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Conserved domains on  [gi|506316231|ref|WP_015836006|]
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MULTISPECIES: zinc uptake transcriptional repressor Zur [Photorhabdus]

Protein Classification

transcriptional repressor( domain architecture ID 10793600)

transcriptional repressor such as ferric uptake regulators, iron-dependent, DNA-binding repressors and activators involved in iron metabolism, other metalloregulatory proteins, or the peroxide-responsive repressor PerR

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
1-169 5.58e-119

zinc uptake transcriptional repressor Zur;


:

Pssm-ID: 183251  Cd Length: 169  Bit Score: 332.88  E-value: 5.58e-119
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   1 MELINQKKLLEQAETICQARGVRLTPQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIE 80
Cdd:PRK11639   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231  81 STNSYVLCHHIEHPSHTSAMFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLCSPCEEIESCTERDECQH 160
Cdd:PRK11639  81 STNSYVLCHLFDQPTHTSAMFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCAACVEVEACRHPDQCQH 160


                 ....*....
gi 506316231 161 DHNIQLKKK 169
Cdd:PRK11639 161 DHSVQVKKK 169
 
Name Accession Description Interval E-value
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
1-169 5.58e-119

zinc uptake transcriptional repressor Zur;


Pssm-ID: 183251  Cd Length: 169  Bit Score: 332.88  E-value: 5.58e-119
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   1 MELINQKKLLEQAETICQARGVRLTPQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIE 80
Cdd:PRK11639   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231  81 STNSYVLCHHIEHPSHTSAMFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLCSPCEEIESCTERDECQH 160
Cdd:PRK11639  81 STNSYVLCHLFDQPTHTSAMFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCAACVEVEACRHPDQCQH 160


                 ....*....
gi 506316231 161 DHNIQLKKK 169
Cdd:PRK11639 161 DHSVQVKKK 169
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
8-148 1.37e-42

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


Pssm-ID: 440498  Cd Length: 140  Bit Score: 138.55  E-value: 1.37e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   8 KLLEQAETICQARGVRLTPQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIESTNS--- 84
Cdd:COG0735    2 EALEEAEELLREAGLRLTPQRLAILELLLESDRHLSAEEIYEALRKKGPSISLATVYRTLDLLVEAGLVHRIEFGGGkar 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 506316231  85 YVLCHHIEHPsHtsamFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLCSPCEE 148
Cdd:COG0735   82 YELNEGDHHH-H----LICTKCGKVIELDDDEIEELLEELAEPHGFEIESHELEIYGLCPDCQK 140
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 26-143 2.06e-23

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: 88.79  E-value: 2.06e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231  26 PQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIESTNS---YVLCHHIEHpSHtsamFI 102
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGkarYELNTDEHH-HH----LI 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 506316231 103 CDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLC 143
Cdd:cd07153   76 CTKCGKVIDFEDCPLEELLEELAAKTGFKITSHRLELYGIC 116
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 20-140 8.03e-10

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: 53.79  E-value: 8.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   20 RGVRLTPQRLEVLRLISEQPGA-ISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIESTNS-----YVLCHHIEH 93
Cdd:pfam01475   2 AGLKLTPQRLKILEVLQKSDKEhLSAEEIYKELREEDPNISLATVYRTLNLLEEAGLVKRLEFDGGesrfeLNTGHHHDH 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 506316231   94 pshtsamFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAH 140
Cdd:pfam01475  82 -------LICEDCGKVIEFKDDEIEKRQEEIAKKHGFKLVSHRLELY 121
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
24-83 1.56e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 36.42  E-value: 1.56e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231    24 LTPQRLEVLRLISEQPGaISAYDLLDLLraaepQAKPPTIYRALEFLLEQGFIHKIESTN 83
Cdd:smart00347   8 LTPTQFLVLRILYEEGP-LSVSELAKRL-----GVSPSTVTRVLDRLEKKGLVRREPSPE 61
 
Name Accession Description Interval E-value
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
1-169 5.58e-119

zinc uptake transcriptional repressor Zur;


Pssm-ID: 183251  Cd Length: 169  Bit Score: 332.88  E-value: 5.58e-119
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   1 MELINQKKLLEQAETICQARGVRLTPQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIE 80
Cdd:PRK11639   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231  81 STNSYVLCHHIEHPSHTSAMFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLCSPCEEIESCTERDECQH 160
Cdd:PRK11639  81 STNSYVLCHLFDQPTHTSAMFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCAACVEVEACRHPDQCQH 160


                 ....*....
gi 506316231 161 DHNIQLKKK 169
Cdd:PRK11639 161 DHSVQVKKK 169
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
8-148 1.37e-42

