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Conserved domains on  [gi|1277932417|gb|PIV32003|]
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hypothetical protein COS33_00225 [Candidatus Wolfebacteria bacterium CG02_land_8_20_14_3_00_37_12]

Protein Classification

PDDEXK family nuclease( domain architecture ID 1750065)

PDDEXK family nuclease similar to Halobacterium salinarum endonuclease NucS 1 that cleaves both 3' and 5' ssDNA extremities of branched DNA structures

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PDDEXK_nuclease-like super family cl40440
PDDEXK family nucleases; Superfamily of PDDEXK nucleases including very short patch repair ...
 163-246 4.03e-09

PDDEXK family nucleases; Superfamily of PDDEXK nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


The actual alignment was detected with superfamily member cd22324:

Pssm-ID: 477358  Cd Length: 114  Bit Score: 52.96  E-value: 4.03e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277932417 163 FYSRWEANFARLLNLLNIEWIFQAKTF---DLRTQTYTPDFYLPKyDIWIEIKNFL--SDYSKNRddKFRKLYPDKNLIL 237
Cdd:cd22324     1 FRSGLEAKIADQLKKLGIKYEYETEKIpyiYVIEHTYTPDFILPN-GIIIEAKGRFdsEDRKKHL--LVKEQHPDLDIRF 77


                  ....*....
gi 1277932417 238 ILKEDYLKL 246
Cdd:cd22324    78 VFQNPNNKI 86
 
Name Accession Description Interval E-value
Endonuclease_I cd22324
Endonuclease I and similar nucleases; Junction-resolving T7 endonuclease I is a nuclease that ...
 163-246 4.03e-09

Endonuclease I and similar nucleases; Junction-resolving T7 endonuclease I is a nuclease that is selective for the structure of the four-way DNA junction, it belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411728  Cd Length: 114  Bit Score: 52.96  E-value: 4.03e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277932417 163 FYSRWEANFARLLNLLNIEWIFQAKTF---DLRTQTYTPDFYLPKyDIWIEIKNFL--SDYSKNRddKFRKLYPDKNLIL 237
Cdd:cd22324     1 FRSGLEAKIADQLKKLGIKYEYETEKIpyiYVIEHTYTPDFILPN-GIIIEAKGRFdsEDRKKHL--LVKEQHPDLDIRF 77


                  ....*....
gi 1277932417 238 ILKEDYLKL 246
Cdd:cd22324    78 VFQNPNNKI 86
 
Name Accession Description Interval E-value
Endonuclease_I cd22324
Endonuclease I and similar nucleases; Junction-resolving T7 endonuclease I is a nuclease that ...
 163-246 4.03e-09

Endonuclease I and similar nucleases; Junction-resolving T7 endonuclease I is a nuclease that is selective for the structure of the four-way DNA junction, it belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411728  Cd Length: 114  Bit Score: 52.96  E-value: 4.03e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277932417 163 FYSRWEANFARLLNLLNIEWIFQAKTF---DLRTQTYTPDFYLPKyDIWIEIKNFL--SDYSKNRddKFRKLYPDKNLIL 237
Cdd:cd22324     1 FRSGLEAKIADQLKKLGIKYEYETEKIpyiYVIEHTYTPDFILPN-GIIIEAKGRFdsEDRKKHL--LVKEQHPDLDIRF 77


                  ....*....
gi 1277932417 238 ILKEDYLKL 246
Cdd:cd22324    78 VFQNPNNKI 86
 
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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