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Conserved domains on  [gi|2171857446|ref|WP_233220582|]
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MULTISPECIES: TraR/DksA C4-type zinc finger protein [Brevibacillus]

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;
7-159 7.71e-57

Prokaryotic dksA/traR C4-type zinc finger;


The actual alignment was detected with superfamily member TIGR02890:

Pssm-ID: 445081  Cd Length: 159  Bit Score: 178.69  E-value: 7.71e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   7 ASFREKLLEQKKELEDRVQ---DHYGMREPMTtSLQEFAMYDNHPADIGSEMFEREKDLALDSLDRETLKEIDQALQRME 83
Cdd:TIGR02890   4 AELKNMLLQEKKELEQRLKqmnKEDGIASQRE-STGELSQYDNHPADLATELYEREKDIALREHEERELREIEHALQKIE 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2171857446  84 EGTYGLCTVCGEQIPVERLEALPQAQTCKEHAPAPIVNESRPIEEEFLQPPFGRTSLDEKEgQNGFDGEDAWQIVE 159
Cdd:TIGR02890  83 NGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKEVKNDRPVEEDVLSPPFGKFNFDDKG-RTAFDAEDAWQEVA 157
PRK13391 super family cl32866
acyl-CoA synthetase; Provisional
 161-215 8.72e-03

acyl-CoA synthetase; Provisional


The actual alignment was detected with superfamily member PRK13391:

Pssm-ID: 184022 [Multi-domain]  Cd Length: 511  Bit Score: 36.98  E-value: 8.72e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2171857446 161 WGTSSTPFSY-QEPDKTDyeemyiESNEPDGFVEAVEEIGYTDIEGY-HGPDSVHFM 215
Cdd:PRK13391  357 WFEGGRPFEYlNDPAKTA------EARHPDGTWSTVGDIGYVDEDGYlYLTDRAAFM 407
 
Name Accession Description Interval E-value
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 7-159 7.71e-57

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: 178.69  E-value: 7.71e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   7 ASFREKLLEQKKELEDRVQ---DHYGMREPMTtSLQEFAMYDNHPADIGSEMFEREKDLALDSLDRETLKEIDQALQRME 83
Cdd:TIGR02890   4 AELKNMLLQEKKELEQRLKqmnKEDGIASQRE-STGELSQYDNHPADLATELYEREKDIALREHEERELREIEHALQKIE 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2171857446  84 EGTYGLCTVCGEQIPVERLEALPQAQTCKEHAPAPIVNESRPIEEEFLQPPFGRTSLDEKEgQNGFDGEDAWQIVE 159
Cdd:TIGR02890  83 NGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKEVKNDRPVEEDVLSPPFGKFNFDDKG-RTAFDAEDAWQEVA 157
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
1-115 4.67e-37

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 126.56  E-value: 4.67e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   1 MDQKMVASFREKLLEQKKELEDRVQDhygMREPMTTslQEFAMYDNHPADIGSEMFEREKDLALDSLDRETLKEIDQALQ 80
Cdd:COG1734     1 MSDEQLEEFRERLLEEREELLEELEE---TEEELLS--GDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALE 75

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2171857446  81 RMEEGTYGLCTVCGEQIPVERLEALPQAQTCKEHA 115
Cdd:COG1734    76 RIEEGTYGICEECGEPIPLERLEARPTATLCIECK 110
dksA PRK10778
RNA polymerase-binding protein DksA;
1-111 3.70e-07

RNA polymerase-binding protein DksA;


Pssm-ID: 182722  Cd Length: 151  Bit Score: 48.59  E-value: 3.70e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   1 MDQKMVASFREKLLEQKKELEDRVqdhygmrEPMTTSLQEFAMYDNHPADIGSEmfEREKDLALDSLDRET--LKEIDQA 78
Cdd:PRK10778   32 MNEAQLAHFKRILEAWRNQLRDEV-------DRTVTHMQDEAANFPDPVDRAAQ--EEEFSLELRNRDRERklIKKIEKT 102

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2171857446  79 LQRMEEGTYGLCTVCGEQIPVERLEALPQAQTC 111
Cdd:PRK10778  103 LKKVEDEDFGYCESCGVEIGIRRLEARPTADLC 135
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
85-113 6.63e-07

