Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C855
  Reference Plasmid   NZ_CP070230.1
  Reference Plasmid Size   163194
  Reference Plasmid GC Content   0.48
  Reference Plasmid Mobility Type   conjugative





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
M0185137 KCALPIHC_00125 95628 3 Gut 0.12 protein_coding synonymous_variant LOW 321A>T Leu107Leu






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
KCALPIHC_00046 VFG042796 BFP 80.2 1.4e-71 1 162 1.0 1 Adherence minor pilin subunit BfpK experiment
KCALPIHC_00047 VFG000760 BFP 75.4 1.8e-75 1 182 1.0 0.9945 Adherence minor pilin subunit BfpJ experiment
KCALPIHC_00048 VFG042794 BFP 76.2 2.1e-68 1 179 1.0 0.989 Adherence minor pilin subunit BfpI experiment
KCALPIHC_00049 VFG042793 BFP 85.8 3.4e-72 1 148 1.0 1 Adherence lipoprotein experiment
KCALPIHC_00050 VFG000757 BFP 85.9 1.8e-126 1 249 1.0 1 Adherence prepilin peptidase BfpP experiment
KCALPIHC_00051 VFG042791 BFP 96.2 6.3e-172 1 318 1.0 0.9607 Adherence retraction ATPase experiment
KCALPIHC_00052 VFG000755 BFP 96.6 4.6e-192 1 352 1.0 1 Adherence BfpE, polytopic inner membrane protein experiment
KCALPIHC_00053 VFG042789 BFP 90.3 1.3e-281 1 534 1.0 0.9981 Adherence assembly ATPase experiment
KCALPIHC_00054 VFG042788 BFP 79.3 1.3e-67 2 165 0.9939 1 Adherence periplasmic protein experiment
KCALPIHC_00055 VFG000752 BFP 84.6 1.6e-204 1 402 1.0 1 Adherence BfpC, bitopic inner membrane protein experiment
KCALPIHC_00056 VFG000751 BFP 93.8 1.2e-282 1 552 1.0 1 Adherence BfpB secretin experiment
KCALPIHC_00058 VFG042784 BFP 72.8 3.9e-68 1 193 1.0 1 Adherence major pilin structural unit bundlin experiment
KCALPIHC_00046 VFG042796 BFP 80.2 1.1e-70 1 162 1.0 1 Adherence minor pilin subunit BfpK prediction
KCALPIHC_00047 VFG000760 BFP 75.4 1.4e-74 1 182 1.0 0.9945 Adherence minor pilin subunit BfpJ prediction
KCALPIHC_00048 VFG042794 BFP 76.2 1.6e-67 1 179 1.0 0.989 Adherence minor pilin subunit BfpI prediction
KCALPIHC_00049 VFG042793 BFP 85.8 2.6e-71 1 148 1.0 1 Adherence lipoprotein prediction
KCALPIHC_00050 VFG000757 BFP 85.9 1.4e-125 1 249 1.0 1 Adherence prepilin peptidase BfpP prediction
KCALPIHC_00051 VFG042791 BFP 96.2 4.7e-171 1 318 1.0 0.9607 Adherence retraction ATPase prediction
KCALPIHC_00052 VFG000755 BFP 96.6 3.5e-191 1 352 1.0 1 Adherence BfpE, polytopic inner membrane protein prediction
KCALPIHC_00053 VFG042789 BFP 90.3 9.4e-281 1 534 1.0 0.9981 Adherence assembly ATPase prediction
KCALPIHC_00054 VFG042788 BFP 79.3 9.6e-67 2 165 0.9939 1 Adherence periplasmic protein prediction
KCALPIHC_00055 VFG000752 BFP 84.6 1.2e-203 1 402 1.0 1 Adherence BfpC, bitopic inner membrane protein prediction
KCALPIHC_00056 VFG000751 BFP 93.8 8.7e-282 1 552 1.0 1 Adherence BfpB secretin prediction
KCALPIHC_00058 VFG042784 BFP 72.8 2.9e-67 1 193 1.0 1 Adherence major pilin structural unit bundlin prediction
KCALPIHC_00188 VFG036043 AatA, AIDA-I type 97.9 0 1 1165 1.0 1 Adherence autotransporter outer membrane beta-barrel domain-containing protein 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
KCALPIHC_00170 Hydrogen Peroxide (H2O2) [class: Peroxides], Carbonyl cyanide 3-chlorophenylhydrazone (CCCP) [class: Hydrazone], Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Chlorhexidine [class: Biguanides], Sodium Nitrite (NaNo2) [class: Nitrites] 73.1 3.5e-153 8 369 0.9864 0.9973 experiment
KCALPIHC_00170 Hydrogen Peroxide (H2O2) [class: Peroxides], Carbonyl cyanide 3-chlorophenylhydrazone (CCCP) [class: Hydrazone], Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Chlorhexidine [class: Biguanides], Sodium Nitrite (NaNo2) [class: Nitrites] 80.9 9.7e-173 8 369 0.9810 0.9864 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
KCALPIHC_00170 ARO:3004114 80.4 5.48e-219 8 369 0.9810 0.9864 monobactam General Bacterial Porin with reduced permeability to beta-lactams reduced permeability to antibiotic






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
KCALPIHC_00170 PHI:9892 OmpC 79.1 5.2e-169 8 369 0.9810 0.9866 primates shigellosis outer membrane protein C reduced virulence






        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
KCALPIHC_00008 QME74790.1|GH23 99.1 6.71e-156 1 215 1 1
KCALPIHC_00049 QCD71912.1|GH23 100 1.17e-105 1 148 1 1
KCALPIHC_00118 QME74790.1|GH23 99.1 6.71e-156 1 215 1 1





        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
KCALPIHC_00056 1.B.22.7.1 93.8 6.9e-282 1 552 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.22 The Outer Bacterial Membrane Secretin (Secretin) Family
KCALPIHC_00170 1.B.1.1.3 78.4 3.2e-166 8 369 0.9810 0.9864 1 Channels/Pores 1.B β-Barrel Porins 1.B.1 The General Bacterial Porin (GBP) Family