Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C85
  Reference Plasmid   CP048302.1
  Reference Plasmid Size   100159
  Reference Plasmid GC Content   0.52
  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
M0143786 HELBBJNP_00034 33773 3 Gut 0.60 protein_coding synonymous_variant LOW 177T>G Gly59Gly
M0143787 HELBBJNP_00034 33906 3 Gut 0.60 protein_coding missense_variant MODERATE 310A>T Arg104Trp
M0143788 HELBBJNP_00034 33981 3 Gut 0.60 protein_coding missense_variant MODERATE 385A>G Thr129Ala
M0143789 HELBBJNP_00034 34010 3 Gut 0.60 protein_coding synonymous_variant LOW 414C>T Asp138Asp
M0143790 HELBBJNP_00034 34049 3 Gut 0.60 protein_coding synonymous_variant LOW 453T>C Leu151Leu
M0143791 HELBBJNP_00030 34225 3 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -4203G>A None
M0143792 HELBBJNP_00030 34242 3 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -4220T>C None
M0143793 HELBBJNP_00035 34345 3 Gut 0.60 protein_coding missense_variant MODERATE 266C>A Ser89Tyr
M0143794 HELBBJNP_00032 35705 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3360A>G None
M0143795 HELBBJNP_00032 35770 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3425T>G None
M0143796 HELBBJNP_00032 35836 3 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -3491G>A 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
HELBBJNP_00032 VFG043979 Colicin B 100 2.1e-290 1 511 1.0 1 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
HELBBJNP_00056 APL26239.1|GH23 100 3.49e-124 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
HELBBJNP_00029 8.B.24.3.1 99.1 3.2e-64 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
HELBBJNP_00032 1.C.1.3.2 100 1.7e-290 1 511 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family