Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C641
  Reference Plasmid   NZ_CP040734.1
  Reference Plasmid Size   29535
  Reference Plasmid GC Content   0.29
  Reference Plasmid Mobility Type   non-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
M0096173 BKPCKCLO_00023 19276 3 Skin 0.08 protein_coding missense_variant MODERATE 426T>A Asn142Lys
M0096174 BKPCKCLO_00005 3594 3 Skin 0.08 protein_coding synonymous_variant LOW 939G>A Glu313Glu
M0096175 BKPCKCLO_00027 28028 3 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -3779T>C None
M0096176 BKPCKCLO_00027 28029 3 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -3780C>A None
M0096177 BKPCKCLO_00027 28031 3 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -3782A>C None






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







        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
BKPCKCLO_00005 Copper (Cu), Silver (Ag) 75.6 0 1 795 1.0000 1.0013 prediction
BKPCKCLO_00006 Copper (Cu) 100 1.6e-33 1 69 1.0000 1.0000 prediction
MANDGOCN_00005 Copper (Cu), Silver (Ag) 75.6 0 1 795 1.0000 1.0013 prediction
MANDGOCN_00006 Copper (Cu) 100 1.6e-33 1 69 1.0000 1.0000 prediction






        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
BKPCKCLO_00023 ARO:3000251 97.5 0 1 488 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
BKPCKCLO_00028 ARO:3008823 97.5 1.01e-191 1 281 1.0000 1.0000 penicillin beta-lactam BlaZ beta-lactamase antibiotic inactivation
MANDGOCN_00023 ARO:3000251 97.5 0 1 488 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
MANDGOCN_00028 ARO:3008823 97.5 1.01e-191 1 281 1.0000 1.0000 penicillin beta-lactam BlaZ beta-lactamase antibiotic inactivation






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
BKPCKCLO_00022 PHI:6324 StpC 85.7 2.9e-109 1 231 1.0000 1.0000 birds skin infection; food poisoning; respiratory disease cysteine protease unaffected pathogenicity
MANDGOCN_00022 PHI:6324 StpC 85.7 2.9e-109 1 231 1.0000 1.0000 birds skin infection; food poisoning; respiratory disease cysteine protease unaffected pathogenicity






        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
BKPCKCLO_00005 3.A.3.5.19 73.6 0 4 795 0.9962 0.9888 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
BKPCKCLO_00023 3.A.1.121.1 99.8 2.5e-275 1 488 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
MANDGOCN_00005 3.A.3.5.19 73.6 0 4 795 0.9962 0.9888 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
MANDGOCN_00023 3.A.1.121.1 99.8 2.5e-275 1 488 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily