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Conserved domains on  [gi|739511035|ref|WP_037370720|]
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colicin D domain-containing protein [Amycolatopsis orientalis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Colicin_D super family cl12957
Colicin D; Colicin D is a tRNase which kills sensitive E.coli cells via a specific tRNA ...
 36-122 8.71e-12

Colicin D; Colicin D is a tRNase which kills sensitive E.coli cells via a specific tRNA cleavage. It targets the four isoaccepting tRNAs for Arg and cleaves the phosphodiester bond between positions 38 and 39 at the 3' junction of the anticodon stem and the loop.


The actual alignment was detected with superfamily member pfam11429:

Pssm-ID: 463278  Cd Length: 85  Bit Score: 56.81  E-value: 8.71e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 739511035   36 QLQSHLKHAKDLGVD-QNWSNAGAKAYGDAQRKFEEDPansiKTANVGRYRGEPAILIDNENTRLCEVLRPDGTYWTGGK 114
Cdd:pfam11429   1 QLQHKFKHAGDFGVAtRNWNKATGAEFEAAIKKHIDNA----PTVHQGTYRGNDAWLVINPNTGAIVYRDGAGNYVTGWK 76


                  ....*...
gi 739511035  115 LNVQQLRN 122
Cdd:pfam11429  77 LSSAQFEN 84
 
Name Accession Description Interval E-value
Colicin_D pfam11429
Colicin D; Colicin D is a tRNase which kills sensitive E.coli cells via a specific tRNA ...
 36-122 8.71e-12

Colicin D; Colicin D is a tRNase which kills sensitive E.coli cells via a specific tRNA cleavage. It targets the four isoaccepting tRNAs for Arg and cleaves the phosphodiester bond between positions 38 and 39 at the 3' junction of the anticodon stem and the loop.


Pssm-ID: 463278  Cd Length: 85  Bit Score: 56.81  E-value: 8.71e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 739511035   36 QLQSHLKHAKDLGVD-QNWSNAGAKAYGDAQRKFEEDPansiKTANVGRYRGEPAILIDNENTRLCEVLRPDGTYWTGGK 114
Cdd:pfam11429   1 QLQHKFKHAGDFGVAtRNWNKATGAEFEAAIKKHIDNA----PTVHQGTYRGNDAWLVINPNTGAIVYRDGAGNYVTGWK 76


                  ....*...
gi 739511035  115 LNVQQLRN 122
Cdd:pfam11429  77 LSSAQFEN 84
 
Name Accession Description Interval E-value
Colicin_D pfam11429
Colicin D; Colicin D is a tRNase which kills sensitive E.coli cells via a specific tRNA ...
 36-122 8.71e-12

Colicin D; Colicin D is a tRNase which kills sensitive E.coli cells via a specific tRNA cleavage. It targets the four isoaccepting tRNAs for Arg and cleaves the phosphodiester bond between positions 38 and 39 at the 3' junction of the anticodon stem and the loop.


Pssm-ID: 463278  Cd Length: 85  Bit Score: 56.81  E-value: 8.71e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 739511035   36 QLQSHLKHAKDLGVD-QNWSNAGAKAYGDAQRKFEEDPansiKTANVGRYRGEPAILIDNENTRLCEVLRPDGTYWTGGK 114
Cdd:pfam11429   1 QLQHKFKHAGDFGVAtRNWNKATGAEFEAAIKKHIDNA----PTVHQGTYRGNDAWLVINPNTGAIVYRDGAGNYVTGWK 76


                  ....*...
gi 739511035  115 LNVQQLRN 122
Cdd:pfam11429  77 LSSAQFEN 84
 
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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