NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1388234262|gb|AWJ36142|]
View 

colicin D immunity protein (plasmid) [Escherichia coli O103 str. RM8385]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Colicin_immun super family cl07725
Bacterial self-protective colicin-like immunity; Colicin D, which is synthesized by various ...
 7-84 8.56e-04

Bacterial self-protective colicin-like immunity; Colicin D, which is synthesized by various prokaryotes, adopts an antiparallel four helical bundle fold: the helices are tightly packed, forming a compact cylindrical molecule. The protein specifically cleaves the anticodon loop of all four tRNA-Arg isoacceptors, thereby inactivating prokaryotic protein synthesis and leading to cell death. This family also contains immunity proteins to klebicins and microcins. Many bacteria produce proteins that destroy their competitors. Colicin D is one such. The immunity proteins are expressed on the same operon as their cognate bacteriocins and protect the expressing bacterium from the effects of its own bacteriocin.


The actual alignment was detected with superfamily member pfam09204:

Pssm-ID: 401227  Cd Length: 84  Bit Score: 34.75  E-value: 8.56e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1388234262  7 IDLAKLFLASKITAIEFSER---ICVERRRLYGVKDLSPNILNCGEELFMAAERFEPDAD-RADYEIDDNGLKVEVRSIL 82
Cdd:pfam09204  2 LELAKSFINNEISASEFEDAyleLWKTERDNGWLLKDNEKLSEVLDSLFCDVDMYNPDSDfREEYEFDEEQLRKRARQLL 81


                 ..
gi 1388234262 83 EK 84
Cdd:pfam09204 82 NR 83
 
Name Accession Description Interval E-value
Colicin_immun pfam09204
Bacterial self-protective colicin-like immunity; Colicin D, which is synthesized by various ...
 7-84 8.56e-04

Bacterial self-protective colicin-like immunity; Colicin D, which is synthesized by various prokaryotes, adopts an antiparallel four helical bundle fold: the helices are tightly packed, forming a compact cylindrical molecule. The protein specifically cleaves the anticodon loop of all four tRNA-Arg isoacceptors, thereby inactivating prokaryotic protein synthesis and leading to cell death. This family also contains immunity proteins to klebicins and microcins. Many bacteria produce proteins that destroy their competitors. Colicin D is one such. The immunity proteins are expressed on the same operon as their cognate bacteriocins and protect the expressing bacterium from the effects of its own bacteriocin.


Pssm-ID: 401227  Cd Length: 84  Bit Score: 34.75  E-value: 8.56e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1388234262  7 IDLAKLFLASKITAIEFSER---ICVERRRLYGVKDLSPNILNCGEELFMAAERFEPDAD-RADYEIDDNGLKVEVRSIL 82
Cdd:pfam09204  2 LELAKSFINNEISASEFEDAyleLWKTERDNGWLLKDNEKLSEVLDSLFCDVDMYNPDSDfREEYEFDEEQLRKRARQLL 81


                 ..
gi 1388234262 83 EK 84
Cdd:pfam09204 82 NR 83
 
Name Accession Description Interval E-value
Colicin_immun pfam09204
Bacterial self-protective colicin-like immunity; Colicin D, which is synthesized by various ...
 7-84 8.56e-04

Bacterial self-protective colicin-like immunity; Colicin D, which is synthesized by various prokaryotes, adopts an antiparallel four helical bundle fold: the helices are tightly packed, forming a compact cylindrical molecule. The protein specifically cleaves the anticodon loop of all four tRNA-Arg isoacceptors, thereby inactivating prokaryotic protein synthesis and leading to cell death. This family also contains immunity proteins to klebicins and microcins. Many bacteria produce proteins that destroy their competitors. Colicin D is one such. The immunity proteins are expressed on the same operon as their cognate bacteriocins and protect the expressing bacterium from the effects of its own bacteriocin.


Pssm-ID: 401227  Cd Length: 84  Bit Score: 34.75  E-value: 8.56e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1388234262  7 IDLAKLFLASKITAIEFSER---ICVERRRLYGVKDLSPNILNCGEELFMAAERFEPDAD-RADYEIDDNGLKVEVRSIL 82
Cdd:pfam09204  2 LELAKSFINNEISASEFEDAyleLWKTERDNGWLLKDNEKLSEVLDSLFCDVDMYNPDSDfREEYEFDEEQLRKRARQLL 81


                 ..
gi 1388234262 83 EK 84
Cdd:pfam09204 82 NR 83
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH