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Conserved domains on  [gi|486214746|ref|WP_001556368|]
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YafY family protein [Escherichia coli]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 11457199)

helix-turn-helix (HTH) transcriptional regulator containing DNA-binding HTH and WYL domains, may function in the regulation of DNA damage response and bacterial immunity

Gene Ontology:  GO:0003677|GO:0003700|GO:0006355
PubMed:  24817877|37027901|15808743|10473770|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 12-195 2.69e-12

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


:

Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 64.71  E-value: 2.69e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486214746  12 AVRLSLIISRLMAGESLSLKTLSDEFGVTERTLQRDFHQ-RLVHLDLEY---RNGRYSLRR------------------- 68
Cdd:COG2378    4 LERLLALLQLLQSRRGVTAAELAERLEVSERTIYRDIDAlRELGVPIEAergRGGGYRLRDgyrlpplmlteeealalll 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486214746  69 -------QSSPGAIPEMLSFIQNtgIARILPLRNGRLITCLTDNQEPSPclIWLPAPDItttfpecFSQLILAI--RQCI 139
Cdd:COG2378   84 alrllaaLGGAPLAEAAASALAK--LEAVLPERLRERLEALAERVGVDP--PPEVDPEV-------LETLREAIreRRRL 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 486214746 140 HISLVTERWYPS---LEPCRLIYYSGSWYLIA--LQKGKLQVFPLADIKSVSLTSERFERR 195
Cdd:COG2378  153 RIDYRSGRGEPTertVEPYGLVFYGGRWYLVAwcELRDDIRTFRLDRIRSLELTDERFEPP 213
 
Name Accession Description Interval E-value
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 12-195 2.69e-12

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 64.71  E-value: 2.69e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486214746  12 AVRLSLIISRLMAGESLSLKTLSDEFGVTERTLQRDFHQ-RLVHLDLEY---RNGRYSLRR------------------- 68
Cdd:COG2378    4 LERLLALLQLLQSRRGVTAAELAERLEVSERTIYRDIDAlRELGVPIEAergRGGGYRLRDgyrlpplmlteeealalll 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486214746  69 -------QSSPGAIPEMLSFIQNtgIARILPLRNGRLITCLTDNQEPSPclIWLPAPDItttfpecFSQLILAI--RQCI 139
Cdd:COG2378   84 alrllaaLGGAPLAEAAASALAK--LEAVLPERLRERLEALAERVGVDP--PPEVDPEV-------LETLREAIreRRRL 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 486214746 140 HISLVTERWYPS---LEPCRLIYYSGSWYLIA--LQKGKLQVFPLADIKSVSLTSERFERR 195
Cdd:COG2378  153 RIDYRSGRGEPTertVEPYGLVFYGGRWYLVAwcELRDDIRTFRLDRIRSLELTDERFEPP 213
WYL pfam13280
WYL domain; WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the ...
 152-196 2.24e-05

WYL domain; WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the WYL-like superfamily, named for three conserved amino acids found in a subset of the superfamily. However, these residues are not strongly conserved throughout the family. Rather, the conservation pattern includes four basic residues and a position often occupied by a cysteine, which are predicted to line a ligand-binding groove typical of the Sm-like SH3 beta-barrels. A WYL domain protein (sll7009) is a negative regulator of the I-D CRISPR-Cas system in Synechocystis sp. It is predicted to be a ligand-sensing domain that could bind negatively charged ligands, such as nucleotides or nucleic acid fragments, to regulate CRISPR-Cas and other defense systems such as the abortive infection AbiG system.


Pssm-ID: 433082  Cd Length: 172  Bit Score: 43.41  E-value: 2.24e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 486214746  152 LEPCRLIYYSGSWYLIA--LQKGKLQVFPLADIKSVSLTSERFERRG 196
Cdd:pfam13280  32 VEPYGLVYKDGRWYLVAycRLRDDIRTFRLDRIESVEVLDEPFEPPD 78
 
Name Accession Description Interval E-value
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 12-195 2.69e-12

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 64.71  E-value: 2.69e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486214746  12 AVRLSLIISRLMAGESLSLKTLSDEFGVTERTLQRDFHQ-RLVHLDLEY---RNGRYSLRR------------------- 68
Cdd:COG2378    4 LERLLALLQLLQSRRGVTAAELAERLEVSERTIYRDIDAlRELGVPIEAergRGGGYRLRDgyrlpplmlteeealalll 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486214746  69 -------QSSPGAIPEMLSFIQNtgIARILPLRNGRLITCLTDNQEPSPclIWLPAPDItttfpecFSQLILAI--RQCI 139
Cdd:COG2378   84 alrllaaLGGAPLAEAAASALAK--LEAVLPERLRERLEALAERVGVDP--PPEVDPEV-------LETLREAIreRRRL 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 486214746 140 HISLVTERWYPS---LEPCRLIYYSGSWYLIA--LQKGKLQVFPLADIKSVSLTSERFERR 195
Cdd:COG2378  153 RIDYRSGRGEPTertVEPYGLVFYGGRWYLVAwcELRDDIRTFRLDRIRSLELTDERFEPP 213
WYL pfam13280
WYL domain; WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the ...
 152-196 2.24e-05

WYL domain; WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the WYL-like superfamily, named for three conserved amino acids found in a subset of the superfamily. However, these residues are not strongly conserved throughout the family. Rather, the conservation pattern includes four basic residues and a position often occupied by a cysteine, which are predicted to line a ligand-binding groove typical of the Sm-like SH3 beta-barrels. A WYL domain protein (sll7009) is a negative regulator of the I-D CRISPR-Cas system in Synechocystis sp. It is predicted to be a ligand-sensing domain that could bind negatively charged ligands, such as nucleotides or nucleic acid fragments, to regulate CRISPR-Cas and other defense systems such as the abortive infection AbiG system.


Pssm-ID: 433082  Cd Length: 172  Bit Score: 43.41  E-value: 2.24e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 486214746  152 LEPCRLIYYSGSWYLIA--LQKGKLQVFPLADIKSVSLTSERFERRG 196
Cdd:pfam13280  32 VEPYGLVYKDGRWYLVAycRLRDDIRTFRLDRIESVEVLDEPFEPPD 78
 
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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