Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C396
  Reference Plasmid   NZ_AP028095.1
  Reference Plasmid Size   132775
  Reference Plasmid GC Content   0.46
  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
M0163773 CFFADJCK_00075 69137 7 Gut 1.00 protein_coding missense_variant MODERATE 60G>C Lys20Asn






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
CFFADJCK_00052 VFG000845 ToxB 99.7 0 1 3169 1.0 1 Effector delivery system cytotoxin experiment
CFFADJCK_00090 VFG034721 Ibes 82.5 1.4e-258 1 513 0.9981 0.8891 Invasion phosphoethanolamine transferase CptA experiment
CFFADJCK_00111 VFG000843 Hemolysin 100 1.2e-267 1 479 1.0 1 Exotoxin Hemolysin D experiment
CFFADJCK_00112 VFG000841 Hemolysin 99.4 0 1 706 1.0 1 Exotoxin Hemolysin B experiment
CFFADJCK_00113 VFG000840 Hemolysin 99.5 0 1 998 1.0 1 Exotoxin Hemolysin A experiment
CFFADJCK_00114 VFG000842 Hemolysin 100 3.1e-101 1 171 1.0 1 Exotoxin Hemolysin C experiment
CFFADJCK_00052 VFG000845 ToxB 99.7 0 1 3169 1.0 1 Effector delivery system cytotoxin prediction
CFFADJCK_00090 VFG034689 Ibes 99.8 3.6e-306 1 514 1.0 0.897 Invasion phosphoethanolamine transferase CptA prediction
CFFADJCK_00111 VFG000843 Hemolysin 100 9e-267 1 479 1.0 1 Exotoxin Hemolysin D prediction
CFFADJCK_00112 VFG033882 Hemolysin 99.9 0 1 706 1.0 1 Exotoxin Hemolysin B prediction
CFFADJCK_00113 VFG033890 Hemolysin 99.8 0 1 998 1.0 1 Exotoxin Hemolysin A prediction
CFFADJCK_00114 VFG000842 Hemolysin 100 2.3e-100 1 171 1.0 1 Exotoxin Hemolysin C 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
CFFADJCK_00022 PHI:7262 cspC 71.2 1.9e-22 3 67 0.9155 0.9565 primates salmonellosis cold shock protein 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
CFFADJCK_00021 AMG93471.1|GH0|GH94|GT84 98.7 0 1 2858 1 0.9993
CFFADJCK_00052 QBO48290.1|GT44 100 0 1 3169 1 1
CFFADJCK_00083 AUL82772.1|GT44 99.6 0 1 2981 1 1
CFFADJCK_00088 QBO48310.1|GT4 100 2.65e-266 1 368 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
CFFADJCK_00052 1.C.57.2.1 99.7 0 1 3169 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.57 The Clostridial Cytotoxin (CCT) Family
CFFADJCK_00110 8.B.24.3.1 97.4 3.6e-63 1 117 1.0000 0.8298 8 Accessory Factors Involved in Transport 8.B Ribosomally synthesized protein/peptide toxins/agonists that target channels and carriers 8.B.24 The Colicin Immunity Protein (ColIP) Functional Family
CFFADJCK_00112 3.A.1.109.1 73.4 5.9e-302 11 706 0.9858 0.9844 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
CFFADJCK_00113 1.C.11.1.6 97.9 0 1 998 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.11 The Pore-forming RTX Toxin (RTX-toxin) Family