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Conserved domains on  [gi|446604263|ref|WP_000681609|]
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MULTISPECIES: type II toxin-antitoxin system HicB family antitoxin [Enterobacteriaceae]

Protein Classification

type II toxin-antitoxin system HicB family antitoxin( domain architecture ID 10790599)

type II toxin-antitoxin system HicB family antitoxin is the antitoxin component of a type II toxin-antitoxin (TA) system and functions as an mRNA interferase antitoxin preventing effects of the cognate HicA family toxin

Gene Ontology:  GO:0110001
PubMed:  28279904|16895922|30337369
SCOP:  4001747

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HicB COG4226
Predicted nuclease of the RNAse H fold, HicB family [General function prediction only];
4-111 1.36e-48

Predicted nuclease of the RNAse H fold, HicB family [General function prediction only];


:

Pssm-ID: 443370 [Multi-domain]  Cd Length: 110  Bit Score: 150.34  E-value: 1.36e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446604263   4 LKYKGYLGTVEPDFENNILYGKLAFIRDLVTYEAETLADLEREFKTSVDLYLQSCVEDGKEPDTPFKGVFNVRLDPELHR 83
Cdd:COG4226    3 MTYKGYTASVEYSPEDGEFVGKVLGIPDLISFEGESVEELEKAFREAVDDYLEDCKELGEEPEKPYSGKFNVRIPPELHR 82

                         90       100
                 ....*....|....*....|....*...
gi 446604263  84 RVAEMAMEEDLSLNAFVNKALEKEVSHH 111
Cdd:COG4226   83 ALAIAAAEEGVSLNQWVVEALSEALAHE 110
 
Name Accession Description Interval E-value
HicB COG4226
Predicted nuclease of the RNAse H fold, HicB family [General function prediction only];
4-111 1.36e-48

Predicted nuclease of the RNAse H fold, HicB family [General function prediction only];


Pssm-ID: 443370 [Multi-domain]  Cd Length: 110  Bit Score: 150.34  E-value: 1.36e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446604263   4 LKYKGYLGTVEPDFENNILYGKLAFIRDLVTYEAETLADLEREFKTSVDLYLQSCVEDGKEPDTPFKGVFNVRLDPELHR 83
Cdd:COG4226    3 MTYKGYTASVEYSPEDGEFVGKVLGIPDLISFEGESVEELEKAFREAVDDYLEDCKELGEEPEKPYSGKFNVRIPPELHR 82

                         90       100
                 ....*....|....*....|....*...
gi 446604263  84 RVAEMAMEEDLSLNAFVNKALEKEVSHH 111
Cdd:COG4226   83 ALAIAAAEEGVSLNQWVVEALSEALAHE 110
HicB pfam05534
HicB family; This family consists of several bacterial HicB related proteins. The function of ...
 54-104 3.40e-18

HicB family; This family consists of several bacterial HicB related proteins. The function of HicB is unknown although it is thought to be involved in pilus formation. It has been speculated that HicB performs a function antagonistic to that of pili and yet is necessary for invasion of certain niches.


Pssm-ID: 310261  Cd Length: 51  Bit Score: 71.94  E-value: 3.40e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446604263   54 YLQSCVEDGKEPDTPFKGVFNVRLDPELHRRVAEMAMEEDLSLNAFVNKAL 104
Cdd:pfam05534   1 YLETCKELGIEPEKPYSGKFNLRISPELHARLALAAAEQGVSLNQFVEQAL 51
YlcI_YnfO_N NF041551
YlcI/YnfO family protein; The seed alignment of this HMM (86 proteins after ...
 74-108 9.15e-03

YlcI/YnfO family protein; The seed alignment of this HMM (86 proteins after non-redundification to a maximum 80 percent amino acid identity) represents are a large expansion relative to PF13132.9 (3 proteins), named DUF3950. Members are small bacterial proteins, often from prophage regions. This model is short (42 amino acids), which high sequence diversity among seed members, and has relatively high cutoffs for its length. Some family members and additional apparent homologs scoring below the current cutoffs of the model include putative DNA-binding proteins such as HicB family antitoxin components of type II toxin-antitoxin systems.


Pssm-ID: 469436  Cd Length: 42  Bit Score: 32.02  E-value: 9.15e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 446604263  74 NVRLDPELhRRVAEMAMEEDLSLNAFVNKALEKEV 108
Cdd:NF041551   6 TARVPHEL-REALEAVKLEGESLSQFIVTAVRREI 39
 
Name Accession Description Interval E-value
HicB COG4226
Predicted nuclease of the RNAse H fold, HicB family [General function prediction only];
4-111 1.36e-48

Predicted nuclease of the RNAse H fold, HicB family [General function prediction only];


Pssm-ID: 443370 [Multi-domain]  Cd Length: 110  Bit Score: 150.34  E-value: 1.36e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446604263   4 LKYKGYLGTVEPDFENNILYGKLAFIRDLVTYEAETLADLEREFKTSVDLYLQSCVEDGKEPDTPFKGVFNVRLDPELHR 83
Cdd:COG4226    3 MTYKGYTASVEYSPEDGEFVGKVLGIPDLISFEGESVEELEKAFREAVDDYLEDCKELGEEPEKPYSGKFNVRIPPELHR 82

                         90       100
                 ....*....|....*....|....*...
gi 446604263  84 RVAEMAMEEDLSLNAFVNKALEKEVSHH 111
Cdd:COG4226   83 ALAIAAAEEGVSLNQWVVEALSEALAHE 110
HicB pfam05534
HicB family; This family consists of several bacterial HicB related proteins. The function of ...
 54-104 3.40e-18

HicB family; This family consists of several bacterial HicB related proteins. The function of HicB is unknown although it is thought to be involved in pilus formation. It has been speculated that HicB performs a function antagonistic to that of pili and yet is necessary for invasion of certain niches.


Pssm-ID: 310261  Cd Length: 51  Bit Score: 71.94  E-value: 3.40e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446604263   54 YLQSCVEDGKEPDTPFKGVFNVRLDPELHRRVAEMAMEEDLSLNAFVNKAL 104
Cdd:pfam05534   1 YLETCKELGIEPEKPYSGKFNLRISPELHARLALAAAEQGVSLNQFVEQAL 51
YlcI_YnfO_N NF041551
YlcI/YnfO family protein; The seed alignment of this HMM (86 proteins after ...
 74-108 9.15e-03

YlcI/YnfO family protein; The seed alignment of this HMM (86 proteins after non-redundification to a maximum 80 percent amino acid identity) represents are a large expansion relative to PF13132.9 (3 proteins), named DUF3950. Members are small bacterial proteins, often from prophage regions. This model is short (42 amino acids), which high sequence diversity among seed members, and has relatively high cutoffs for its length. Some family members and additional apparent homologs scoring below the current cutoffs of the model include putative DNA-binding proteins such as HicB family antitoxin components of type II toxin-antitoxin systems.


Pssm-ID: 469436  Cd Length: 42  Bit Score: 32.02  E-value: 9.15e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 446604263  74 NVRLDPELhRRVAEMAMEEDLSLNAFVNKALEKEV 108
Cdd:NF041551   6 TARVPHEL-REALEAVKLEGESLSQFIVTAVRREI 39
 
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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