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 44.97  E-value: 6.63e-07
                          10        20
                  ....*....|....*....|....*....
gi 2171857446  85 GTYGLCTVCGEQIPVERLEALPQAQTCKE 113
Cdd:pfam01258   1 GSYGSCEDCGEPIPEARLRAVPGARLCIE 29
PRK13391 PRK13391
acyl-CoA synthetase; Provisional
 161-215 8.72e-03

acyl-CoA synthetase; Provisional


Pssm-ID: 184022 [Multi-domain]  Cd Length: 511  Bit Score: 36.98  E-value: 8.72e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2171857446 161 WGTSSTPFSY-QEPDKTDyeemyiESNEPDGFVEAVEEIGYTDIEGY-HGPDSVHFM 215
Cdd:PRK13391  357 WFEGGRPFEYlNDPAKTA------EARHPDGTWSTVGDIGYVDEDGYlYLTDRAAFM 407
 
Name Accession Description Interval E-value
bacill_yteA TIGR02890
regulatory protein, yteA family; Members of this predicted regulatory protein are found only ...
 7-159 7.71e-57

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: 178.69  E-value: 7.71e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   7 ASFREKLLEQKKELEDRVQ---DHYGMREPMTtSLQEFAMYDNHPADIGSEMFEREKDLALDSLDRETLKEIDQALQRME 83
Cdd:TIGR02890   4 AELKNMLLQEKKELEQRLKqmnKEDGIASQRE-STGELSQYDNHPADLATELYEREKDIALREHEERELREIEHALQKIE 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2171857446  84 EGTYGLCTVCGEQIPVERLEALPQAQTCKEHAPAPIVNESRPIEEEFLQPPFGRTSLDEKEgQNGFDGEDAWQIVE 159
Cdd:TIGR02890  83 NGTYGICEVCGKPIPYERLEAIPTATTCVECQNRKEVKNDRPVEEDVLSPPFGKFNFDDKG-RTAFDAEDAWQEVA 157
DksA COG1734
RNA polymerase-binding transcription factor DksA [Transcription];
1-115 4.67e-37

RNA polymerase-binding transcription factor DksA [Transcription];


Pssm-ID: 441340  Cd Length: 119  Bit Score: 126.56  E-value: 4.67e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   1 MDQKMVASFREKLLEQKKELEDRVQDhygMREPMTTslQEFAMYDNHPADIGSEMFEREKDLALDSLDRETLKEIDQALQ 80
Cdd:COG1734     1 MSDEQLEEFRERLLEEREELLEELEE---TEEELLS--GDLSAYDPDPADRATEEEERELELALRDRERKLLRKIDAALE 75

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2171857446  81 RMEEGTYGLCTVCGEQIPVERLEALPQAQTCKEHA 115
Cdd:COG1734    76 RIEEGTYGICEECGEPIPLERLEARPTATLCIECK 110
dksA PRK10778
RNA polymerase-binding protein DksA;
1-111 3.70e-07

RNA polymerase-binding protein DksA;


Pssm-ID: 182722  Cd Length: 151  Bit Score: 48.59  E-value: 3.70e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2171857446   1 MDQKMVASFREKLLEQKKELEDRVqdhygmrEPMTTSLQEFAMYDNHPADIGSEmfEREKDLALDSLDRET--LKEIDQA 78
Cdd:PRK10778   32 MNEAQLAHFKRILEAWRNQLRDEV-------DRTVTHMQDEAANFPDPVDRAAQ--EEEFSLELRNRDRERklIKKIEKT 102

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2171857446  79 LQRMEEGTYGLCTVCGEQIPVERLEALPQAQTC 111
Cdd:PRK10778  103 LKKVEDEDFGYCESCGVEIGIRRLEARPTADLC 135
zf-dskA_traR pfam01258
Prokaryotic dksA/traR C4-type zinc finger;
85-113 6.63e-07

Prokaryotic dksA/traR C4-type zinc finger;


Pssm-ID: 426162 [Multi-domain]  Cd Length: 36  Bit Score: 44.97  E-value: 6.63e-07
                          10        20
                  ....*....|....*....|....*....
gi 2171857446  85 GTYGLCTVCGEQIPVERLEALPQAQTCKE 113
Cdd:pfam01258   1 GSYGSCEDCGEPIPEARLRAVPGARLCIE 29
PRK13391 PRK13391
acyl-CoA synthetase; Provisional
 161-215 8.72e-03

acyl-CoA synthetase; Provisional


Pssm-ID: 184022 [Multi-domain]  Cd Length: 511  Bit Score: 36.98  E-value: 8.72e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2171857446 161 WGTSSTPFSY-QEPDKTDyeemyiESNEPDGFVEAVEEIGYTDIEGY-HGPDSVHFM 215
Cdd:PRK13391  357 WFEGGRPFEYlNDPAKTA------EARHPDGTWSTVGDIGYVDEDGYlYLTDRAAFM 407
 
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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