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


Pssm-ID: 440498  Cd Length: 140  Bit Score: 138.55  E-value: 1.37e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   8 KLLEQAETICQARGVRLTPQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIESTNS--- 84
Cdd:COG0735    2 EALEEAEELLREAGLRLTPQRLAILELLLESDRHLSAEEIYEALRKKGPSISLATVYRTLDLLVEAGLVHRIEFGGGkar 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 506316231  85 YVLCHHIEHPsHtsamFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLCSPCEE 148
Cdd:COG0735   82 YELNEGDHHH-H----LICTKCGKVIELDDDEIEELLEELAEPHGFEIESHELEIYGLCPDCQK 140
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 26-143 2.06e-23

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: 88.79  E-value: 2.06e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231  26 PQRLEVLRLISEQPGAISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIESTNS---YVLCHHIEHpSHtsamFI 102
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGkarYELNTDEHH-HH----LI 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 506316231 103 CDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAHGLC 143
Cdd:cd07153   76 CTKCGKVIDFEDCPLEELLEELAAKTGFKITSHRLELYGIC 116
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 20-140 8.03e-10

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: 53.79  E-value: 8.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231   20 RGVRLTPQRLEVLRLISEQPGA-ISAYDLLDLLRAAEPQAKPPTIYRALEFLLEQGFIHKIESTNS-----YVLCHHIEH 93
Cdd:pfam01475   2 AGLKLTPQRLKILEVLQKSDKEhLSAEEIYKELREEDPNISLATVYRTLNLLEEAGLVKRLEFDGGesrfeLNTGHHHDH 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 506316231   94 pshtsamFICDRCGSVSERDGVAIESAIQQLAKTAGFNLRHTVIEAH 140
Cdd:pfam01475  82 -------LICEDCGKVIEFKDDEIEKRQEEIAKKHGFKLVSHRLELY 121
PRK09834 PRK09834
DNA-binding transcriptional regulator;
18-87 3.37e-04

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 39.59  E-value: 3.37e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 506316231  18 QARGVRLTPQRLEVLRLISEQPGAISAYDL---LDLLRaaepqakpPTIYRALEFLLEQGFIHKIESTNSYVL 87
Cdd:PRK09834   3 EYKTVRGLSRGLMVLRALNRLDGGATVGLLaelTGLHR--------TTVRRLLETLQEEGYVRRSASDDSFRL 67
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
24-83 1.56e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 36.42  E-value: 1.56e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 506316231    24 LTPQRLEVLRLISEQPGaISAYDLLDLLraaepQAKPPTIYRALEFLLEQGFIHKIESTN 83
Cdd:smart00347   8 LTPTQFLVLRILYEEGP-LSVSELAKRL-----GVSPSTVTRVLDRLEKKGLVRREPSPE 61
PadR COG1695
DNA-binding transcriptional regulator, PadR family [Transcription];
23-76 1.78e-03

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


Pssm-ID: 441301  Cd Length: 102  Bit Score: 36.07  E-value: 1.78e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 506316231  23 RLTPQRLEVLRLISEQPgaISAYDLLDLLRAAEP---QAKPPTIYRALEFLLEQGFI 76
Cdd:COG1695    6 RKGTLELLILALLAEGP--MYGYEIIKELEERSGgfwKVSEGTLYPALKRLEKEGLV 60
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
29-87 5.48e-03

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 34.48  E-value: 5.48e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 506316231    29 LEVLRLISEQPGAISAYDLLDLLRAAEPqakppTIYRALEFLLEQGFIHKIESTNSYVL 87
Cdd:smart00346   8 LAVLRALAEEPGGLTLAELAERLGLSKS-----TAHRLLNTLQELGYVEQDGQNGRYRL 61
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
29-87 6.52e-03

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


Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 35.95  E-value: 6.52e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 506316231  29 LEVLRLISEQPGAISAYDLLDLLRAAepqakPPTIYRALEFLLEQGFIHKIESTNSYVL 87
Cdd:COG1414   12 LAILEALAEAGGGLSLSELARRLGLP-----KSTVHRLLATLEEEGYVERDPEGGRYRL 65
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
26-87 8.12e-03

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 35.64  E-value: 8.12e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506316231  26 PQRLEVLRLISEQPGAISayDLLDLLRAAepqakPPTIYRALEFLLEQGFIHKIESTnsYVL 87
Cdd:COG4742   16 EKRKNILLLLAEGPKTRS--ELAESLDVS-----RSTILRQLKELEERGLIERDDGE--YEL 68
 
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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