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Conserved domains on  [gi|488985039|ref|WP_002895824|]
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MULTISPECIES: DksA/TraR family C4-type zinc finger protein [Enterobacteriaceae]

Protein Classification

TraR/DksA family transcriptional regulator( domain architecture ID 10013706)

TraR/DksA family transcriptional regulator similar to Escherichia coli YbiI

Gene Ontology:  GO:0008270

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
1-88 3.66e-62

DksA/TraR family C4-type zinc finger protein;


:

Pssm-ID: 182903  Cd Length: 88  Bit Score: 182.76  E-value: 3.66e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488985039  1 MASGWAGDGAVQDQIDSTIDDAVARARRELPRGESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEKDLHNNTFSGYNRR 80
Cdd:PRK11019  1 MASGWANDGAVQEQIDATVEDAIARARSELPRGESLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQAAFSGYNRR 80


                ....*...
gi 488985039 81 GSKDSQLR 88
Cdd:PRK11019 81 GSKDSQLR 88
 
Name Accession Description Interval E-value
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
1-88 3.66e-62

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 182.76  E-value: 3.66e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488985039  1 MASGWAGDGAVQDQIDSTIDDAVARARRELPRGESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEKDLHNNTFSGYNRR 80
Cdd:PRK11019  1 MASGWANDGAVQEQIDATVEDAIARARSELPRGESLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQAAFSGYNRR 80


                ....*...
gi 488985039 81 GSKDSQLR 88
Cdd:PRK11019 81 GSKDSQLR 88
C4_traR_proteo TIGR02419
phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are ...
 12-67 8.59e-14

phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are putative C4-type zinc finger proteins found almost exclusively in prophage regions, actual phage, or conjugal transfer regions of the Proteobactia. This small protein (about 70 amino acids) appears homologous to but is smaller than DksA (DnaK suppressor protein), found to be critical for regulating transcription of ribosomal RNA. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 274123  Cd Length: 63  Bit Score: 59.72  E-value: 8.59e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 488985039  12 QDQIDSTIDDAVARARRELPRGESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEK 67
Cdd:TIGR02419  7 QELEEELLERALAAARAKKVIGPSLRECEDCGEPIPEARREALPGVTRCVSCQEIL 62
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
38-68 5.52e-11

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 51.90  E-value: 5.52e-11
                         10        20        30
                 ....*....|....*....|....*....|.
gi 488985039  38 FCDECGEPIPEARRQAIPGVRYCVKCQQEKD 68
Cdd:pfam01258  5 SCEDCGEPIPEARLRAVPGARLCIECQEKYE 35
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
38-68 1.03e-07

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 45.67  E-value: 1.03e-07
                         10        20        30
                 ....*....|....*....|....*....|.
gi 488985039  38 FCDECGEPIPEARRQAIPGVRYCVKCQQEKD 68
Cdd:COG1734   84 ICEECGEPIPLERLEARPTATLCIECKERQE 114
 
Name Accession Description Interval E-value
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
1-88 3.66e-62

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 182.76  E-value: 3.66e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488985039  1 MASGWAGDGAVQDQIDSTIDDAVARARRELPRGESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEKDLHNNTFSGYNRR 80
Cdd:PRK11019  1 MASGWANDGAVQEQIDATVEDAIARARSELPRGESLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQAAFSGYNRR 80


                ....*...
gi 488985039 81 GSKDSQLR 88
Cdd:PRK11019 81 GSKDSQLR 88
C4_traR_proteo TIGR02419
phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are ...
 12-67 8.59e-14

phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are putative C4-type zinc finger proteins found almost exclusively in prophage regions, actual phage, or conjugal transfer regions of the Proteobactia. This small protein (about 70 amino acids) appears homologous to but is smaller than DksA (DnaK suppressor protein), found to be critical for regulating transcription of ribosomal RNA. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 274123  Cd Length: 63  Bit Score: 59.72  E-value: 8.59e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 488985039  12 QDQIDSTIDDAVARARRELPRGESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEK 67
Cdd:TIGR02419  7 QELEEELLERALAAARAKKVIGPSLRECEDCGEPIPEARREALPGVTRCVSCQEIL 62
PHA00080 PHA00080
DksA-like zinc finger domain containing protein
 19-71 2.45e-13

DksA-like zinc finger domain containing protein


Pssm-ID: 222775  Cd Length: 72  Bit Score: 59.00  E-value: 2.45e-13
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 488985039 19 IDDAVARARRELPR----------GESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEKDLHN 71
Cdd:PHA00080  4 IDRAAEIEELQRERalanrrnkyqAPSATHCEECGDPIPEARREAVPGCRTCVSCQEILELKS 66
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
38-68 5.52e-11

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 51.90  E-value: 5.52e-11
                         10        20        30
                 ....*....|....*....|....*....|.
gi 488985039  38 FCDECGEPIPEARRQAIPGVRYCVKCQQEKD 68
Cdd:pfam01258  5 SCEDCGEPIPEARLRAVPGARLCIECQEKYE 35
PRK13715 PRK13715
conjugal transfer protein TraR; Provisional
 10-67 1.60e-08

conjugal transfer protein TraR; Provisional


Pssm-ID: 184270  Cd Length: 73  Bit Score: 46.90  E-value: 1.60e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488985039 10 AVQDQIDSTiddAVARARRELPR-GESNKFCDECGEPIPEARRQAIPGVRYCVKCQ--QEK 67
Cdd:PRK13715 10 SVTEQLTMT---GINRIRQKINAhGIPVYLCEACGNPIPEARRKIFPGVTLCVECQayQER 67
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 39-72 4.00e-08

regulatory protein, yteA family; Members of this predicted regulatory protein are found only in endospore-forming members of the Firmicutes group of bacteria, and in nearly every such species; Clostridium perfringens seems to be an exception. The member from Bacillus subtilis, the model system for the study of the sporulation program, has been designated both yteA and yzwB. Some (but not all) members of this family show a strong sequence match to Pfam family pfam01258 the C4-type zinc finger protein, DksA/TraR family, but only one of the four key Cys residues is conserved. All members of this protein family share an additional C-terminal domain. Smaller proteins from the proteobacteria with just the N-terminal domain, including DksA and DksA2 are RNA polymerase-binding regulatory proteins even if the Zn-binding site is not conserved. [Unknown function, General]


Pssm-ID: 274340  Cd Length: 159  Bit Score: 47.34  E-value: 4.00e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 488985039   39 CDECGEPIPEARRQAIPGVRYCVKCQQEKDLHNN 72
Cdd:TIGR02890  89 CEVCGKPIPYERLEAIPTATTCVECQNRKEVKND 122
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
38-68 1.03e-07

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 45.67  E-value: 1.03e-07
                         10        20        30
                 ....*....|....*....|....*....|.
gi 488985039  38 FCDECGEPIPEARRQAIPGVRYCVKCQQEKD 68
Cdd:COG1734   84 ICEECGEPIPLERLEARPTATLCIECKERQE 114
FwdE COG2191
Formylmethanofuran dehydrogenase subunit E [Energy production and conversion];
31-67 4.19e-03

Formylmethanofuran dehydrogenase subunit E [Energy production and conversion];


Pssm-ID: 441794 [Multi-domain]  Cd Length: 192  Bit Score: 34.09  E-value: 4.19e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 488985039  31 PRGESNKFCDECGEPIPEARRQAIPGVRYCVKCQQEK 67
Cdd:COG2191  154 ARIFESVICEVCGEPVMESRARLKDGKIVCIPCAGGK 190
 
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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