa domain-containing protein 1 (RIIAD1), which contains a C-terminal domain that shows high sequence similarity to the dimerization/docking (D/D) domain of regulatory subunit of cAMP-dependent protein kinase (PKA).


Pssm-ID: 438540  Cd Length: 41  Bit Score: 35.07  E-value: 2.97e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1069353956   7 PGLTDLLQGYTVEVLRQKPPDLVEFAIQYFTR 38
Cdd:cd22971     4 PEIRALISGFLREVLKKKPENIREFAAEFFTD 35
PLN03192 PLN03192
Voltage-dependent potassium channel; Provisional
 138-292 4.57e-03

Voltage-dependent potassium channel; Provisional


Pssm-ID: 215625 [Multi-domain]  Cd Length: 823  Bit Score: 39.47  E-value: 4.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 138 DILIFKNLDQEQLSQVLDAMFERRVEPQEHVIDQGDDGDNFYVIDRGQYDIFVQRDGQSRCVGKYDEHGSFGELALMYNT 217
Cdd:PLN03192  378 KVYLFKGVSREILLLLVTKMKAEYIPPREDVIMQNEAPDDVYIVVSGEVEIIDSEGEKERVVGTLGCGDIFGEVGALCCR 457

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1069353956 218 PRAATIVATTEGALWGLDRVTfrriiLKNNAKKRKTyeifiESVPILKSL-----ELSErMKIVDVIGAKVYKDGDRIIA 292
Cdd:PLN03192  458 PQSFTFRTKTLSQLLRLKTST-----LIEAMQTRQE-----DNVVILKNFlqhhkELHD-LNVGDLLGDNGGEHDDPNMA 526
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
290-350 9.39e-03

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 37.27  E-value: 9.39e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1069353956 290 IIAQGDQADCFFIVESGEVKIMMKsktktgQESNQEVEIARCKSGQYFGELAL-VTNKPRAA 350
Cdd:PRK11753   31 LIHAGEKAETLYYIVKGSVAVLIK------DEEGKEMILSYLNQGDFIGELGLfEEGQERSA 86
 
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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