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Conserved domains on  [gi|2054988810|ref|WP_216264556|]
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DNA-packaging protein [Klebsiella pneumoniae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GP3_package super family cl25037
DNA-packaging protein gp3; DNA-packaging protein gp3 (terminase small subunit) is involved in ...
 37-134 2.38e-11

DNA-packaging protein gp3; DNA-packaging protein gp3 (terminase small subunit) is involved in DNA packing in bacteriophage. it contains a channel where DNA is bound and passed to DNA-packaging protein gp2 (terminase large subunit).


The actual alignment was detected with superfamily member pfam16677:

Pssm-ID: 435507  Cd Length: 106  Bit Score: 57.44  E-value: 2.38e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2054988810  37 TPQQFFEIAKGYFQWAEENAikaaetatfqgdvnewGVNKPRIFTITGLSLFCGVNQSTLVRY--RHDPNYAPVMEFIDS 114
Cdd:pfam16677   8 SPEELWAAADEYFEWCDQNY----------------EVPGDRPPTVTGLALYLGVSRSTLYDYkkRSREEFSDTIERARQ 71

                          90       100
                  ....*....|....*....|
gi 2054988810 115 VIYEQKFQLAAVGMINASFV 134
Cdd:pfam16677  72 VVENQQLEGALKGRFNSTIV 91
 
Name Accession Description Interval E-value
GP3_package pfam16677
DNA-packaging protein gp3; DNA-packaging protein gp3 (terminase small subunit) is involved in ...
 37-134 2.38e-11

DNA-packaging protein gp3; DNA-packaging protein gp3 (terminase small subunit) is involved in DNA packing in bacteriophage. it contains a channel where DNA is bound and passed to DNA-packaging protein gp2 (terminase large subunit).


Pssm-ID: 435507  Cd Length: 106  Bit Score: 57.44  E-value: 2.38e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2054988810  37 TPQQFFEIAKGYFQWAEENAikaaetatfqgdvnewGVNKPRIFTITGLSLFCGVNQSTLVRY--RHDPNYAPVMEFIDS 114
Cdd:pfam16677   8 SPEELWAAADEYFEWCDQNY----------------EVPGDRPPTVTGLALYLGVSRSTLYDYkkRSREEFSDTIERARQ 71

                          90       100
                  ....*....|....*....|
gi 2054988810 115 VIYEQKFQLAAVGMINASFV 134
Cdd:pfam16677  72 VVENQQLEGALKGRFNSTIV 91
 
Name Accession Description Interval E-value
GP3_package pfam16677
DNA-packaging protein gp3; DNA-packaging protein gp3 (terminase small subunit) is involved in ...
 37-134 2.38e-11

DNA-packaging protein gp3; DNA-packaging protein gp3 (terminase small subunit) is involved in DNA packing in bacteriophage. it contains a channel where DNA is bound and passed to DNA-packaging protein gp2 (terminase large subunit).


Pssm-ID: 435507  Cd Length: 106  Bit Score: 57.44  E-value: 2.38e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2054988810  37 TPQQFFEIAKGYFQWAEENAikaaetatfqgdvnewGVNKPRIFTITGLSLFCGVNQSTLVRY--RHDPNYAPVMEFIDS 114
Cdd:pfam16677   8 SPEELWAAADEYFEWCDQNY----------------EVPGDRPPTVTGLALYLGVSRSTLYDYkkRSREEFSDTIERARQ 71

                          90       100
                  ....*....|....*....|
gi 2054988810 115 VIYEQKFQLAAVGMINASFV 134
Cdd:pfam16677  72 VVENQQLEGALKGRFNSTIV 91
 
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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