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Conserved domains on  [gi|493312983|ref|WP_006270427|]
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sigma-70 family RNA polymerase sigma factor [Streptococcus constellatus]

Protein Classification

sigma-70 RNA polymerase sigma factor region 4 domain-containing protein( domain architecture ID 1001861)

sigma-70 RNA polymerase sigma factor region 4 domain-containing protein which may or may not bind DNA or function as a sigma factor.

Gene Ontology:  GO:0003677|GO:0016987|GO:0006352
PubMed:  1597408

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
sigma70-ECF super family cl37189
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 49-133 2.05e-04

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


The actual alignment was detected with superfamily member TIGR02937:

Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 38.87  E-value: 2.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493312983   49 LDHDGHFIDNIVDESVDVEKIVETQMMIEAVRSATSRLNAEERDIIERLYFNDETIRSVAKLKSITHPALIKRRNKILEK 128
Cdd:TIGR02937  74 LRRELDLLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKK 153


                  ....*
gi 493312983  129 LKKFI 133
Cdd:TIGR02937 154 LRELL 158
 
Name Accession Description Interval E-value
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 49-133 2.05e-04

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 38.87  E-value: 2.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493312983   49 LDHDGHFIDNIVDESVDVEKIVETQMMIEAVRSATSRLNAEERDIIERLYFNDETIRSVAKLKSITHPALIKRRNKILEK 128
Cdd:TIGR02937  74 LRRELDLLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKK 153


                  ....*
gi 493312983  129 LKKFI 133
Cdd:TIGR02937 154 LRELL 158
RpoD COG0568
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA ...
 50-135 3.19e-04

DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 440334 [Multi-domain]  Cd Length: 268  Bit Score: 38.88  E-value: 3.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493312983  50 DHDGHFIDNIVDES-VDVEKIVETQMMIEAVRSATSRLNAEERDIIERLY-FNDETIRS---VAKLKSIThpaliKRR-- 122
Cdd:COG0568  170 DEDSELGDLLEDEEaPSPEEALEEELLREELREALDTLTEREREILRLRFgLDDGEPHTleeIGKEFGVS-----RERvr 244

                         90
                 ....*....|....*.
gi 493312983 123 ---NKILEKLKKFIEE 135
Cdd:COG0568  245 qieAKALRKLRHPLRS 260
 
Name Accession Description Interval E-value
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 49-133 2.05e-04

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 38.87  E-value: 2.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493312983   49 LDHDGHFIDNIVDESVDVEKIVETQMMIEAVRSATSRLNAEERDIIERLYFNDETIRSVAKLKSITHPALIKRRNKILEK 128
Cdd:TIGR02937  74 LRRELDLLEELLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGISVGTVKRRLKRARKK 153


                  ....*
gi 493312983  129 LKKFI 133
Cdd:TIGR02937 154 LRELL 158
RpoD COG0568
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA ...
 50-135 3.19e-04

DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 440334 [Multi-domain]  Cd Length: 268  Bit Score: 38.88  E-value: 3.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493312983  50 DHDGHFIDNIVDES-VDVEKIVETQMMIEAVRSATSRLNAEERDIIERLY-FNDETIRS---VAKLKSIThpaliKRR-- 122
Cdd:COG0568  170 DEDSELGDLLEDEEaPSPEEALEEELLREELREALDTLTEREREILRLRFgLDDGEPHTleeIGKEFGVS-----RERvr 244

                         90
                 ....*....|....*.
gi 493312983 123 ---NKILEKLKKFIEE 135
Cdd:COG0568  245 qieAKALRKLRHPLRS 260
 
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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