NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|494496771|ref|WP_007286238|]
View 

TraR/DksA C4-type zinc finger protein [Intestinibacter bartlettii]

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

CATH:  1.10.287.3960
Gene Ontology:  GO:0008270
PubMed:  15294157|12665246|17210253|15963892|15718139|10529348|15333933
SCOP:  4003090

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
11-124 3.48e-30

RNA polymerase-binding transcription factor DksA [Transcription];


:

Pssm-ID: 441340  Cd Length: 119  Bit Score: 106.53  E-value: 3.48e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494496771  11 KKEKAELENLISEMKDNTLfgDTSRHTSERYSSGELSSYDNHPGDIGTEVYMNDMQNSLTDHQQYQLDKVNDALNKIDND 90
Cdd:COG1734    3 DEQLEEFRERLLEEREELL--EELEETEEELLSGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALERIEEG 80

                         90       100       110
                 ....*....|....*....|....*....|....
gi 494496771  91 EFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:COG1734   81 TYGICEECGEPIPLERLEARPTATLCIECKERQE 114
 
Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
11-124 3.48e-30

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 106.53  E-value: 3.48e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494496771  11 KKEKAELENLISEMKDNTLfgDTSRHTSERYSSGELSSYDNHPGDIGTEVYMNDMQNSLTDHQQYQLDKVNDALNKIDND 90
Cdd:COG1734    3 DEQLEEFRERLLEEREELL--EELEETEEELLSGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALERIEEG 80

                         90       100       110
                 ....*....|....*....|....*....|....
gi 494496771  91 EFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:COG1734   81 TYGICEECGEPIPLERLEARPTATLCIECKERQE 114
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 1-124 4.29e-26

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: 97.42  E-value: 4.29e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494496771    1 MDSNNYKKQLKKEKAELENLISEMKDNTlfgdtsRHTSERYSSGELSSYDNHPGDIGTEVYMNDMQNSLTDHQQYQLDKV 80
Cdd:TIGR02890   1 QQLAELKNMLLQEKKELEQRLKQMNKED------GIASQRESTGELSQYDNHPADLATELYEREKDIALREHEERELREI 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 494496771   81 NDALNKIDNDEFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:TIGR02890  75 EHALQKIENGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKE 118
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
92-124 9.84e-08

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 46.12  E-value: 9.84e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 494496771   92 FGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:pfam01258   3 YGSCEDCGEPIPEARLRAVPGARLCIECQEKYE 35
dksA PRK10778
RNA polymerase-binding protein DksA;
71-124 4.22e-05

RNA polymerase-binding protein DksA;


Pssm-ID: 182722  Cd Length: 151  Bit Score: 41.66  E-value: 4.22e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 494496771  71 DHQQYQLDKVNDALNKIDNDEFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:PRK10778  90 DRERKLIKKIEKTLKKVEDEDFGYCESCGVEIGIRRLEARPTADLCIDCKTLAE 143
 
Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
11-124 3.48e-30

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 106.53  E-value: 3.48e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494496771  11 KKEKAELENLISEMKDNTLfgDTSRHTSERYSSGELSSYDNHPGDIGTEVYMNDMQNSLTDHQQYQLDKVNDALNKIDND 90
Cdd:COG1734    3 DEQLEEFRERLLEEREELL--EELEETEEELLSGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALERIEEG 80

                         90       100       110
                 ....*....|....*....|....*....|....
gi 494496771  91 EFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:COG1734   81 TYGICEECGEPIPLERLEARPTATLCIECKERQE 114
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 1-124 4.29e-26

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: 97.42  E-value: 4.29e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494496771    1 MDSNNYKKQLKKEKAELENLISEMKDNTlfgdtsRHTSERYSSGELSSYDNHPGDIGTEVYMNDMQNSLTDHQQYQLDKV 80
Cdd:TIGR02890   1 QQLAELKNMLLQEKKELEQRLKQMNKED------GIASQRESTGELSQYDNHPADLATELYEREKDIALREHEERELREI 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 494496771   81 NDALNKIDNDEFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:TIGR02890  75 EHALQKIENGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKE 118
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
92-124 9.84e-08

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 46.12  E-value: 9.84e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 494496771   92 FGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:pfam01258   3 YGSCEDCGEPIPEARLRAVPGARLCIECQEKYE 35
dksA PRK10778
RNA polymerase-binding protein DksA;
71-124 4.22e-05

RNA polymerase-binding protein DksA;


Pssm-ID: 182722  Cd Length: 151  Bit Score: 41.66  E-value: 4.22e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 494496771  71 DHQQYQLDKVNDALNKIDNDEFGYCERCHNKIESERLDILPETKLCAHCAQETE 124
Cdd:PRK10778  90 DRERKLIKKIEKTLKKVEDEDFGYCESCGVEIGIRRLEARPTADLCIDCKTLAE 143
 
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