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Conserved domains on  [gi|16130583|ref|NP_417155|]
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DNA-binding transcriptional repressor StpA with RNA chaperone activity [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

DNA-binding protein StpA( domain architecture ID 11484657)

DNA-binding protein StpA acts in a fashion similar to H-NS protein upon overexpression, repressing a number of genes including the cryptic blg operon, hns, papB and the proU locus

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10328 PRK10328
DNA-binding protein StpA;
1-134 5.01e-87

DNA-binding protein StpA;


:

Pssm-ID: 182380 [Multi-domain]  Cd Length: 134  Bit Score: 249.41  E-value: 5.01e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130583    1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKISTWLELMKADGINPEELLGNSS 80
Cdd:PRK10328   1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKADGINPEELLGNSS 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 16130583   81 AAAPRAGKKRQPRPAKYKFTDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:PRK10328  81 AAAPRAGKKRQPRPAKYRFTDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
 
Name Accession Description Interval E-value
PRK10328 PRK10328
DNA-binding protein StpA;
1-134 5.01e-87

DNA-binding protein StpA;


Pssm-ID: 182380 [Multi-domain]  Cd Length: 134  Bit Score: 249.41  E-value: 5.01e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130583    1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKISTWLELMKADGINPEELLGNSS 80
Cdd:PRK10328   1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKADGINPEELLGNSS 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 16130583   81 AAAPRAGKKRQPRPAKYKFTDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:PRK10328  81 AAAPRAGKKRQPRPAKYRFTDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
Hns COG2916
DNA-binding protein H-NS [Transcription];
17-134 8.44e-34

DNA-binding protein H-NS [Transcription];


Pssm-ID: 442160 [Multi-domain]  Cd Length: 109  Bit Score: 113.83  E-value: 8.44e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130583  17 MAREFSIDVLEEMLEKFRVVTKERREeeeqqqrelAERQEKISTWLELMKADGINPEELLGNSSAAAPRagKKRQPRPAK 96
Cdd:COG2916   4 DLRELSLEELEELIEKLEKVIEELEK---------RERAEALAEIKELAAEYGISLEELLGALAAKKAK--KKRAKVPAK 72

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16130583  97 YKftDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:COG2916  73 YR--DPNGPGKTWTGRGRKPKWIKAALAAGKSLEDFLI 108
Histone_HNS pfam00816
H-NS histone family;
52-128 1.98e-22

H-NS histone family;


Pssm-ID: 425884 [Multi-domain]  Cd Length: 91  Bit Score: 84.24  E-value: 1.98e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 16130583    52 AERQEKISTWLELMKADGINPEELLGnSSAAAPRAGKKRQPRPAKYkfTDVNGETKTWTGQGRTPKPIAQALAEGKS 128
Cdd:pfam00816  18 RERKEVLAQIRELAAEYGLTLEELGG-AAKAARKAKAKAAKVPAKY--RDPATPGETWTGRGRKPKWIKAALAAGKS 91
HNS smart00528
Domain in histone-like proteins of HNS family;
87-134 1.52e-19

Domain in histone-like proteins of HNS family;


Pssm-ID: 128801  Cd Length: 46  Bit Score: 75.93  E-value: 1.52e-19
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 16130583     87 GKKRQPRPAKYKFTDVNGETktWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:smart00528   1 KKKRAARPAKYRYPDNNGET--WSGRGRTPRWLAAALDSGKSLEDFLI 46
 
Name Accession Description Interval E-value
PRK10328 PRK10328
DNA-binding protein StpA;
1-134 5.01e-87

DNA-binding protein StpA;


Pssm-ID: 182380 [Multi-domain]  Cd Length: 134  Bit Score: 249.41  E-value: 5.01e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130583    1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKISTWLELMKADGINPEELLGNSS 80
Cdd:PRK10328   1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKADGINPEELLGNSS 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 16130583   81 AAAPRAGKKRQPRPAKYKFTDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:PRK10328  81 AAAPRAGKKRQPRPAKYRFTDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
PRK10947 PRK10947
DNA-binding transcriptional regulator H-NS;
1-134 4.12e-43

DNA-binding transcriptional regulator H-NS;


Pssm-ID: 182858  Cd Length: 135  Bit Score: 138.51  E-value: 4.12e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130583    1 MSVMLQSLNNIRTLRAMAREFSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKISTWLELMKADGINPEELLGNSS 80
Cdd:PRK10947   1 MSEALKILNNIRTLRAQARECTLETLEEMLEKLEVVVNERREEESAAAAEVEERTRKLQQYREMLIADGIDPNELLNSLA 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 16130583   81 AAAPRAGKKRQPRPAKYKFTDVNGETKTWTGQGRTPKPIAQALAE-GKSLDDFLI 134
Cdd:PRK10947  81 AVKSGTKAKRAARPAKYSYVDENGETKTWTGQGRTPAVIKKAMDEqGKSLDDFLI 135
Hns COG2916
DNA-binding protein H-NS [Transcription];
17-134 8.44e-34

DNA-binding protein H-NS [Transcription];


Pssm-ID: 442160 [Multi-domain]  Cd Length: 109  Bit Score: 113.83  E-value: 8.44e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130583  17 MAREFSIDVLEEMLEKFRVVTKERREeeeqqqrelAERQEKISTWLELMKADGINPEELLGNSSAAAPRagKKRQPRPAK 96
Cdd:COG2916   4 DLRELSLEELEELIEKLEKVIEELEK---------RERAEALAEIKELAAEYGISLEELLGALAAKKAK--KKRAKVPAK 72

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16130583  97 YKftDVNGETKTWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:COG2916  73 YR--DPNGPGKTWTGRGRKPKWIKAALAAGKSLEDFLI 108
Histone_HNS pfam00816
H-NS histone family;
52-128 1.98e-22

H-NS histone family;


Pssm-ID: 425884 [Multi-domain]  Cd Length: 91  Bit Score: 84.24  E-value: 1.98e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 16130583    52 AERQEKISTWLELMKADGINPEELLGnSSAAAPRAGKKRQPRPAKYkfTDVNGETKTWTGQGRTPKPIAQALAEGKS 128
Cdd:pfam00816  18 RERKEVLAQIRELAAEYGLTLEELGG-AAKAARKAKAKAAKVPAKY--RDPATPGETWTGRGRKPKWIKAALAAGKS 91
HNS smart00528
Domain in histone-like proteins of HNS family;
87-134 1.52e-19

Domain in histone-like proteins of HNS family;


Pssm-ID: 128801  Cd Length: 46  Bit Score: 75.93  E-value: 1.52e-19
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 16130583     87 GKKRQPRPAKYKFTDVNGETktWTGQGRTPKPIAQALAEGKSLDDFLI 134
Cdd:smart00528   1 KKKRAARPAKYRYPDNNGET--WSGRGRTPRWLAAALDSGKSLEDFLI 46
 
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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