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Conserved domains on  [gi|488898781|ref|WP_002809877|]
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Crp/Fnr family transcriptional regulator [Nitrosococcus oceani]

Protein Classification

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

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 10-209 5.04e-57

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: 179.41  E-value: 5.04e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:COG0664    3 GLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGDFFGELSLLGGEPSPAT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  90 VMTLDKSRLSVVSKTIFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLAIEKGGKLIIeeRPT 169
Cdd:COG0664   83 AEALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRIDL--PLT 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 488898781 170 HQEIAQRVGASREMVSRIMGDLATGGYIEVTSKTIIIPHR 209
Cdd:COG0664  161 QEEIASYLGLTRETVSRILKKLEKEGLIELERGRITILDR 200
 
Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 10-209 5.04e-57

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: 179.41  E-value: 5.04e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:COG0664    3 GLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGDFFGELSLLGGEPSPAT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  90 VMTLDKSRLSVVSKTIFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLAIEKGGKLIIeeRPT 169
Cdd:COG0664   83 AEALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRIDL--PLT 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 488898781 170 HQEIAQRVGASREMVSRIMGDLATGGYIEVTSKTIIIPHR 209
Cdd:COG0664  161 QEEIASYLGLTRETVSRILKKLEKEGLIELERGRITILDR 200
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
26-206 1.13e-46

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 153.21  E-value: 1.13e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  26 RTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKG-PRSASVMTLDKSRLSVVSKT 104
Cdd:PRK11753  23 HKYPAKSTLIHAGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGqERSAWVRAKTACEVAEISYK 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781 105 IFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLA------IEKGGKLIieeRPTHQEIAQRVG 178
Cdd:PRK11753 103 KFRQLIQVNPDILMALSAQMARRLQNTSRKVGDLAFLDVTGRIAQTLLDLAkqpdamTHPDGMQI---KITRQEIGRIVG 179

                        170       180
                 ....*....|....*....|....*...
gi 488898781 179 ASREMVSRIMGDLATGGYIEVTSKTIII 206
Cdd:PRK11753 180 CSREMVGRVLKMLEDQGLISAHGKTIVV 207
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 10-121 1.00e-34

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: 119.35  E-value: 1.00e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:cd00038    4 GLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGELALLGNGPRSAT 83

                         90       100       110
                 ....*....|....*....|....*....|..
gi 488898781  90 VMTLDKSRLSVVSKTIFNRCLTEHPDFALKLL 121
Cdd:cd00038   84 VRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 26-113 3.17e-26

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: 96.52  E-value: 3.17e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781   26 RTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSASVMTLDKSRLSVVSKTI 105
Cdd:pfam00027   2 RSYKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPRED 81


                  ....*...
gi 488898781  106 FNRCLTEH 113
Cdd:pfam00027  82 FLELLERD 89
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 10-121 1.06e-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: 91.31  E-value: 1.06e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781    10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:smart00100   4 NLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEEQIVGTLGPGDFFGELALLTNSRRAAS 83

                           90       100       110
                   ....*....|....*....|....*....|....
gi 488898781    90 VMTLDKS--RLSVVSKTIFNRCLTEHPDFALKLL 121
Cdd:smart00100  84 AAAVALElaTLLRIDFRDFLQLLPELPQLLLELL 117
cyc_nuc_ocin TIGR03896
bacteriocin-type transport-associated protein; Members of this protein family are ...
 15-129 1.01e-10

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: 59.91  E-value: 1.01e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781   15 DLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKaGEYFGELALLD-KGPRSASVMTL 93
Cdd:TIGR03896 153 DVAWMMASGTPQKLPAGTILIHEGGTVDALYILLYGEASLSISPDGPGREVGSSRR-GEILGETPFLNgSLPGTATVKAI 231

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 488898781   94 DKSRLSVVSKTIFNRCLTEHPDFALK----LLCALTQRVR 129
Cdd:TIGR03896 232 ENSVLLAIDKQQLAAKLQQDVGFASRfyrvIASLLSQRSR 271
 
Name Accession Description Interval E-value
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 10-209 5.04e-57

