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Conserved domains on  [gi|1167234864|gb|OQA64899|]
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putative HTH-type transcriptional regulator YddM [Spirochaetes bacterium ADurb.Bin269]

Protein Classification

transcriptional regulator( domain architecture ID 10006927)

helix-turn-helix-type transcriptional regulator

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 13-87 1.51e-13

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


:

Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 59.82  E-value: 1.51e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1167234864 13 PGEIVK-DSIDALGWDMNEFRRRSNLSDNEISNLLHNTIPVSPSTADVLGSLFNTTAELWLNLDAVHRLRKLKDRL 87
Cdd:COG3093    9 PGEILReEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAYDLWLARQKA 84
 
Name Accession Description Interval E-value
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 13-87 1.51e-13

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 59.82  E-value: 1.51e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1167234864 13 PGEIVK-DSIDALGWDMNEFRRRSNLSDNEISNLLHNTIPVSPSTADVLGSLFNTTAELWLNLDAVHRLRKLKDRL 87
Cdd:COG3093    9 PGEILReEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAYDLWLARQKA 84
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 13-85 2.62e-08

addiction module antidote protein, HigA family; Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 274228 [Multi-domain]  Cd Length: 78  Bit Score: 46.46  E-value: 2.62e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1167234864 13 PGEIVK-DSIDALGWDMNEFRRRSNLSDNEISNLLHNTIPVSPSTADVLGSLFNTTAELWLNLDAVHRLRKLKD 85
Cdd:TIGR02607  5 PGEILLeEFLEPLGLSVRALAKALGVSRSTLSRIVNGRAAITADMALRLAKALGTSPEFWLNLQNAYDLWIAEQ 78
 
Name Accession Description Interval E-value
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 13-87 1.51e-13

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 59.82  E-value: 1.51e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1167234864 13 PGEIVK-DSIDALGWDMNEFRRRSNLSDNEISNLLHNTIPVSPSTADVLGSLFNTTAELWLNLDAVHRLRKLKDRL 87
Cdd:COG3093    9 PGEILReEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAYDLWLARQKA 84
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 13-85 2.62e-08

addiction module antidote protein, HigA family; Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 274228 [Multi-domain]  Cd Length: 78  Bit Score: 46.46  E-value: 2.62e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1167234864 13 PGEIVK-DSIDALGWDMNEFRRRSNLSDNEISNLLHNTIPVSPSTADVLGSLFNTTAELWLNLDAVHRLRKLKD 85
Cdd:TIGR02607  5 PGEILLeEFLEPLGLSVRALAKALGVSRSTLSRIVNGRAAITADMALRLAKALGTSPEFWLNLQNAYDLWIAEQ 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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