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Conserved domains on  [gi|491993551|ref|WP_005710622|]
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ferric iron uptake transcriptional regulator [Glaesserella parasuis]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 229396)

helix-turn-helix domain-containing protein may bind DNA and be involved in the regulation of gene expression

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
HTH_CRP super family cl46859
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 1-148 3.53e-66

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


The actual alignment was detected with superfamily member PRK09462:

Pssm-ID: 481199  Cd Length: 148  Bit Score: 197.65  E-value: 3.53e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   1 MSEENvKLLKKVGLKVTGPRLTILELMQitRDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANK 80
Cdd:PRK09462   1 MTDNN-TALKKAGLKVTLPRLKILEVLQ--EPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGK 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491993551  81 AVYELNMNHQHDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKCSNiQKCDEKDKK 148
Cdd:PRK09462  78 SVFELTQQHHHDHLICLDCGKVIEFSDDSIEARQREIAAKHGIKLTNHSLYLYGHCAE-GDCREDEHA 144
 
Name Accession Description Interval E-value
fur PRK09462
ferric uptake regulator; Provisional
 1-148 3.53e-66

ferric uptake regulator; Provisional


Pssm-ID: 236527  Cd Length: 148  Bit Score: 197.65  E-value: 3.53e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   1 MSEENvKLLKKVGLKVTGPRLTILELMQitRDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANK 80
Cdd:PRK09462   1 MTDNN-TALKKAGLKVTLPRLKILEVLQ--EPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGK 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491993551  81 AVYELNMNHQHDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKCSNiQKCDEKDKK 148
Cdd:PRK09462  78 SVFELTQQHHHDHLICLDCGKVIEFSDDSIEARQREIAAKHGIKLTNHSLYLYGHCAE-GDCREDEHA 144
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 11-133 9.64e-52

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: 160.10  E-value: 9.64e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   11 KVGLKVTGPRLTILELMQITRDsmQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANKAVYELNMNHQ 90
Cdd:pfam01475   1 EAGLKLTPQRLKILEVLQKSDK--EHLSAEEIYKELREEDPNISLATVYRTLNLLEEAGLVKRLEFDGGESRFELNTGHH 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 491993551   91 HDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLY 133
Cdd:pfam01475  79 HDHLICEDCGKVIEFKDDEIEKRQEEIAKKHGFKLVSHRLELY 121
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
3-141 1.38e-50

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


Pssm-ID: 440498  Cd Length: 140  Bit Score: 158.19  E-value: 1.38e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   3 EENVKLLKKVGLKVTGPRLTILELMQitrDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANKAV 82
Cdd:COG0735    5 EEAEELLREAGLRLTPQRLAILELLL---ESDRHLSAEEIYEALRKKGPSISLATVYRTLDLLVEAGLVHRIEFGGGKAR 81

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 491993551  83 YELNMNHQHDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKCSNIQK 141
Cdd:COG0735   82 YELNEGDHHHHLICTKCGKVIELDDDEIEELLEELAEPHGFEIESHELEIYGLCPDCQK 140
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 19-136 3.72e-42

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: 135.78  E-value: 3.72e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551  19 PRLTILELMQitrDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANKAVYELNMNHQHDHIICMD 98
Cdd:cd07153    2 QRLAILEVLL---ESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHHHHLICTK 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 491993551  99 CGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKC 136
Cdd:cd07153   79 CGKVIDFEDCPLEELLEELAAKTGFKITSHRLELYGIC 116
 
Name Accession Description Interval E-value
fur PRK09462
ferric uptake regulator; Provisional
 1-148 3.53e-66

ferric uptake regulator; Provisional


Pssm-ID: 236527  Cd Length: 148  Bit Score: 197.65  E-value: 3.53e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   1 MSEENvKLLKKVGLKVTGPRLTILELMQitRDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANK 80
Cdd:PRK09462   1 MTDNN-TALKKAGLKVTLPRLKILEVLQ--EPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGK 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491993551  81 AVYELNMNHQHDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKCSNiQKCDEKDKK 148
Cdd:PRK09462  78 SVFELTQQHHHDHLICLDCGKVIEFSDDSIEARQREIAAKHGIKLTNHSLYLYGHCAE-GDCREDEHA 144
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 11-133 9.64e-52

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: 160.10  E-value: 9.64e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   11 KVGLKVTGPRLTILELMQITRDsmQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANKAVYELNMNHQ 90
Cdd:pfam01475   1 EAGLKLTPQRLKILEVLQKSDK--EHLSAEEIYKELREEDPNISLATVYRTLNLLEEAGLVKRLEFDGGESRFELNTGHH 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 491993551   91 HDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLY 133
Cdd:pfam01475  79 HDHLICEDCGKVIEFKDDEIEKRQEEIAKKHGFKLVSHRLELY 121
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
3-141 1.38e-50

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


Pssm-ID: 440498  Cd Length: 140  Bit Score: 158.19  E-value: 1.38e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   3 EENVKLLKKVGLKVTGPRLTILELMQitrDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANKAV 82
Cdd:COG0735    5 EEAEELLREAGLRLTPQRLAILELLL---ESDRHLSAEEIYEALRKKGPSISLATVYRTLDLLVEAGLVHRIEFGGGKAR 81

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 491993551  83 YELNMNHQHDHIICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKCSNIQK 141
Cdd:COG0735   82 YELNEGDHHHHLICTKCGKVIELDDDEIEELLEELAEPHGFEIESHELEIYGLCPDCQK 140
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 19-136 3.72e-42

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: 135.78  E-value: 3.72e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551  19 PRLTILELMQitrDSMQHFSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILTRHNFDANKAVYELNMNHQHDHIICMD 98
Cdd:cd07153    2 QRLAILEVLL---ESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHHHHLICTK 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 491993551  99 CGKVFEFKDSEIERRQREISQQHGIELANHSLYLYGKC 136
Cdd:cd07153   79 CGKVIDFEDCPLEELLEELAAKTGFKITSHRLELYGIC 116
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
7-146 3.42e-05

zinc uptake transcriptional repressor Zur;


Pssm-ID: 183251  Cd Length: 169  Bit Score: 41.67  E-value: 3.42e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491993551   7 KLLKKVGLKVTGPRLTILELMQITRDSMqhfSAEDIYKLLLERQSEIGLATVYRVLNQFEEVGILtrHNFDANKAVYELN 86
Cdd:PRK11639  15 KLCAQRNVRLTPQRLEVLRLMSLQPGAI---SAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFV--HKVESTNSYVLCH 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 491993551  87 MNHQHDH----IICMDCGKVFEFKDSEIERRQREISQQHGIELANHSLYLYG---KCSNIQKCDEKD 146
Cdd:PRK11639  90 LFDQPTHtsamFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGlcaACVEVEACRHPD 156
 
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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