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Conserved domains on  [gi|516290270|ref|WP_017693577|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Enterobacter]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_46 super family cl37901
Winged helix-turn-helix DNA binding;
140-207 2.34e-26

Winged helix-turn-helix DNA binding;


The actual alignment was detected with superfamily member pfam15977:

Pssm-ID: 435049 [Multi-domain]  Cd Length: 68  Bit Score: 96.19  E-value: 2.34e-26
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516290270  140 AYEMIRQQLVLLMQEDDSYRRSVTAERYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLIKINKLPA 207
Cdd:pfam15977   1 SYDIIRALLLELMDLPEEFRENISVLNYIQQRTHLSRSSIMKILSELKKGGYIEIDRGRLVAINNLPS 68
PRK11832 super family cl32729
hydrogen peroxide resistance inhibitor IprA;
47-209 2.29e-17

hydrogen peroxide resistance inhibitor IprA;


The actual alignment was detected with superfamily member PRK11832:

Pssm-ID: 183332 [Multi-domain]  Cd Length: 207  Bit Score: 76.85  E-value: 2.29e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  47 YLILDGTVAIyRRSDDMMLSTARSPALFGLAN-LTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKEKALWGLLSNHLMFVY 125
Cdd:PRK11832  45 FVILEGVISL-RREENVLIGITQAPYIMGLADgLMKNDIPYKLISEGNCTGYHLPAKQTITLIEQNQLWRDAFYWLAWQN 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270 126 NRLYHNVMPKGAPTAYEMIRQQLVLLMQEDDSYRRSVTAERYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLIKINKL 205
Cdd:PRK11832 124 RILELRDVQLIGHNSYEQIRATLLSMIDWNEELRSRIGVMNYIHQRTRISRSVVAEVLAALRKGGYIEMNKGKLVAINRL 203


                 ....
gi 516290270 206 PARY 209
Cdd:PRK11832 204 PSEY 207
 
Name Accession Description Interval E-value
HTH_46 pfam15977
Winged helix-turn-helix DNA binding;
140-207 2.34e-26

Winged helix-turn-helix DNA binding;


Pssm-ID: 435049 [Multi-domain]  Cd Length: 68  Bit Score: 96.19  E-value: 2.34e-26
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516290270  140 AYEMIRQQLVLLMQEDDSYRRSVTAERYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLIKINKLPA 207
Cdd:pfam15977   1 SYDIIRALLLELMDLPEEFRENISVLNYIQQRTHLSRSSIMKILSELKKGGYIEIDRGRLVAINNLPS 68
PRK11832 PRK11832
hydrogen peroxide resistance inhibitor IprA;
47-209 2.29e-17

hydrogen peroxide resistance inhibitor IprA;


Pssm-ID: 183332 [Multi-domain]  Cd Length: 207  Bit Score: 76.85  E-value: 2.29e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  47 YLILDGTVAIyRRSDDMMLSTARSPALFGLAN-LTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKEKALWGLLSNHLMFVY 125
Cdd:PRK11832  45 FVILEGVISL-RREENVLIGITQAPYIMGLADgLMKNDIPYKLISEGNCTGYHLPAKQTITLIEQNQLWRDAFYWLAWQN 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270 126 NRLYHNVMPKGAPTAYEMIRQQLVLLMQEDDSYRRSVTAERYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLIKINKL 205
Cdd:PRK11832 124 RILELRDVQLIGHNSYEQIRATLLSMIDWNEELRSRIGVMNYIHQRTRISRSVVAEVLAALRKGGYIEMNKGKLVAINRL 203


                 ....
gi 516290270 206 PARY 209
Cdd:PRK11832 204 PSEY 207
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 15-200 7.22e-10

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: 56.15  E-value: 7.22e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  15 QELISHLQPHCATHKTDPGEQLDLQVDGQSMCYLILDGTVAIYRRSDD---MMLSTARSPALFGLAN-LTDIYFNDYLRT 90
Cdd:COG0664    6 DEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDgreQILGFLGPGDFFGELSlLGGEPSPATAEA 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  91 VTPCLIGVLTTDRVAEIIKE-----KALWGLLSNHLMFVYNRLYHNvmpkGAPTAYEMIRQQLVLLMQEDDSYRRSVTAE 165
Cdd:COG0664   86 LEDSELLRIPREDLEELLERnpelaRALLRLLARRLRQLQERLVSL----AFLSAEERLARFLLELADRLDGRIDLPLTQ 161

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 516290270 166 RYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLI 200
Cdd:COG0664  162 EEIASYLGLTRETVSRILKKLEKEGLIELERGRIT 196
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 46-110 9.72e-04

