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Conserved domains on  [gi|1496506613|ref|WP_121850514|]
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TraR/DksA C4-type zinc finger protein [Euzebyella marina]

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

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List of domain hits

 Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
9-126 3.50e-31

RNA polymerase-binding transcription factor DksA [Transcription];


:

Pssm-ID: 441340  Cd Length: 119  Bit Score: 107.30  E-value: 3.50e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613   9 YSDKDLAEFKALIEEKIEKAKSHLELLKSSYMndgnnGTDDTSPTFKAFEEGSETMSKEANTQLAIRQEKFIRDLKNAIL 88
Cdd:COG1734     1 MSDEQLEEFRERLLEEREELLEELEETEEELL-----SGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALE 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1496506613  89 RIENKTYGICRVTGKLIAKERLKLVPHATLSIEAKNMQ 126
Cdd:COG1734    76 RIEEGTYGICEECGEPIPLERLEARPTATLCIECKERQ 113
 
Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
9-126 3.50e-31

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 107.30  E-value: 3.50e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613   9 YSDKDLAEFKALIEEKIEKAKSHLELLKSSYMndgnnGTDDTSPTFKAFEEGSETMSKEANTQLAIRQEKFIRDLKNAIL 88
Cdd:COG1734     1 MSDEQLEEFRERLLEEREELLEELEETEEELL-----SGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALE 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1496506613  89 RIENKTYGICRVTGKLIAKERLKLVPHATLSIEAKNMQ 126
Cdd:COG1734    76 RIEEGTYGICEECGEPIPLERLEARPTATLCIECKERQ 113
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 23-124 4.44e-13

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: 61.98  E-value: 4.44e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613  23 EKIEKAKSHLELLKSSYMN---DGNNGTDDTSPTFKAFE----------EGSETMSKEANTQLAIRQEKFIRDLKNAILR 89
Cdd:TIGR02890   1 QQLAELKNMLLQEKKELEQrlkQMNKEDGIASQRESTGElsqydnhpadLATELYEREKDIALREHEERELREIEHALQK 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1496506613  90 IENKTYGICRVTGKLIAKERLKLVPHATLSIEAKN 124
Cdd:TIGR02890  81 IENGTYGICEVCGKPIPYERLEAIPTATTCVECQN 115
DksA_like NF033459
RNA polymerase-binding protein DksA;
14-121 2.99e-06

RNA polymerase-binding protein DksA;


Pssm-ID: 380301  Cd Length: 113  Bit Score: 42.99  E-value: 2.99e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613  14 LAEFKALIEEKIEKAKSHLELLKSSYMNDgnngtddtsptfkafEEGSETMSKEANTQLAI--RQEKFIRDLKNAILRIE 91
Cdd:NF033459   10 LLERKEQILKNINSSSNEIEELRNSELND---------------EGDYASISTDSMIEYAIsnQQKKELNEIEEALKKIK 74

                          90       100       110
                  ....*....|....*....|....*....|
gi 1496506613  92 NKTYGICRVTGKLIAKERLKLVPHATLSIE 121
Cdd:NF033459   75 NGTYGICEMCEEPIGIERLKVKPHAKYCIT 104
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
93-124 3.77e-06

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 40.73  E-value: 3.77e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1496506613  93 KTYGICRVTGKLIAKERLKLVPHATLSIEAKN 124
Cdd:pfam01258   1 GSYGSCEDCGEPIPEARLRAVPGARLCIECQE 32
 
Name Accession Description Interval E-value
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
9-126 3.50e-31

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 107.30  E-value: 3.50e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613   9 YSDKDLAEFKALIEEKIEKAKSHLELLKSSYMndgnnGTDDTSPTFKAFEEGSETMSKEANTQLAIRQEKFIRDLKNAIL 88
Cdd:COG1734     1 MSDEQLEEFRERLLEEREELLEELEETEEELL-----SGDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALE 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1496506613  89 RIENKTYGICRVTGKLIAKERLKLVPHATLSIEAKNMQ 126
Cdd:COG1734    76 RIEEGTYGICEECGEPIPLERLEARPTATLCIECKERQ 113
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 23-124 4.44e-13

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: 61.98  E-value: 4.44e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613  23 EKIEKAKSHLELLKSSYMN---DGNNGTDDTSPTFKAFE----------EGSETMSKEANTQLAIRQEKFIRDLKNAILR 89
Cdd:TIGR02890   1 QQLAELKNMLLQEKKELEQrlkQMNKEDGIASQRESTGElsqydnhpadLATELYEREKDIALREHEERELREIEHALQK 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1496506613  90 IENKTYGICRVTGKLIAKERLKLVPHATLSIEAKN 124
Cdd:TIGR02890  81 IENGTYGICEVCGKPIPYERLEAIPTATTCVECQN 115
DksA_like NF033459
RNA polymerase-binding protein DksA;
14-121 2.99e-06

RNA polymerase-binding protein DksA;


Pssm-ID: 380301  Cd Length: 113  Bit Score: 42.99  E-value: 2.99e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1496506613  14 LAEFKALIEEKIEKAKSHLELLKSSYMNDgnngtddtsptfkafEEGSETMSKEANTQLAI--RQEKFIRDLKNAILRIE 91
Cdd:NF033459   10 LLERKEQILKNINSSSNEIEELRNSELND---------------EGDYASISTDSMIEYAIsnQQKKELNEIEEALKKIK 74

                          90       100       110
                  ....*....|....*....|....*....|
gi 1496506613  92 NKTYGICRVTGKLIAKERLKLVPHATLSIE 121
Cdd:NF033459   75 NGTYGICEMCEEPIGIERLKVKPHAKYCIT 104
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
93-124 3.77e-06

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 40.73  E-value: 3.77e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1496506613  93 KTYGICRVTGKLIAKERLKLVPHATLSIEAKN 124
Cdd:pfam01258   1 GSYGSCEDCGEPIPEARLRAVPGARLCIECQE 32
 
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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