Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1171
  Reference Plasmid   NZ_CP127305.1
  Reference Plasmid Size   13349
  Reference Plasmid GC Content   0.50
  Reference Plasmid Mobility Type   mobilizable





Mutation sites in the plasmid cluster


The table lists mutations identified in the plasmid cluster.
Note: Mutations identified in this plasmid cluster are listed below. Click on a mutation ID to view full details..

mutid gname pos count tissue frequnt biotype consequence impact nucchange aachange
M0199174 PPPLKLJG_00002 6504 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4009A>G None
M0199175 PPPLKLJG_00010 6844 5 Gut 1.00 protein_coding missense_variant MODERATE 236A>G Gln79Arg
M0199176 PPPLKLJG_00010 7059 5 Gut 1.00 protein_coding synonymous_variant LOW 21T>C Ile7Ile
M0199177 PPPLKLJG_00011 7088 4 Gut 0.80 protein_coding synonymous_variant LOW 2082G>A Thr694Thr
M0199178 PPPLKLJG_00005 9784 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -4802A>G None
M0199179 PPPLKLJG_00014 10089 4 Gut 0.80 protein_coding missense_variant MODERATE 1568G>A Arg523Gln
M0199180 PPPLKLJG_00014 10226 4 Gut 0.80 protein_coding synonymous_variant LOW 1431T>A Ala477Ala
M0199181 PPPLKLJG_00014 10482 4 Gut 0.80 protein_coding missense_variant MODERATE 1175T>C Val392Ala
M0199182 PPPLKLJG_00014 10775 4 Gut 0.80 protein_coding synonymous_variant LOW 882C>T Asp294Asp
M0199183 PPPLKLJG_00014 11000 4 Gut 0.80 protein_coding synonymous_variant LOW 657C>T Gly219Gly
M0199184 PPPLKLJG_00014 11045 4 Gut 0.80 protein_coding synonymous_variant LOW 612G>T Val204Val
M0199185 PPPLKLJG_00014 11465 3 Gut 0.60 protein_coding synonymous_variant LOW 192A>C Thr64Thr
M0199186 PPPLKLJG_00014 11519 3 Gut 0.60 protein_coding synonymous_variant LOW 138C>G Ala46Ala
M0199187 PPPLKLJG_00015 11658 3 Gut 0.60 protein_coding synonymous_variant LOW 336C>G Arg112Arg






Analysis of virulence factors contributing to bacterial pathogenicity


This table presents virulence factors identified within the plasmid cluster.
      Note: Virulence factor analysis was performed using VFDB. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known virulence factors are listed.

Gene Name vf_gene_id vf_name identity evalue qstart qend query_coverage subject_coverage vf_category gene_description condition
PPPLKLJG_00002 VFG043979 Colicin B 80.4 1.6e-168 1 382 0.5481 0.7476 Exotoxin colicin B prediction
PPPLKLJG_00011 VFG043979 Colicin B 80.4 1.6e-168 1 382 0.5481 0.7476 Exotoxin colicin B prediction







        Analysis of biocide and heavy metal resistance genes to assess antimicrobial risk and environmental impact


This table presents biocides and heavy metals resistance genes identified within the plasmid cluster.
      Note: Analyzing biocide and heavy metal resistance genes based on BacMet to evaluate bacterial resistance risk and the potential impact of environmental heavy metal contamination. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, E-value < 1e-5) to known biocide and heavy metal resistance genes are listed.

Gene Name compound identity evalue qstart qend query_coverage subject_coverage group






        Analyzing antimicrobial resistance genes to assess bacterial resistance to antibiotics and other antimicrobial agents


This table presents antimicrobial resistance genes identified within the plasmid cluster.
      Note: Antimicrobial resistance was performed using CARD. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known antimicrobial resistance genes are listed.

Gene Name aro_accession identity evalue qstart qend query_coverage subject_coverage drug_class amr_gene_family resistance_mechanism






Analysis of pathogenicity genes to explore pathogen-host interactions


This table presents host pathogen-host interactions within the plasmid cluster.
      Note: Analyzing pathogenicity-related genes using PHI-base to understand pathogen virulence mechanisms and their impact on host interactions. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e-5) to known pathogenicity-related genes are listed.

Gene Name phi_molconn_id host gene_name identity evalue qstart qend query_coverage subject_coverage host_descripton disease_name function phenotype_of_mutant






        Analyzing carbohydrate-active enzyme genes to uncover mechanisms of nutrient degradation


This table presents carbohydrate-active enzyme genes identified within the plasmid cluster.
      Note: Annotation of carbohydrate-active enzyme genes was performed using CAZy to explore mechanisms of nutrient breakdown and utilization. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known CAZyme genes are listed.

Gene Name cazy_id identity evalue qstart qend query_coverage subject_coverage





        Analyzing transport proteins to understand bacterial strategies for substrate uptake and detoxification


This table presents transport proteins within the plasmid cluster.
      Note: Investigation of transport proteins based on TCDB to uncover bacterial mechanisms of substrate transport and environmental detoxification. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known transport protein entries are listed.

Gene Name tcid identity evalue qstart qend query_coverage subject_coverage class_field class_term subclass subclass_term family family_term
PPPLKLJG_00002 1.C.1.3.2 80.4 1.3e-168 1 382 0.5481 0.7593 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family
PPPLKLJG_00011 1.C.1.3.2 80.4 1.3e-168 1 382 0.5481 0.7593 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family