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: 179.41  E-value: 5.04e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:COG0664    3 GLSDEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDGREQILGFLGPGDFFGELSLLGGEPSPAT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  90 VMTLDKSRLSVVSKTIFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLAIEKGGKLIIeeRPT 169
Cdd:COG0664   83 AEALEDSELLRIPREDLEELLERNPELARALLRLLARRLRQLQERLVSLAFLSAEERLARFLLELADRLDGRIDL--PLT 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 488898781 170 HQEIAQRVGASREMVSRIMGDLATGGYIEVTSKTIIIPHR 209
Cdd:COG0664  161 QEEIASYLGLTRETVSRILKKLEKEGLIELERGRITILDR 200
PRK11753 PRK11753
cAMP-activated global transcriptional regulator CRP;
26-206 1.13e-46

cAMP-activated global transcriptional regulator CRP;


Pssm-ID: 236969 [Multi-domain]  Cd Length: 211  Bit Score: 153.21  E-value: 1.13e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  26 RTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKG-PRSASVMTLDKSRLSVVSKT 104
Cdd:PRK11753  23 HKYPAKSTLIHAGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGqERSAWVRAKTACEVAEISYK 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781 105 IFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLA------IEKGGKLIieeRPTHQEIAQRVG 178
Cdd:PRK11753 103 KFRQLIQVNPDILMALSAQMARRLQNTSRKVGDLAFLDVTGRIAQTLLDLAkqpdamTHPDGMQI---KITRQEIGRIVG 179

                        170       180
                 ....*....|....*....|....*...
gi 488898781 179 ASREMVSRIMGDLATGGYIEVTSKTIII 206
Cdd:PRK11753 180 CSREMVGRVLKMLEDQGLISAHGKTIVV 207
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 10-121 1.00e-34

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: 119.35  E-value: 1.00e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:cd00038    4 GLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGELALLGNGPRSAT 83

                         90       100       110
                 ....*....|....*....|....*....|..
gi 488898781  90 VMTLDKSRLSVVSKTIFNRCLTEHPDFALKLL 121
Cdd:cd00038   84 VRALTDSELLVLPRSDFRRLLQEYPELARRLL 115
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 26-113 3.17e-26

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: 96.52  E-value: 3.17e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781   26 RTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSASVMTLDKSRLSVVSKTI 105
Cdd:pfam00027   2 RSYKAGEVIFREGDPADSLYIVLSGKVKVYRTLEDGREQILAVLGPGDFFGELALLGGEPRSATVVALTDSELLVIPRED 81


                  ....*...
gi 488898781  106 FNRCLTEH 113
Cdd:pfam00027  82 FLELLERD 89
cNMP smart00100
Cyclic nucleotide-monophosphate binding domain; Catabolite gene activator protein (CAP) is a ...
 10-121 1.06e-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: 91.31  E-value: 1.06e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781    10 AFSPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGPRSAS 89
Cdd:smart00100   4 NLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEVEVYKVLEDGEEQIVGTLGPGDFFGELALLTNSRRAAS 83

                           90       100       110
                   ....*....|....*....|....*....|....
gi 488898781    90 VMTLDKS--RLSVVSKTIFNRCLTEHPDFALKLL 121
Cdd:smart00100  84 AAAVALElaTLLRIDFRDFLQLLPELPQLLLELL 117
PRK13918 PRK13918
CRP/FNR family transcriptional regulator; Provisional
 25-197 1.26e-15

CRP/FNR family transcriptional regulator; Provisional


Pssm-ID: 237557 [Multi-domain]  Cd Length: 202  Bit Score: 72.16  E-value: 1.26e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  25 TRTYPKYTILIHEGDL--SDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDKGpRSASVMTLDKSRLSVVS 102
Cdd:PRK13918   8 TVTYRPGAVILYPGVPgpSDMLYRVRSGLVRLHTVDDEGNALTLRYVRPGEYFGEEALAGAE-RAYFAEAVTDSRIDVLN 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781 103 KTIFNrcltehPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLA------IEKGGKLIIeeRPTHQEIAQR 176
Cdd:PRK13918  87 PALMS------AEDNLVLTQHLVRTLARAYESIYRLVGQRLKNRIAAALLELSdtplatQEDSGETMI--YATHDELAAA 158

