Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C296
  Reference Plasmid   NC_010862.1
  Reference Plasmid Size   101558
  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
M0151402 ABGIMBDJ_00025 26591 3 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -3353A>G None
M0151403 ABGIMBDJ_00030 27713 3 Gut 0.23 protein_coding missense_variant MODERATE 28T>C Tyr10His






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
ABGIMBDJ_00003 VFG042784 BFP 100 3.5e-101 1 193 1.0 1 Adherence major pilin structural unit bundlin experiment
ABGIMBDJ_00004 VFG000750 BFP 100 9.6e-74 1 133 1.0 1 Adherence BFP biogenesis protein BfpG experiment
ABGIMBDJ_00005 VFG000751 BFP 100 5.1e-302 1 552 1.0 1 Adherence BfpB secretin experiment
ABGIMBDJ_00006 VFG000752 BFP 100 2.5e-242 1 402 1.0 1 Adherence BfpC, bitopic inner membrane protein experiment
ABGIMBDJ_00007 VFG042788 BFP 100 1.4e-85 1 164 1.0 1 Adherence periplasmic protein experiment
ABGIMBDJ_00008 VFG042789 BFP 100 3.40000000000022e-311 1 534 1.0 0.9981 Adherence assembly ATPase experiment
ABGIMBDJ_00009 VFG000755 BFP 100 3.3e-198 1 352 1.0 1 Adherence BfpE, polytopic inner membrane protein experiment
ABGIMBDJ_00010 VFG042791 BFP 100 2.5e-187 1 331 1.0 1 Adherence retraction ATPase experiment
ABGIMBDJ_00011 VFG000757 BFP 100 2.3e-145 1 249 1.0 1 Adherence prepilin peptidase BfpP experiment
ABGIMBDJ_00012 VFG042793 BFP 100 5.7e-83 1 148 1.0 1 Adherence lipoprotein experiment
ABGIMBDJ_00013 VFG042794 BFP 100 1e-97 1 181 1.0 1 Adherence minor pilin subunit BfpI experiment
ABGIMBDJ_00014 VFG000760 BFP 100 8.8e-102 1 183 1.0 1 Adherence minor pilin subunit BfpJ experiment
ABGIMBDJ_00015 VFG042796 BFP 100 2.4e-87 1 162 1.0 1 Adherence minor pilin subunit BfpK experiment
ABGIMBDJ_00016 VFG000762 BFP 100 3.7e-82 1 149 1.0 1 Adherence BFP biogenesis protein BfpL experiment
ABGIMBDJ_00019 VFG000763 Per 99.3 9e-151 1 274 1.0 1 Regulation BfpT experiment
ABGIMBDJ_00020 VFG000764 Per 100 5.1e-72 1 129 1.0 1 Regulation BfpV experiment
ABGIMBDJ_00021 VFG000765 Per 100 9.7e-46 1 89 1.0 1 Regulation BfpW experiment
ABGIMBDJ_00081 VFG001445 TraJ 98.5 1.2e-113 1 200 0.8772 0.995 Invasion unknown protein experiment
ABGIMBDJ_00003 VFG042784 BFP 100 2.6e-100 1 193 1.0 1 Adherence major pilin structural unit bundlin prediction
ABGIMBDJ_00004 VFG000750 BFP 100 7.2e-73 1 133 1.0 1 Adherence BFP biogenesis protein BfpG prediction
ABGIMBDJ_00005 VFG000751 BFP 100 3.8e-301 1 552 1.0 1 Adherence BfpB secretin prediction
ABGIMBDJ_00006 VFG000752 BFP 100 1.9e-241 1 402 1.0 1 Adherence BfpC, bitopic inner membrane protein prediction
ABGIMBDJ_00007 VFG042788 BFP 100 1e-84 1 164 1.0 1 Adherence periplasmic protein prediction
ABGIMBDJ_00008 VFG042789 BFP 100 2.50000000000002e-310 1 534 1.0 0.9981 Adherence assembly ATPase prediction
ABGIMBDJ_00009 VFG000755 BFP 100 2.5e-197 1 352 1.0 1 Adherence BfpE, polytopic inner membrane protein prediction
ABGIMBDJ_00010 VFG042791 BFP 100 1.9e-186 1 331 1.0 1 Adherence retraction ATPase prediction
ABGIMBDJ_00011 VFG000757 BFP 100 1.7e-144 1 249 1.0 1 Adherence prepilin peptidase BfpP prediction
ABGIMBDJ_00012 VFG042793 BFP 100 4.2e-82 1 148 1.0 1 Adherence lipoprotein prediction
ABGIMBDJ_00013 VFG042794 BFP 100 7.4e-97 1 181 1.0 1 Adherence minor pilin subunit BfpI prediction
ABGIMBDJ_00014 VFG000760 BFP 100 6.6e-101 1 183 1.0 1 Adherence minor pilin subunit BfpJ prediction
ABGIMBDJ_00015 VFG042796 BFP 100 1.8e-86 1 162 1.0 1 Adherence minor pilin subunit BfpK prediction
ABGIMBDJ_00016 VFG000762 BFP 100 2.8e-81 1 149 1.0 1 Adherence BFP biogenesis protein BfpL prediction
ABGIMBDJ_00019 VFG000763 Per 99.3 6.7e-150 1 274 1.0 1 Regulation BfpT prediction
ABGIMBDJ_00020 VFG000764 Per 100 3.8e-71 1 129 1.0 1 Regulation BfpV prediction
ABGIMBDJ_00021 VFG000765 Per 100 7.2e-45 1 89 1.0 1 Regulation BfpW prediction
ABGIMBDJ_00081 VFG001445 TraJ 98.5 9.3e-113 1 200 0.8772 0.995 Invasion unknown 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






        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
ABGIMBDJ_00027 ARO:3000874 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM 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
ABGIMBDJ_00019 PHI:3803 PerA 100 1.6e-151 1 274 1.0000 1.0000 nematodes hemorrhagic colitis; hemolytic uremic syndrome LPS O-side chain 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
ABGIMBDJ_00012 CAS07448.1|GH23 100 2.28e-103 1 148 1 1
ABGIMBDJ_00083 CAS07513.1|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
ABGIMBDJ_00005 1.B.22.7.1 100 3e-301 1 552 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.22 The Outer Bacterial Membrane Secretin (Secretin) Family