Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C794
  Reference Plasmid   NZ_CP064344.1
  Reference Plasmid Size   196063
  Reference Plasmid GC Content   0.36
  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
M0183747 JDGJGJKG_00001 2154 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -658C>T 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
JDGJGJKG_00017 VFG042998 Bee (biofilm enhancer in enterococci) 99.2 9.6e-208 1 373 1.0 1 Adherence Srt2 prediction
JDGJGJKG_00018 VFG042997 Bee (biofilm enhancer in enterococci) 98.2 1.6e-213 1 381 1.0 0.9573 Adherence Srt1 prediction
JDGJGJKG_00022 VFG042996 Bee (biofilm enhancer in enterococci) 98.4 3.4e-277 1 495 1.0 1 Adherence Bee3 prediction
JDGJGJKG_00023 VFG042995 Bee (biofilm enhancer in enterococci) 98.8 4.3e-132 1 243 1.0 1 Adherence Bee2 prediction
JDGJGJKG_00064 VFG042989 PilA-type pili (PGS1, pilin gene clusters 1) 96.7 4.7e-99 1 183 1.0 0.8206 Adherence putative housekeeping sortase prediction
JDGJGJKG_00065 VFG042988 PilA-type pili (PGS1, pilin gene clusters 1) 99.1 0 1 659 1.0 1.0015 Adherence PilA prediction
JDGJGJKG_00066 VFG042987 PilA-type pili (PGS1, pilin gene clusters 1) 100 1.3e-139 1 250 1.0 1 Adherence putative pilus-dedicated sortase prediction
JDGJGJKG_00067 VFG042986 PilA-type pili (PGS1, pilin gene clusters 1) 97.6 7.1e-130 1 253 1.0 1.008 Adherence cell wall-associated LPXTG-like protein prediction
JDGJGJKG_00068 VFG042985 PilA-type pili (PGS1, pilin gene clusters 1) 96.5 2.4e-37 1 86 1.0 1 Adherence hypothetical hydrophobic peptide prediction
JDGJGJKG_00069 VFG042984 PilA-type pili (PGS1, pilin gene clusters 1) 99.6 0 1 696 1.0 1 Adherence minor pilin subunit 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
JDGJGJKG_00004 ARO:3000375 98.4 5.61e-174 1 245 1.0000 0.9879 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration






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
JDGJGJKG_00125 PHI:5205 HMPREF0351_10118 (WxL locusC) 100 1e-226 1 392 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
JDGJGJKG_00138 PHI:5205 HMPREF0351_10118 (WxL locusC) 77.9 2e-23 13 80 0.8095 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
JDGJGJKG_00173 PHI:5205 HMPREF0351_10118 (WxL locusC) 70.7 2.9e-162 1 388 0.9974 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
JDGJGJKG_00201 PHI:5205 HMPREF0351_10118 (WxL locusC) 100 1.1e-29 44 106 0.5943 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis 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
JDGJGJKG_00035 QMV94803.1|GH32 100 0 1 490 1 1
JDGJGJKG_00080 CVH54206.1|GH73 100 3.54e-274 1 401 1 1
JDGJGJKG_00119 QZK92746.1|GH1 100 0 1 468 1 1
JDGJGJKG_00145 QMV94891.1|GH32 100 0 1 479 1 1
JDGJGJKG_00172 CCO10203.2|GH1 86.9 1.56e-244 1 390 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
JDGJGJKG_00118 4.A.3.1.1 71.5 9.7e-239 1 568 1.0000 0.9965 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.3 The PTS Lactose-N,N'-Diacetylchitobiose-β-glucoside (Lac) Family