Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1360
  Reference Plasmid   NZ_LT174529.1
  Reference Plasmid Size   58912
  Reference Plasmid GC Content   0.46
  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
M0207152 HKIEJJPM_00020 13726 3 Gut 0.19 protein_coding missense_variant MODERATE 601T>C Ser201Pro
M0207153 HKIEJJPM_00021 15014 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -262A>G None
M0207154 HKIEJJPM_00025 16890 4 Gut 0.25 protein_coding synonymous_variant LOW 111G>A Pro37Pro
M0207155 HKIEJJPM_00057 40232 3 Gut 0.19 protein_coding missense_variant MODERATE 1148T>C Phe383Ser
M0207156 HKIEJJPM_00057 40414 3 Gut 0.19 protein_coding synonymous_variant LOW 966C>T Arg322Arg






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
HKIEJJPM_00070 VFG002039 Heat-stable toxin (ST) 100 7.4e-36 1 72 1.0 1 Exotoxin heat stable enterotoxin I experiment
HKIEJJPM_00075 VFG036066 Heat-labile toxin (LT) 99.5 1.8e-130 1 218 1.0 0.845 Exotoxin heat-labile enterotoxin A prepeptide (from human) experiment
HKIEJJPM_00076 VFG036068 Heat-labile toxin (LT) 100 4.8e-67 1 124 1.0 1 Exotoxin enterotoxin subunit B (from human) experiment
HKIEJJPM_00048 VFG042518 Adhesive fimbriae 97 5.8e-227 1 396 1.0 0.995 Adherence FotG prediction
HKIEJJPM_00049 VFG042517 Adhesive fimbriae 93.8 6.2e-88 1 178 1.0 0.9674 Adherence FotF prediction
HKIEJJPM_00050 VFG042516 Adhesive fimbriae 90.4 5.5e-68 1 136 1.0 1 Adherence FotE prediction
HKIEJJPM_00051 VFG042515 Adhesive fimbriae 76.9 0 1 835 1.0 1 Adherence FotD prediction
HKIEJJPM_00054 VFG001439 Adhesive fimbriae 75.4 3.4e-66 8 194 0.9303 0.959 Adherence CS20 fimbria major subunit protein prediction
HKIEJJPM_00055 VFG042511 Adhesive fimbriae 99 2.8e-110 1 191 1.0 1 Adherence FotT prediction
HKIEJJPM_00056 VFG042510 Adhesive fimbriae 100 1.6e-116 1 194 0.97 0.9749 Adherence FotS prediction
HKIEJJPM_00070 VFG002039 Heat-stable toxin (ST) 100 5.5e-35 1 72 1.0 1 Exotoxin heat stable enterotoxin I prediction
HKIEJJPM_00075 VFG036066 Heat-labile toxin (LT) 99.5 1.4e-129 1 218 1.0 0.845 Exotoxin heat-labile enterotoxin A prepeptide (from human) prediction
HKIEJJPM_00076 VFG036068 Heat-labile toxin (LT) 100 3.6e-66 1 124 1.0 1 Exotoxin enterotoxin subunit B (from human) 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
HKIEJJPM_00075 PHI:698 CtxA 80.3 1.4e-105 1 218 1.0000 0.8450 primates cholera Cholera toxin (CT) reduced virulence
HKIEJJPM_00076 PHI:699 CtxB 78.2 1.9e-51 1 124 1.0000 1.0000 primates cholera Cholera toxin (CT) 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
HKIEJJPM_00021 CZQ23788.1|GH23 100 2.02e-123 1 169 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
HKIEJJPM_00030 1.E.53.1.11 97.1 1.9e-32 1 68 1.0000 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
HKIEJJPM_00075 1.C.72.4.1 99.5 1.1e-129 1 218 1.0000 0.8450 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.72 The Pertussis Toxin (PTX) Family