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Conserved domains on  [gi|1268089425|ref|WP_098658027.1|]
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HNH endonuclease

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Colicin-DNase pfam12639
DNase/tRNase domain of colicin-like bacteriocin; Colicin-like bacteriocins are complex ...
478-573 2.43e-30

DNase/tRNase domain of colicin-like bacteriocin; Colicin-like bacteriocins are complex structures with an N-terminal beta-barrel translocation domain (pfam09000), a long double-alpha-helical receptor-binding domain (pfam11570) and this C-terminal RNAse/DNase domain with endonuclease activity. Their competitor bacteriocidal action is by a process that involves binding to a surface receptor, entering the cell, and, finally, killing it. The lethal action of colicin E3 is a specific cleavage in the ribosomal decoding A site. The crystal structure of colicin E3 reveals a Y-shaped molecule with the receptor binding domain forming a 100 Angstrom long stalk and the two globular heads of the translocation domain and this catalytic domain comprising the two arms.


:

Pssm-ID: 432688  Cd Length: 96  Bit Score: 114.10  E-value: 2.43e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268089425 478 VKYDKDGYPIFNSKYETSLSDSYHLEPDSVQFKYLSQKLYDDIMKDPNLAKQFSQTDIELFKLGKKPKSVTWHHHQETGK 557
Cdd:pfam12639   1 VGFDKEGFPDFSSVAKVQLPIELMKASRDVQFKIANKALKEEVANDPELANQFTKEQLEGIENGKTPEGYTWHHHQDTGT 80
                          90
                  ....*....|....*.
gi 1268089425 558 MQLVDYYEHQVAGHTG 573
Cdd:pfam12639  81 MQLVPTEIHDKTGHTG 96
Nuc_N pfam14448
Nuclease N terminal; This is a conserved short region that is found in many bacterial ...
353-410 7.87e-25

Nuclease N terminal; This is a conserved short region that is found in many bacterial polymorphic toxin proteins. It is often located before C-terminal nuclease domains.


:

Pssm-ID: 373075  Cd Length: 58  Bit Score: 97.41  E-value: 7.87e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1268089425 353 ADSVSPIFKGVEIMPDGSVVRSGTNYSGKFQEAHDASKASIQSRISNLESGGVKGTGE 410
Cdd:pfam14448   1 ADSVSDIARGAEAGADGTLVRKGTNYSAHVNDAHKASKAKIQSRISRLEKEGIKGTGS 58
 
Name Accession Description Interval E-value
Colicin-DNase pfam12639
DNase/tRNase domain of colicin-like bacteriocin; Colicin-like bacteriocins are complex ...
478-573 2.43e-30

DNase/tRNase domain of colicin-like bacteriocin; Colicin-like bacteriocins are complex structures with an N-terminal beta-barrel translocation domain (pfam09000), a long double-alpha-helical receptor-binding domain (pfam11570) and this C-terminal RNAse/DNase domain with endonuclease activity. Their competitor bacteriocidal action is by a process that involves binding to a surface receptor, entering the cell, and, finally, killing it. The lethal action of colicin E3 is a specific cleavage in the ribosomal decoding A site. The crystal structure of colicin E3 reveals a Y-shaped molecule with the receptor binding domain forming a 100 Angstrom long stalk and the two globular heads of the translocation domain and this catalytic domain comprising the two arms.


Pssm-ID: 432688  Cd Length: 96  Bit Score: 114.10  E-value: 2.43e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268089425 478 VKYDKDGYPIFNSKYETSLSDSYHLEPDSVQFKYLSQKLYDDIMKDPNLAKQFSQTDIELFKLGKKPKSVTWHHHQETGK 557
Cdd:pfam12639   1 VGFDKEGFPDFSSVAKVQLPIELMKASRDVQFKIANKALKEEVANDPELANQFTKEQLEGIENGKTPEGYTWHHHQDTGT 80
                          90
                  ....*....|....*.
gi 1268089425 558 MQLVDYYEHQVAGHTG 573
Cdd:pfam12639  81 MQLVPTEIHDKTGHTG 96
Nuc_N pfam14448
Nuclease N terminal; This is a conserved short region that is found in many bacterial ...
353-410 7.87e-25

Nuclease N terminal; This is a conserved short region that is found in many bacterial polymorphic toxin proteins. It is often located before C-terminal nuclease domains.


