NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1020340596|gb|AMZ27516|]
View 

transcriptional repressor NsrR [Salmonella enterica subsp. enterica serovar Typhimurium str. USDA-ARS-USMARC-1880]

Protein Classification

nitric oxide-sensing transcriptional repressor NsrR( domain architecture ID 10013704)

nitric oxide-sensing transcriptional repressor NsrR is involved in protecting the cell against nitrosative stress, such as ytfE, hmpA and ygbA

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK11014 PRK11014
HTH-type transcriptional repressor NsrR;
1-141 6.32e-121

HTH-type transcriptional repressor NsrR;


:

Pssm-ID: 236820  Cd Length: 141  Bit Score: 335.49  E-value: 6.32e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:PRK11014    1 MQLTSFTDYGLRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPASTIRIGDVV 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  81 RELEPLSLVNCSSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQPLYKLLLVE 141
Cdd:PRK11014   81 RELEPLSLVNCSSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQPLYKLLLVE 141
 
Name Accession Description Interval E-value
PRK11014 PRK11014
HTH-type transcriptional repressor NsrR;
1-141 6.32e-121

HTH-type transcriptional repressor NsrR;


Pssm-ID: 236820  Cd Length: 141  Bit Score: 335.49  E-value: 6.32e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:PRK11014    1 MQLTSFTDYGLRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPASTIRIGDVV 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  81 RELEPLSLVNCSSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQPLYKLLLVE 141
Cdd:PRK11014   81 RELEPLSLVNCSSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQPLYKLLLVE 141
IscR COG1959
DNA-binding transcriptional regulator, IscR family [Transcription];
2-133 5.86e-51

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


Pssm-ID: 441562  Cd Length: 141  Bit Score: 158.85  E-value: 5.86e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   2 QLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVVR 81
Cdd:COG1959     1 RLSTKTDYALRALLYLALHPGGEPVTSKEIAERQGISPSYLEKILQKLRKAGLVESVRGPGGGYRLARPPEEITLGDVVR 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1020340596  82 ELE-PLSLVNCSS--EFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQP 133
Cdd:COG1959    81 AVEgPLALVECVSgpPDCPVEEACALHGVWEEAEDAILEVLDSVTLADLVEDAEA 135
Rrf2 pfam02082
Iron-dependent Transcriptional regulator; Several proteins in this family form iron-sulfur ...
 3-130 1.16e-48

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: 152.32  E-value: 1.16e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   3 LTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVVRE 82
Cdd:pfam02082   1 LSTKTDYALHALLYLALHPGGEPVTSEEIAERQNISPVYLEKILAKLRKAGLVESVRGAGGGYRLARPPEEITLLDVVRA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  83 LE-PLSLVNCSSE--FCHITPACRLKQALSKAVQSFLKELDNYTLADLVEE 130
Cdd:pfam02082  81 VEgPLALFECNNPkcPCGIEIQCALREAWEEAQDAMEDVLDSVTLADLVAD 131
rrf2_super TIGR00738
Rrf2 family protein; This model represents a superfamily of probable transcriptional ...
 1-128 1.73e-43

Rrf2 family protein; This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency. [Unknown function, General]


Pssm-ID: 273242  Cd Length: 132  Bit Score: 139.30  E-value: 1.73e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:TIGR00738   1 MKLTKKTEYALRALLDLALNPDEGPVSVKEIAERQGISRSYLEKILRTLRKAGLVESVRGPGGGYRLARPPEEITVGDVV 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  81 RELE-PLSLVNC-SSEFCHI-TPACRLKQALSKAVQSFLKELDNYTLADLV 128
Cdd:TIGR00738  81 RAVEgSLAPVQCiGLNGCHPgEEVCLLHAVWRELEDAIEDFLREITLADLV 131
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-61 2.44e-04

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 37.04  E-value: 2.44e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1020340596  11 LRALIYMASLPDG-RMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGK 61
Cdd:cd07377    10 LREAILSGELKPGdRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGR 61
 
Name Accession Description Interval E-value
PRK11014 PRK11014
HTH-type transcriptional repressor NsrR;
1-141 6.32e-121

HTH-type transcriptional repressor NsrR;


