NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|490930560|ref|WP_004792413|]
View 

MULTISPECIES: transcriptional repressor [Acinetobacter]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HTH_ARSR super family cl46857
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 16-131 8.22e-14

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


The actual alignment was detected with superfamily member cd07153:

Pssm-ID: 481197 [Multi-domain]  Cd Length: 116  Bit Score: 62.98  E-value: 8.22e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560  16 KSRIQVFEILNQNPQGLSAVSIYAQIKNEH-KITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCNLICLKTA 94
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGpSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHHHHLICTKCG 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 490930560  95 EATSYEHEKVKELLHEVIdvifANTGTNISSIELNLY 131
Cdd:cd07153   81 KVIDFEDCPLEELLEELA----AKTGFKITSHRLELY 113
 
Name Accession Description Interval E-value
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 16-131 8.22e-14

Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions. For example, PerR, a metal-dependent sensor of hydrogen peroxide. PerR regulates DNA-binding activity through metal-based protein oxidation, and co-ordinates Mn2+ or Fe2+ at its regulatory site. Fur family proteins contain an N-terminal winged-helix DNA-binding domain followed by a dimerization domain; this CD spans both those domains.


Pssm-ID: 133478 [Multi-domain]  Cd Length: 116  Bit Score: 62.98  E-value: 8.22e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560  16 KSRIQVFEILNQNPQGLSAVSIYAQIKNEH-KITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCNLICLKTA 94
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGpSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHHHHLICTKCG 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 490930560  95 EATSYEHEKVKELLHEVIdvifANTGTNISSIELNLY 131
Cdd:cd07153   81 KVIDFEDCPLEELLEELA----AKTGFKITSHRLELY 113
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
18-131 3.65e-13

Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];


Pssm-ID: 440498  Cd Length: 140  Bit Score: 61.89  E-value: 3.65e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560  18 RIQVFEILNQNPQGLSAVSIYAQIKNEH-KITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCNLICLKTAEA 96
Cdd:COG0735   22 RLAILELLLESDRHLSAEEIYEALRKKGpSISLATVYRTLDLLVEAGLVHRIEFGGGKARYELNEGDHHHHLICTKCGKV 101

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 490930560  97 TSYEHEKVKELLHEVIdvifANTGTNISSIELNLY 131
Cdd:COG0735  102 IELDDDEIEELLEELA----EPHGFEIESHELEIY 132
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 10-131 3.21e-12

Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that bind to the operator DNA and controls transcription of metal ion-responsive genes. This family is also known as the FUR family.


Pssm-ID: 426280  Cd Length: 121  Bit Score: 58.79  E-value: 3.21e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560   10 NGLPIKKSRIQVFEILNQNPQG-LSAVSIYAQIKNEHK-ITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCN 87
Cdd:pfam01475   2 AGLKLTPQRLKILEVLQKSDKEhLSAEEIYKELREEDPnISLATVYRTLNLLEEAGLVKRLEFDGGESRFELNTGHHHDH 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 490930560   88 LICLKTAEATSYEHEKVKELLHEvidvIFANTGTNISSIELNLY 131
Cdd:pfam01475  82 LICEDCGKVIEFKDDEIEKRQEE----IAKKHGFKLVSHRLELY 121
fur PRK09462
ferric uptake regulator; Provisional
 1-111 6.57e-07

ferric uptake regulator; Provisional


Pssm-ID: 236527  Cd Length: 148  Bit Score: 45.49  E-value: 6.57e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560   1 MTATSKSLLN-GLPIKKSRIQVFEILnQNP--QGLSAVSIYAQ-IKNEHKITLGTIYRILSEFENRKLIKRVFLGKSKSI 76
Cdd:PRK09462   1 MTDNNTALKKaGLKVTLPRLKILEVL-QEPdnHHVSAEDLYKRlIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSV 79

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 490930560  77 YKLRKDKMSCNLICLKTAEATSYEHEKVKELLHEV 111
Cdd:PRK09462  80 FELTQQHHHDHLICLDCGKVIEFSDDSIEARQREI 114
 
Name Accession Description Interval E-value
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 16-131 8.22e-14

Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions. For example, PerR, a metal-dependent sensor of hydrogen peroxide. PerR regulates DNA-binding activity through metal-based protein oxidation, and co-ordinates Mn2+ or Fe2+ at its regulatory site. Fur family proteins contain an N-terminal winged-helix DNA-binding domain followed by a dimerization domain; this CD spans both those domains.


Pssm-ID: 133478 [Multi-domain]  Cd Length: 116  Bit Score: 62.98  E-value: 8.22e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560  16 KSRIQVFEILNQNPQGLSAVSIYAQIKNEH-KITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCNLICLKTA 94
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGpSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHHHHLICTKCG 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 490930560  95 EATSYEHEKVKELLHEVIdvifANTGTNISSIELNLY 131
Cdd:cd07153   81 KVIDFEDCPLEELLEELA----AKTGFKITSHRLELY 113
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
18-131 3.65e-13

Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];


Pssm-ID: 440498  Cd Length: 140  Bit Score: 61.89  E-value: 3.65e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560  18 RIQVFEILNQNPQGLSAVSIYAQIKNEH-KITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCNLICLKTAEA 96
Cdd:COG0735   22 RLAILELLLESDRHLSAEEIYEALRKKGpSISLATVYRTLDLLVEAGLVHRIEFGGGKARYELNEGDHHHHLICTKCGKV 101

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 490930560  97 TSYEHEKVKELLHEVIdvifANTGTNISSIELNLY 131
Cdd:COG0735  102 IELDDDEIEELLEELA----EPHGFEIESHELEIY 132
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 10-131 3.21e-12

Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that bind to the operator DNA and controls transcription of metal ion-responsive genes. This family is also known as the FUR family.


Pssm-ID: 426280  Cd Length: 121  Bit Score: 58.79  E-value: 3.21e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560   10 NGLPIKKSRIQVFEILNQNPQG-LSAVSIYAQIKNEHK-ITLGTIYRILSEFENRKLIKRVFLGKSKSIYKLRKDKMSCN 87
Cdd:pfam01475   2 AGLKLTPQRLKILEVLQKSDKEhLSAEEIYKELREEDPnISLATVYRTLNLLEEAGLVKRLEFDGGESRFELNTGHHHDH 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 490930560   88 LICLKTAEATSYEHEKVKELLHEvidvIFANTGTNISSIELNLY 131
Cdd:pfam01475  82 LICEDCGKVIEFKDDEIEKRQEE----IAKKHGFKLVSHRLELY 121
fur PRK09462
ferric uptake regulator; Provisional
 1-111 6.57e-07

ferric uptake regulator; Provisional


Pssm-ID: 236527  Cd Length: 148  Bit Score: 45.49  E-value: 6.57e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490930560   1 MTATSKSLLN-GLPIKKSRIQVFEILnQNP--QGLSAVSIYAQ-IKNEHKITLGTIYRILSEFENRKLIKRVFLGKSKSI 76
Cdd:PRK09462   1 MTDNNTALKKaGLKVTLPRLKILEVL-QEPdnHHVSAEDLYKRlIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSV 79

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 490930560  77 YKLRKDKMSCNLICLKTAEATSYEHEKVKELLHEV 111
Cdd:PRK09462  80 FELTQQHHHDHLICLDCGKVIEFSDDSIEARQREI 114
 
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