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: 36.82  E-value: 9.72e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 516290270   46 CYLILDGTVAIYRRSDD---MMLSTARSPALFG-LANLTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKE 110
Cdd:pfam00027  20 LYIVLSGKVKVYRTLEDgreQILAVLGPGDFFGeLALLGGEPRSATVVALTDSELLVIPREDFLELLER 88
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 47-110 2.70e-03

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: 36.15  E-value: 2.70e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516290270  47 YLILDGTVAIYRRSDD---MMLSTARSPALFG-LANLTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKE 110
Cdd:cd00038   39 YIVLSGSVEVYKLDEDgreQIVGFLGPGDLFGeLALLGNGPRSATVRALTDSELLVLPRSDFRRLLQE 106
 
Name Accession Description Interval E-value
HTH_46 pfam15977
Winged helix-turn-helix DNA binding;
140-207 2.34e-26

Winged helix-turn-helix DNA binding;


Pssm-ID: 435049 [Multi-domain]  Cd Length: 68  Bit Score: 96.19  E-value: 2.34e-26
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516290270  140 AYEMIRQQLVLLMQEDDSYRRSVTAERYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLIKINKLPA 207
Cdd:pfam15977   1 SYDIIRALLLELMDLPEEFRENISVLNYIQQRTHLSRSSIMKILSELKKGGYIEIDRGRLVAINNLPS 68
PRK11832 PRK11832
hydrogen peroxide resistance inhibitor IprA;
47-209 2.29e-17

hydrogen peroxide resistance inhibitor IprA;


Pssm-ID: 183332 [Multi-domain]  Cd Length: 207  Bit Score: 76.85  E-value: 2.29e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  47 YLILDGTVAIyRRSDDMMLSTARSPALFGLAN-LTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKEKALWGLLSNHLMFVY 125
Cdd:PRK11832  45 FVILEGVISL-RREENVLIGITQAPYIMGLADgLMKNDIPYKLISEGNCTGYHLPAKQTITLIEQNQLWRDAFYWLAWQN 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270 126 NRLYHNVMPKGAPTAYEMIRQQLVLLMQEDDSYRRSVTAERYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLIKINKL 205
Cdd:PRK11832 124 RILELRDVQLIGHNSYEQIRATLLSMIDWNEELRSRIGVMNYIHQRTRISRSVVAEVLAALRKGGYIEMNKGKLVAINRL 203


                 ....
gi 516290270 206 PARY 209
Cdd:PRK11832 204 PSEY 207
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 15-200 7.22e-10

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: 56.15  E-value: 7.22e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  15 QELISHLQPHCATHKTDPGEQLDLQVDGQSMCYLILDGTVAIYRRSDD---MMLSTARSPALFGLAN-LTDIYFNDYLRT 90
Cdd:COG0664    6 DEELEALLAHLELRTLKKGEVLFREGDPADHLYFVLSGLVKLYRISEDgreQILGFLGPGDFFGELSlLGGEPSPATAEA 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516290270  91 VTPCLIGVLTTDRVAEIIKE-----KALWGLLSNHLMFVYNRLYHNvmpkGAPTAYEMIRQQLVLLMQEDDSYRRSVTAE 165
Cdd:COG0664   86 LEDSELLRIPREDLEELLERnpelaRALLRLLARRLRQLQERLVSL----AFLSAEERLARFLLELADRLDGRIDLPLTQ 161

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 516290270 166 RYIRDKTHLSRSGVMRILADLKTGGFIEMEEGRLI 200
Cdd:COG0664  162 EEIASYLGLTRETVSRILKKLEKEGLIELERGRIT 196
cNMP_binding pfam00027
Cyclic nucleotide-binding domain; This domain sensor domain can bind cAMP, cGMP, c-di-GMP, ...
 46-110 9.72e-04

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: 36.82  E-value: 9.72e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 516290270   46 CYLILDGTVAIYRRSDD---MMLSTARSPALFG-LANLTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKE 110
Cdd:pfam00027  20 LYIVLSGKVKVYRTLEDgreQILAVLGPGDFFGeLALLGGEPRSATVVALTDSELLVIPREDFLELLER 88
CAP_ED cd00038
effector domain of the CAP family of transcription factors; members include CAP (or cAMP ...
 47-110 2.70e-03

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: 36.15  E-value: 2.70e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516290270  47 YLILDGTVAIYRRSDD---MMLSTARSPALFG-LANLTDIYFNDYLRTVTPCLIGVLTTDRVAEIIKE 110
Cdd:cd00038   39 YIVLSGSVEVYKLDEDgreQIVGFLGPGDLFGeLALLGNGPRSATVRALTDSELLVLPRSDFRRLLQE 106
 
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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