                        170       180
                 ....*....|....*....|.
gi 488898781 177 VGASREMVSRIMGDLATGGYI 197
Cdd:PRK13918 159 VGSVRETVTKVIGELSREGYI 179
ftrB PRK09392
transcriptional activator FtrB; Provisional
 12-206 4.92e-14

transcriptional activator FtrB; Provisional


Pssm-ID: 181817 [Multi-domain]  Cd Length: 236  Bit Score: 68.51  E-value: 4.92e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  12 SPEDLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYiSDEGGKEVILRTQKAGEYFGELALLDKGPRSASVM 91
Cdd:PRK09392  19 ADATFERLMRGAFLQRFPPGTMLITEGEPADFLFVVLDGLVELS-ASSQDRETTLAILRPVSTFILAAVVLDAPYLMSAR 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  92 TLDKSRLSVVSKTIFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLAIEKGGKLIIE---ERP 168
Cdd:PRK09392  98 TLTRSRVLMIPAELVREAMSEDPGFMRAVVFELAGCYRGLVKSLKNQKLRSSAERLANYLLKQSLRQGGADVVTlpyEKR 177

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 488898781 169 ThqeIAQRVGASREMVSRIMGDLATGGyIEVTSKTIII 206
Cdd:PRK09392 178 V---LASYLGMTPENLSRAFAALASHG-VHVDGSAVTI 211
HTH_Crp_2 pfam13545
Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain ...
 145-209 3.69e-11

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


Pssm-ID: 463917 [Multi-domain]  Cd Length: 68  Bit Score: 56.70  E-value: 3.69e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488898781  145 GRVARTLLDLAiEKGGKLIIEERPTHQEIAQRVGASREMVSRIMGDLATGGYIEVtsKTIIIPHR 209
Cdd:pfam13545   1 QRLARFLLELA-ARDGGGRIDLPLTQEDLADLLGTTRETVSRVLSELRREGLIER--GRITILDP 62
cyc_nuc_ocin TIGR03896
bacteriocin-type transport-associated protein; Members of this protein family are ...
 15-129 1.01e-10

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: 59.91  E-value: 1.01e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781   15 DLELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKaGEYFGELALLD-KGPRSASVMTL 93
Cdd:TIGR03896 153 DVAWMMASGTPQKLPAGTILIHEGGTVDALYILLYGEASLSISPDGPGREVGSSRR-GEILGETPFLNgSLPGTATVKAI 231

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 488898781   94 DKSRLSVVSKTIFNRCLTEHPDFALK----LLCALTQRVR 129
Cdd:TIGR03896 232 ENSVLLAIDKQQLAAKLQQDVGFASRfyrvIASLLSQRSR 271
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
169-206 1.06e-08

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 49.75  E-value: 1.06e-08
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 488898781   169 THQEIAQRVGASREMVSRIMGDLATGGYIEVTSKTIII 206
Cdd:smart00419  10 TRQEIAELLGLTRETVSRTLKRLEKEGLISREGGRIVI 47
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 145-206 1.39e-08

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


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 49.97  E-value: 1.39e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 488898781 145 GRVARTLLDLAIEKGGKLIIEERPTHQEIAQRVGASREMVSRIMGDLATGGYIEV-TSKTIII 206
Cdd:cd00092    3 ERLASFLLNLSLRYGAGDLVQLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRrGRGKYRV 65
fixK PRK09391
transcriptional regulator FixK; Provisional
 27-198 3.81e-05

transcriptional regulator FixK; Provisional


Pssm-ID: 236494 [Multi-domain]  Cd Length: 230  Bit Score: 43.10  E-value: 3.81e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781  27 TYPKYTILIHEGDLSDSLYIILSGKVKVY--ISDegGKEVILRTQKAGEYFGelalLDKGPR---SASVMTLDKSRLsvV 101
Cdd:PRK09391  42 SYKKGEEIYGEGEPADYVYQVESGAVRTYrlLSD--GRRQIGAFHLPGDVFG----LESGSThrfTAEAIVDTTVRL--I 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781 102 SKTIFNRCLTEHPDFALKLLCALTQRVRSLTENVKNLALLDVYGRVARTLLDLAIEKGGKLIIEERPTHQEIAQRVGASR 181
Cdd:PRK09391 114 KRRSLEQAAATDVDVARALLSLTAGGLRHAQDHMLLLGRKTAMERVAAFLLEMDERLGGAGMMALPMSRRDIADYLGLTI 193

                        170
                 ....*....|....*..
gi 488898781 182 EMVSRIMGDLATGGYIE 198
Cdd:PRK09391 194 ETVSRALSQLQDRGLIG 210
cyc_nuc_ocin TIGR03896
bacteriocin-type transport-associated protein; Members of this protein family are ...
 16-98 1.26e-04

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: 41.80  E-value: 1.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488898781   16 LELLRGCGVTRTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGG----KEVILRTQKAGEYFGELALLDKGPRSASVM 91
Cdd:TIGR03896   1 IDWMVAIGHQREIAAGTTLIEEGKAADFLFILLDGTFTVTTPQPEDnpltRAFELARLSRGEIVGEMSLLETRPPVATIK 80


                  ....*..
gi 488898781   92 TLDKSRL 98
Cdd:TIGR03896  81 AVPKSRV 87
Rrf2 pfam02082
Iron-dependent Transcriptional regulator; Several proteins in this family form iron-sulfur ...
 141-198 6.75e-04

Iron-dependent Transcriptional regulator; Several proteins in this family form iron-sulfur clusters enabling iron dependent DNA transcription regulation. The iron binding is mediated by three conserved cysteine residues. Members of this family can also bind O-acetyl-L-serine, [Fe-S] and nitric oxide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 396591 [Multi-domain]  Cd Length: 131  Bit Score: 38.30  E-value: 6.75e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 488898781  141 LDVYGRVA-RTLLDLAIEKGGKLIieerpTHQEIAQRVGASREMVSRIMGDLATGGYIE 198
Cdd:pfam02082   1 LSTKTDYAlHALLYLALHPGGEPV-----TSEEIAERQNISPVYLEKILAKLRKAGLVE 54
IscR COG1959
DNA-binding transcriptional regulator, IscR family [Transcription];
141-198 2.60e-03

DNA-binding transcriptional regulator, IscR family [Transcription];


Pssm-ID: 441562  Cd Length: 141  Bit Score: 36.74  E-value: 2.60e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 488898781 141 LDVYGRVA-RTLLDLAIEKGGKLIieerpTHQEIAQRVGASREMVSRIMGDLATGGYIE 198
Cdd:COG1959    2 LSTKTDYAlRALLYLALHPGGEPV-----TSKEIAERQGISPSYLEKILQKLRKAGLVE 55
PRK10402 PRK10402
DNA-binding transcriptional activator YeiL; Provisional
 26-91 3.34e-03

DNA-binding transcriptional activator YeiL; Provisional


Pssm-ID: 236682 [Multi-domain]  Cd Length: 226  Bit Score: 37.40  E-value: 3.34e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488898781  26 RTYPKYTILIHEGDLSDSLYIILSGKVKVYISDEGGKEVILRTQKAGEYFGELALLDK--GPRSASVM 91
Cdd:PRK10402  34 FHFLAREYIVQEGQQPSYLFYLTRGRAKLYATLANGKVSLIDFFAAPCFIGEIELIDKdhETKAVQAI 101
Crp pfam00325
Bacterial regulatory proteins, crp family;
169-197 6.45e-03

Bacterial regulatory proteins, crp family;


Pssm-ID: 425608  Cd Length: 32  Bit Score: 33.42  E-value: 6.45e-03
                          10        20
                  ....*....|....*....|....*....
gi 488898781  169 THQEIAQRVGASREMVSRIMGDLATGGYI 197
Cdd:pfam00325   4 SRQDIANYLGLTRETVSRVLGKLQEKGLI 32
PLN03192 PLN03192
Voltage-dependent potassium channel; Provisional
 24-98 7.15e-03

Voltage-dependent potassium channel; Provisional


Pssm-ID: 215625 [Multi-domain]  Cd Length: 823  Bit Score: 37.15  E-value: 7.15e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 488898781  24 VTRTYPKYTI----LIHEGDLSDSLYIILSGKVKVyISDEGGKEVILRTQKAGEYFGELALLDKGPRSASVMTLDKSRL 98
Cdd:PLN03192 394 VTKMKAEYIPpredVIMQNEAPDDVYIVVSGEVEI-IDSEGEKERVVGTLGCGDIFGEVGALCCRPQSFTFRTKTLSQL 471
 
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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