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Conserved domains on  [gi|1605669393|gb|TFM74296|]
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PAS domain-containing protein (plasmid) [Escherichia coli]

Protein Classification

PAS domain-containing protein( domain architecture ID 12012733)

PAS domain-containing protein binds ligand(s) and may act as sensors for light and oxygen in signal transduction; similar to Escherichia coli protein TraJ

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
18-114 1.25e-12

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


:

Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 62.05  E-value: 1.25e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  18 VQNIYRNSPVPVCVRNKKRKILYANGAFIELFSKEDKPFSGESYVRLQVE----IFLSSLELECQSLGHGSAFCRRFN-F 92
Cdd:pfam00989   3 LRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEeddaEVAELLRQALLQGEESRGFEVSFRvP 82
                          90       100
                  ....*....|....*....|..
gi 1605669393  93 HGEIYQIRMENVSFYNEESVVL 114
Cdd:pfam00989  83 DGRPRHVEVRASPVRDAGGEIL 104
 
Name Accession Description Interval E-value
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
18-114 1.25e-12

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 62.05  E-value: 1.25e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  18 VQNIYRNSPVPVCVRNKKRKILYANGAFIELFSKEDKPFSGESYVRLQVE----IFLSSLELECQSLGHGSAFCRRFN-F 92
Cdd:pfam00989   3 LRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEeddaEVAELLRQALLQGEESRGFEVSFRvP 82
                          90       100
                  ....*....|....*....|..
gi 1605669393  93 HGEIYQIRMENVSFYNEESVVL 114
Cdd:pfam00989  83 DGRPRHVEVRASPVRDAGGEIL 104
PRK13719 PRK13719
conjugal transfer transcriptional regulator TraJ; Provisional
17-185 8.09e-07

conjugal transfer transcriptional regulator TraJ; Provisional


Pssm-ID: 237479  Cd Length: 217  Bit Score: 48.19  E-value: 8.09e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  17 NVQNIYRNSPVPVCVRNKKRKILYANGAFIELFSKEDKpfSGESYVRLQVEI--FLSSLELECQSLGHGSAFCRRFNFHG 94
Cdd:PRK13719   20 SLTAFIDDYSYPACIRNESGKFIFYNTLFLKEFLGQLQ--SKEWWFSLPIDTatLLSRAELDAMSEPSGMNIIEDVFINN 97
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  95 EIYQIRMENVSFYNEEsVVLWQinifpdypFFRVEKENyyhRDSYVQSVISNMTAKSLV------VFCFYALGYKHINIA 168
Cdd:PRK13719   98 KLWDVIIESFIYGGVV-FFLWR--------FFCAASNV---ISSIIRGLSTNLEAKNKVtkyqndVFILYSFGFSHEYIA 165
                         170
                  ....*....|....*..
gi 1605669393 169 KELKITEVASKKRIKKI 185
Cdd:PRK13719  166 QLLNITVGSSKNKISEI 182
 
Name Accession Description Interval E-value
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
18-114 1.25e-12

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 62.05  E-value: 1.25e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  18 VQNIYRNSPVPVCVRNKKRKILYANGAFIELFSKEDKPFSGESYVRLQVE----IFLSSLELECQSLGHGSAFCRRFN-F 92
Cdd:pfam00989   3 LRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEeddaEVAELLRQALLQGEESRGFEVSFRvP 82
                          90       100
                  ....*....|....*....|..
gi 1605669393  93 HGEIYQIRMENVSFYNEESVVL 114
Cdd:pfam00989  83 DGRPRHVEVRASPVRDAGGEIL 104
PRK13719 PRK13719
conjugal transfer transcriptional regulator TraJ; Provisional
17-185 8.09e-07

conjugal transfer transcriptional regulator TraJ; Provisional


Pssm-ID: 237479  Cd Length: 217  Bit Score: 48.19  E-value: 8.09e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  17 NVQNIYRNSPVPVCVRNKKRKILYANGAFIELFSKEDKpfSGESYVRLQVEI--FLSSLELECQSLGHGSAFCRRFNFHG 94
Cdd:PRK13719   20 SLTAFIDDYSYPACIRNESGKFIFYNTLFLKEFLGQLQ--SKEWWFSLPIDTatLLSRAELDAMSEPSGMNIIEDVFINN 97
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1605669393  95 EIYQIRMENVSFYNEEsVVLWQinifpdypFFRVEKENyyhRDSYVQSVISNMTAKSLV------VFCFYALGYKHINIA 168
Cdd:PRK13719   98 KLWDVIIESFIYGGVV-FFLWR--------FFCAASNV---ISSIIRGLSTNLEAKNKVtkyqndVFILYSFGFSHEYIA 165
                         170
                  ....*....|....*..
gi 1605669393 169 KELKITEVASKKRIKKI 185
Cdd:PRK13719  166 QLLNITVGSSKNKISEI 182
PAS_8 pfam13188
PAS domain; PAS domains are involved in many signalling proteins where they are used as a ...
19-82 2.18e-04

PAS domain; PAS domains are involved in many signalling proteins where they are used as a signal sensor domain. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Heme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. This domain recognizes oxygen and CO (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463802 [Multi-domain]  Cd Length: 65  Bit Score: 38.30  E-value: 2.18e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1605669393  19 QNIYRNSPVPVCVRNKKRKILYANGAFIELFskedkpfsGESYVRLQVEIFLSSLELECQSLGH 82
Cdd:pfam13188   4 RALFESSPDGILVLDEGGRIIYVNPAALELL--------GYELLGELLGELLDLLDPLLEDALE 59
 
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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