NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|493869660|ref|WP_006816224|]
View 

MULTISPECIES: TraR/DksA family transcriptional regulator [Providencia]

Protein Classification

TraR/DksA family transcriptional regulator( domain architecture ID 10009661)

TraR/DksA family transcriptional regulator similar to Escherichia virus uncharacterized 8.5 kDa protein in gpA 5'region

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PHA00080 PHA00080
DksA-like zinc finger domain containing protein
 5-69 5.91e-20

DksA-like zinc finger domain containing protein


:

Pssm-ID: 222775  Cd Length: 72  Bit Score: 75.17  E-value: 5.91e-20
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 493869660  5 IDRASEHEMLMREQQIKAVTSRVVSASAFECEDCDKPIPEQRRIASMGCTRCVDCQAIFELKSKH 69
Cdd:PHA00080  4 IDRAAEIEELQRERALANRRNKYQAPSATHCEECGDPIPEARREAVPGCRTCVSCQEILELKSYQ 68
 
Name Accession Description Interval E-value
PHA00080 PHA00080
DksA-like zinc finger domain containing protein
 5-69 5.91e-20

DksA-like zinc finger domain containing protein


Pssm-ID: 222775  Cd Length: 72  Bit Score: 75.17  E-value: 5.91e-20
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 493869660  5 IDRASEHEMLMREQQIKAVTSRVVSASAFECEDCDKPIPEQRRIASMGCTRCVDCQAIFELKSKH 69
Cdd:PHA00080  4 IDRAAEIEELQRERALANRRNKYQAPSATHCEECGDPIPEARREAVPGCRTCVSCQEILELKSYQ 68
C4_traR_proteo TIGR02419
phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are ...
 4-64 9.66e-16

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: 64.34  E-value: 9.66e-16
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 493869660   4 EIDRASEHEMLMREQQIKAVTSR-VVSASAFECEDCDKPIPEQRRIASMGCTRCVDCQAIFE 64
Cdd:TIGR02419  2 EFDRAQELEEELLERALAAARAKkVIGPSLRECEDCGEPIPEARREALPGVTRCVSCQEILE 63
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
35-64 2.69e-06

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 39.58  E-value: 2.69e-06
                         10        20        30
                 ....*....|....*....|....*....|
gi 493869660  35 CEDCDKPIPEQRRIASMGCTRCVDCQAIFE 64
Cdd:pfam01258  6 CEDCGEPIPEARLRAVPGARLCIECQEKYE 35
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
35-69 9.75e-03

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 32.18  E-value: 9.75e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 493869660  35 CEDCDKPIPEQR---R-IAsmgcTRCVDCQAIFELKSKH 69
Cdd:COG1734   85 CEECGEPIPLERleaRpTA----TLCIECKERQERRERR 119
 
Name Accession Description Interval E-value
PHA00080 PHA00080
DksA-like zinc finger domain containing protein
 5-69 5.91e-20

DksA-like zinc finger domain containing protein


Pssm-ID: 222775  Cd Length: 72  Bit Score: 75.17  E-value: 5.91e-20
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 493869660  5 IDRASEHEMLMREQQIKAVTSRVVSASAFECEDCDKPIPEQRRIASMGCTRCVDCQAIFELKSKH 69
Cdd:PHA00080  4 IDRAAEIEELQRERALANRRNKYQAPSATHCEECGDPIPEARREAVPGCRTCVSCQEILELKSYQ 68
C4_traR_proteo TIGR02419
phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are ...
 4-64 9.66e-16

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: 64.34  E-value: 9.66e-16
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 493869660   4 EIDRASEHEMLMREQQIKAVTSR-VVSASAFECEDCDKPIPEQRRIASMGCTRCVDCQAIFE 64
Cdd:TIGR02419  2 EFDRAQELEEELLERALAAARAKkVIGPSLRECEDCGEPIPEARREALPGVTRCVSCQEILE 63
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
31-68 3.65e-08

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 45.63  E-value: 3.65e-08
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 493869660 31 SAFECEDCDKPIPEQRRIASMGCTRCVDCQAIFELKSK 68
Cdd:PRK11019 35 SLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQA 72
PRK13715 PRK13715
conjugal transfer protein TraR; Provisional
 33-70 3.73e-07

conjugal transfer protein TraR; Provisional


Pssm-ID: 184270  Cd Length: 73  Bit Score: 42.66  E-value: 3.73e-07
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 493869660 33 FECEDCDKPIPEQRRIASMGCTRCVDCQAIFELKSKHY 70
Cdd:PRK13715 35 YLCEACGNPIPEARRKIFPGVTLCVECQAYQERQRKHY 72
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
35-64 2.69e-06

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 39.58  E-value: 2.69e-06
                         10        20        30
                 ....*....|....*....|....*....|
gi 493869660  35 CEDCDKPIPEQRRIASMGCTRCVDCQAIFE 64
Cdd:pfam01258  6 CEDCGEPIPEARLRAVPGARLCIECQEKYE 35
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
35-69 9.75e-03

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 32.18  E-value: 9.75e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 493869660  35 CEDCDKPIPEQR---R-IAsmgcTRCVDCQAIFELKSKH 69
Cdd:COG1734   85 CEECGEPIPLERleaRpTA----TLCIECKERQERRERR 119
 
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