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Conserved domains on  [gi|446708715|ref|WP_000786061|]
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MULTISPECIES: TraR/DksA C4-type zinc finger protein [Enterobacteriaceae]

Protein Classification

TraR/DksA C4-type zinc finger protein( domain architecture ID 3397)

TraR/DksA C4-type zinc finger protein may function as a transcriptional regulator

CATH:  1.10.287.3960
Gene Ontology:  GO:0008270
PubMed:  15294157
SCOP:  4003090

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-dskA_traR super family cl00755
Prokaryotic dksA/traR C4-type zinc finger;
20-70 1.78e-11

Prokaryotic dksA/traR C4-type zinc finger;


The actual alignment was detected with superfamily member PRK11019:

Pssm-ID: 445081  Cd Length: 88  Bit Score: 54.11  E-value: 1.78e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 446708715 20 IQAVRQQLSvKGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLEIREK 70
Cdd:PRK11019 23 IARARSELP-RGESLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQA 72
 
Name Accession Description Interval E-value
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
20-70 1.78e-11

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 54.11  E-value: 1.78e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 446708715 20 IQAVRQQLSvKGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLEIREK 70
Cdd:PRK11019 23 IARARSELP-RGESLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQA 72
C4_traR_proteo TIGR02419
phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are ...
 3-66 5.11e-08

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: 44.69  E-value: 5.11e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446708715   3 DVLDQLQEQEDLIHRLHIQAVRQQlSVKGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLE 66
Cdd:TIGR02419  1 DEFDRAQELEEELLERALAAARAK-KVIGPSLRECEDCGEPIPEARREALPGVTRCVSCQEILE 63
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
33-66 9.03e-04

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 33.41  E-value: 9.03e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 446708715  33 SLTRCECCGNRIQERRQNAIPGVRTCTECQRVLE 66
Cdd:pfam01258  2 SYGSCEDCGEPIPEARLRAVPGARLCIECQEKYE 35
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
36-70 3.41e-03

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 33.34  E-value: 3.41e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 446708715  36 RCECCGNRIQERRQNAIPGVRTCTECQRVLEIREK 70
Cdd:COG1734   84 ICEECGEPIPLERLEARPTATLCIECKERQERRER 118
 
Name Accession Description Interval E-value
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
20-70 1.78e-11

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 54.11  E-value: 1.78e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 446708715 20 IQAVRQQLSvKGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLEIREK 70
Cdd:PRK11019 23 IARARSELP-RGESLTECEECGEPIPEARRKAIPGVRLCVACQQEKDLQQA 72
PHA00080 PHA00080
DksA-like zinc finger domain containing protein
 2-74 1.15e-10

DksA-like zinc finger domain containing protein


Pssm-ID: 222775  Cd Length: 72  Bit Score: 51.68  E-value: 1.15e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446708715  2 ADVLDQLQEQEDLIHRLHIQAVRQQLSvkGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLEirEKNYQR 74
Cdd:PHA00080  1 ADIIDRAAEIEELQRERALANRRNKYQ--APSATHCEECGDPIPEARREAVPGCRTCVSCQEILE--LKSYQR 69
PRK13715 PRK13715
conjugal transfer protein TraR; Provisional
 1-73 5.26e-10

conjugal transfer protein TraR; Provisional


Pssm-ID: 184270  Cd Length: 73  Bit Score: 49.98  E-value: 5.26e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446708715  1 MADVLDQLQEQEDLIHRLHIQAVRQQLSVKGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLEIREKNYQ 73
Cdd:PRK13715  1 MSDEADEAYSVTEQLTMTGINRIRQKINAHGIPVYLCEACGNPIPEARRKIFPGVTLCVECQAYQERQRKHYA 73
C4_traR_proteo TIGR02419
phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Members of this family are ...
 3-66 5.11e-08

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: 44.69  E-value: 5.11e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446708715   3 DVLDQLQEQEDLIHRLHIQAVRQQlSVKGESLTRCECCGNRIQERRQNAIPGVRTCTECQRVLE 66
Cdd:TIGR02419  1 DEFDRAQELEEELLERALAAARAK-KVIGPSLRECEDCGEPIPEARREALPGVTRCVSCQEILE 63
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
33-66 9.03e-04

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 33.41  E-value: 9.03e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 446708715  33 SLTRCECCGNRIQERRQNAIPGVRTCTECQRVLE 66
Cdd:pfam01258  2 SYGSCEDCGEPIPEARLRAVPGARLCIECQEKYE 35
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
36-70 3.41e-03

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 33.34  E-value: 3.41e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 446708715  36 RCECCGNRIQERRQNAIPGVRTCTECQRVLEIREK 70
Cdd:COG1734   84 ICEECGEPIPLERLEARPTATLCIECKERQERRER 118
 
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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