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Conserved domains on  [gi|503319333|ref|WP_013553994|]
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TraR/DksA C4-type zinc finger protein [Nitratifractor salsuginis]

Protein Classification

TraR/DksA family transcriptional regulator( domain architecture ID 10004441)

TraR/DksA family transcriptional regulator similar to Bacillus subtilis general stress protein 16O (GSP16O) and Agrobacterium tumefaciens DnaK suppressor protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
1-111 2.01e-19

RNA polymerase-binding transcription factor DksA [Transcription];


:

Pssm-ID: 441340  Cd Length: 119  Bit Score: 76.87  E-value: 2.01e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503319333   1 MTREEKIEFKKSIEREIETLSEEIERLQASL-YPERGEGPSDKVAHISFKQDQQVHIQRYNEAVKRLNRLKQAYARIDTP 79
Cdd:COG1734    1 MSDEQLEEFRERLLEEREELLEELEETEEELlSGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALERIEEG 80
                         90       100       110
                 ....*....|....*....|....*....|..
gi 503319333  80 EYGICRECEEPIPLERLRLAPESLYCVACMEE 111
Cdd:COG1734   81 TYGICEECGEPIPLERLEARPTATLCIECKER 112
 
Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
1-111 2.01e-19

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 76.87  E-value: 2.01e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503319333   1 MTREEKIEFKKSIEREIETLSEEIERLQASL-YPERGEGPSDKVAHISFKQDQQVHIQRYNEAVKRLNRLKQAYARIDTP 79
Cdd:COG1734    1 MSDEQLEEFRERLLEEREELLEELEETEEELlSGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALERIEEG 80
                         90       100       110
                 ....*....|....*....|....*....|..
gi 503319333  80 EYGICRECEEPIPLERLRLAPESLYCVACMEE 111
Cdd:COG1734   81 TYGICEECGEPIPLERLEARPTATLCIECKER 112
DksA_like NF033459
RNA polymerase-binding protein DksA;
8-110 1.21e-13

RNA polymerase-binding protein DksA;


Pssm-ID: 380301  Cd Length: 113  Bit Score: 61.86  E-value: 1.21e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503319333   8 EFKKSIEREIETLSEEIERLQASlypergeGPSDKVAHISFKQDQQVHIQRYNEAVKRLNRLKQAYARIDTPEYGICREC 87
Cdd:NF033459  12 ERKEQILKNINSSSNEIEELRNS-------ELNDEGDYASISTDSMIEYAISNQQKKELNEIEEALKKIKNGTYGICEMC 84
                         90       100
                 ....*....|....*....|...
gi 503319333  88 EEPIPLERLRLAPESLYCVACME 110
Cdd:NF033459  85 EEPIGIERLKVKPHAKYCITCRE 107
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
64-114 3.57e-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: 48.50  E-value: 3.57e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 503319333   64 KRLNRLKQAYARIDTPEYGICRECEEPIPLERLRLAPESLYCVACMEELGL 114
Cdd:TIGR02890  69 RELREIEHALQKIENGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKEV 119
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
79-108 1.23e-06

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 41.89  E-value: 1.23e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 503319333   79 PEYGICRECEEPIPLERLRLAPESLYCVAC 108
Cdd:pfam01258   1 GSYGSCEDCGEPIPEARLRAVPGARLCIEC 30
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
84-112 4.94e-04

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 36.39  E-value: 4.94e-04
                         10        20
                 ....*....|....*....|....*....
gi 503319333  84 CRECEEPIPLERLRLAPESLYCVACMEEL 112
Cdd:PRK11019  39 CEECGEPIPEARRKAIPGVRLCVACQQEK 67
 
Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
1-111 2.01e-19

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 76.87  E-value: 2.01e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503319333   1 MTREEKIEFKKSIEREIETLSEEIERLQASL-YPERGEGPSDKVAHISFKQDQQVHIQRYNEAVKRLNRLKQAYARIDTP 79
Cdd:COG1734    1 MSDEQLEEFRERLLEEREELLEELEETEEELlSGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALERIEEG 80
                         90       100       110
                 ....*....|....*....|....*....|..
gi 503319333  80 EYGICRECEEPIPLERLRLAPESLYCVACMEE 111
Cdd:COG1734   81 TYGICEECGEPIPLERLEARPTATLCIECKER 112
DksA_like NF033459
RNA polymerase-binding protein DksA;
8-110 1.21e-13

RNA polymerase-binding protein DksA;


Pssm-ID: 380301  Cd Length: 113  Bit Score: 61.86  E-value: 1.21e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503319333   8 EFKKSIEREIETLSEEIERLQASlypergeGPSDKVAHISFKQDQQVHIQRYNEAVKRLNRLKQAYARIDTPEYGICREC 87
Cdd:NF033459  12 ERKEQILKNINSSSNEIEELRNS-------ELNDEGDYASISTDSMIEYAISNQQKKELNEIEEALKKIKNGTYGICEMC 84
                         90       100
                 ....*....|....*....|...
gi 503319333  88 EEPIPLERLRLAPESLYCVACME 110
Cdd:NF033459  85 EEPIGIERLKVKPHAKYCITCRE 107
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
64-114 3.57e-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: 48.50  E-value: 3.57e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 503319333   64 KRLNRLKQAYARIDTPEYGICRECEEPIPLERLRLAPESLYCVACMEELGL 114
Cdd:TIGR02890  69 RELREIEHALQKIENGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKEV 119
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
79-108 1.23e-06

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 41.89  E-value: 1.23e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 503319333   79 PEYGICRECEEPIPLERLRLAPESLYCVAC 108
Cdd:pfam01258   1 GSYGSCEDCGEPIPEARLRAVPGARLCIEC 30
PRK11019 PRK11019
DksA/TraR family C4-type zinc finger protein;
84-112 4.94e-04

DksA/TraR family C4-type zinc finger protein;


Pssm-ID: 182903  Cd Length: 88  Bit Score: 36.39  E-value: 4.94e-04
                         10        20
                 ....*....|....*....|....*....
gi 503319333  84 CRECEEPIPLERLRLAPESLYCVACMEEL 112
Cdd:PRK11019  39 CEECGEPIPEARRKAIPGVRLCVACQQEK 67
 
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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