Pssm-ID: 373075  Cd Length: 58  Bit Score: 97.41  E-value: 7.87e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1268089425 353 ADSVSPIFKGVEIMPDGSVVRSGTNYSGKFQEAHDASKASIQSRISNLESGGVKGTGE 410
Cdd:pfam14448   1 ADSVSDIARGAEAGADGTLVRKGTNYSAHVNDAHKASKAKIQSRISRLEKEGIKGTGS 58
 
Name Accession Description Interval E-value
Colicin-DNase pfam12639
DNase/tRNase domain of colicin-like bacteriocin; Colicin-like bacteriocins are complex ...
478-573 2.43e-30

DNase/tRNase domain of colicin-like bacteriocin; Colicin-like bacteriocins are complex structures with an N-terminal beta-barrel translocation domain (pfam09000), a long double-alpha-helical receptor-binding domain (pfam11570) and this C-terminal RNAse/DNase domain with endonuclease activity. Their competitor bacteriocidal action is by a process that involves binding to a surface receptor, entering the cell, and, finally, killing it. The lethal action of colicin E3 is a specific cleavage in the ribosomal decoding A site. The crystal structure of colicin E3 reveals a Y-shaped molecule with the receptor binding domain forming a 100 Angstrom long stalk and the two globular heads of the translocation domain and this catalytic domain comprising the two arms.


Pssm-ID: 432688  Cd Length: 96  Bit Score: 114.10  E-value: 2.43e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1268089425 478 VKYDKDGYPIFNSKYETSLSDSYHLEPDSVQFKYLSQKLYDDIMKDPNLAKQFSQTDIELFKLGKKPKSVTWHHHQETGK 557
Cdd:pfam12639   1 VGFDKEGFPDFSSVAKVQLPIELMKASRDVQFKIANKALKEEVANDPELANQFTKEQLEGIENGKTPEGYTWHHHQDTGT 80
                          90
                  ....*....|....*.
gi 1268089425 558 MQLVDYYEHQVAGHTG 573
Cdd:pfam12639  81 MQLVPTEIHDKTGHTG 96
Nuc_N pfam14448
Nuclease N terminal; This is a conserved short region that is found in many bacterial ...
353-410 7.87e-25

Nuclease N terminal; This is a conserved short region that is found in many bacterial polymorphic toxin proteins. It is often located before C-terminal nuclease domains.


Pssm-ID: 373075  Cd Length: 58  Bit Score: 97.41  E-value: 7.87e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1268089425 353 ADSVSPIFKGVEIMPDGSVVRSGTNYSGKFQEAHDASKASIQSRISNLESGGVKGTGE 410
Cdd:pfam14448   1 ADSVSDIARGAEAGADGTLVRKGTNYSAHVNDAHKASKAKIQSRISRLEKEGIKGTGS 58
WHH pfam14414
A nuclease of the HNH/ENDO VII superfamily with conserved WHH; WHH is a predicted nuclease of ...
541-581 1.65e-13

A nuclease of the HNH/ENDO VII superfamily with conserved WHH; WHH is a predicted nuclease of the HNH/ENDO VII superfamily of the treble clef fold. The name is derived from the conserved motif WHH. It is found in bacterial polymorphic toxin systems and functions as a toxin module. WHH is the shortest version of HNH nuclease families. Like AHH and LHH, the WHH nuclease contains 4 conserved histidines of which the first one is predicted to bind a metal-ion and other three ones are involved in activation of water molecule for hydrolysis.


Pssm-ID: 433943  Cd Length: 43  Bit Score: 64.72  E-value: 1.65e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1268089425 541 GKKPKSVTWHHHQETGKMQLVDYYEHQVAGHTGGRAIWGGG 581
Cdd:pfam14414   3 GATPKGYTWHHLDDTGTMQLVPEELHNATPHTGGVSLWKKG 43
 
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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