Pssm-ID: 236820  Cd Length: 141  Bit Score: 335.49  E-value: 6.32e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:PRK11014    1 MQLTSFTDYGLRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPASTIRIGDVV 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  81 RELEPLSLVNCSSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQPLYKLLLVE 141
Cdd:PRK11014   81 RELEPLSLVNCSSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQPLYKLLLVE 141
IscR COG1959
DNA-binding transcriptional regulator, IscR family [Transcription];
2-133 5.86e-51

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


Pssm-ID: 441562  Cd Length: 141  Bit Score: 158.85  E-value: 5.86e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   2 QLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVVR 81
Cdd:COG1959     1 RLSTKTDYALRALLYLALHPGGEPVTSKEIAERQGISPSYLEKILQKLRKAGLVESVRGPGGGYRLARPPEEITLGDVVR 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1020340596  82 ELE-PLSLVNCSS--EFCHITPACRLKQALSKAVQSFLKELDNYTLADLVEENQP 133
Cdd:COG1959    81 AVEgPLALVECVSgpPDCPVEEACALHGVWEEAEDAILEVLDSVTLADLVEDAEA 135
Rrf2 pfam02082
Iron-dependent Transcriptional regulator; Several proteins in this family form iron-sulfur ...
 3-130 1.16e-48

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: 152.32  E-value: 1.16e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   3 LTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVVRE 82
Cdd:pfam02082   1 LSTKTDYALHALLYLALHPGGEPVTSEEIAERQNISPVYLEKILAKLRKAGLVESVRGAGGGYRLARPPEEITLLDVVRA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  83 LE-PLSLVNCSSE--FCHITPACRLKQALSKAVQSFLKELDNYTLADLVEE 130
Cdd:pfam02082  81 VEgPLALFECNNPkcPCGIEIQCALREAWEEAQDAMEDVLDSVTLADLVAD 131
rrf2_super TIGR00738
Rrf2 family protein; This model represents a superfamily of probable transcriptional ...
 1-128 1.73e-43

Rrf2 family protein; This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency. [Unknown function, General]


Pssm-ID: 273242  Cd Length: 132  Bit Score: 139.30  E-value: 1.73e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:TIGR00738   1 MKLTKKTEYALRALLDLALNPDEGPVSVKEIAERQGISRSYLEKILRTLRKAGLVESVRGPGGGYRLARPPEEITVGDVV 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1020340596  81 RELE-PLSLVNC-SSEFCHI-TPACRLKQALSKAVQSFLKELDNYTLADLV 128
Cdd:TIGR00738  81 RAVEgSLAPVQCiGLNGCHPgEEVCLLHAVWRELEDAIEDFLREITLADLV 131
rirA PRK11920
iron-responsive transcriptional regulator RirA;
1-139 7.18e-31

iron-responsive transcriptional regulator RirA;


Pssm-ID: 171344  Cd Length: 153  Bit Score: 107.94  E-value: 7.18e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASlPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:PRK11920    1 MRLTKQTNYAIRMLMYCAA-NDGKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVRLGRPAADISLFDVV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1020340596  81 RELE-PLSLVNC---SSEFCHITPACRLKQALSKAVQSFLKELDNYTLADLVeENQPLYKLLL 139
Cdd:PRK11920   80 RVTEdSFSMAECfenDASECPLVDSCGLNSALRKALNAFFAVLSKYSIADLV-KARPNIRFLL 141
PRK10857 PRK10857
Fe-S cluster assembly transcriptional regulator IscR;
1-134 6.31e-10

Fe-S cluster assembly transcriptional regulator IscR;


Pssm-ID: 236777  Cd Length: 164  Bit Score: 54.12  E-value: 6.31e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020340596   1 MQLTSFTDYGLRALIYMASLPDGRMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGKNGGIRLGKPANTICIGDVV 80
Cdd:PRK10857    1 MRLTSKGRYAVTAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1020340596  81 REL-EPLSLVNCS-SEFCHITPAC---RLKQALSKAVQSFlkeLDNYTLADLVEENQPL 134
Cdd:PRK10857   81 SAVdESVDATRCQgKGGCQGGDKClthALWRDLSDRLTGF---LNNITLGELVNNQEVL 136
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-61 2.44e-04

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 37.04  E-value: 2.44e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1020340596  11 LRALIYMASLPDG-RMTSISEVTEVYGVSRNHMVKIINQLSRAGFVTAVRGK 61
Cdd:cd07377    10 LREAILSGELKPGdRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGR 61
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH