Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1038
  Reference Plasmid   NZ_CP099980.1
  Reference Plasmid Size   180811
  Reference Plasmid GC Content   0.35
  Reference Plasmid Mobility Type   non-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
M0193421 FMOBEJJF_00163 157332 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -4587G>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
FMOBEJJF_00107 VFG002197 BopD 84.5 5.7e-163 1 336 0.9912 1 Biofilm sugar-binding transcriptional regulator, LacI family experiment
FMOBEJJF_00015 VFG042998 Bee (biofilm enhancer in enterococci) 98.4 8.2e-207 1 373 1.0 1 Adherence Srt2 prediction
FMOBEJJF_00016 VFG042997 Bee (biofilm enhancer in enterococci) 98.7 3.9e-223 1 398 1.0 1 Adherence Srt1 prediction
FMOBEJJF_00017 VFG042996 Bee (biofilm enhancer in enterococci) 98.2 1.4e-275 1 495 1.0 1 Adherence Bee3 prediction
FMOBEJJF_00018 VFG042995 Bee (biofilm enhancer in enterococci) 98.8 5.1e-133 1 243 1.0 1 Adherence Bee2 prediction
FMOBEJJF_00107 VFG045671 BopD 88.8 6.8e-168 1 337 0.9941 0.9941 Biofilm sugar-binding transcriptional regulator, LacI family prediction
FMOBEJJF_00182 VFG042998 Bee (biofilm enhancer in enterococci) 98.4 8.2e-207 1 373 1.0 1 Adherence Srt2 prediction
FMOBEJJF_00183 VFG042997 Bee (biofilm enhancer in enterococci) 98.7 3.9e-223 1 398 1.0 1 Adherence Srt1 prediction
FMOBEJJF_00184 VFG042996 Bee (biofilm enhancer in enterococci) 98.2 1.4e-275 1 495 1.0 1 Adherence Bee3 prediction
FMOBEJJF_00185 VFG042995 Bee (biofilm enhancer in enterococci) 98.8 5.1e-133 1 243 1.0 1 Adherence Bee2 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
FMOBEJJF_00029 PHI:5205 HMPREF0351_10118 (WxL locusC) 89.6 4.4e-206 1 394 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
FMOBEJJF_00044 PHI:5205 HMPREF0351_10118 (WxL locusC) 72.3 6.5e-170 1 389 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
FMOBEJJF_00116 PHI:5205 HMPREF0351_10118 (WxL locusC) 78.6 2e-182 1 392 0.9899 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
FMOBEJJF_00123 PHI:5205 HMPREF0351_10118 (WxL locusC) 71.5 1.8e-167 1 389 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
FMOBEJJF_00126 PHI:5205 HMPREF0351_10118 (WxL locusC) 74.2 1.9e-172 1 392 0.9899 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
FMOBEJJF_00110 QAR74517.1|GH65 99.9 0 1 764 1 1
FMOBEJJF_00128 VEF84274.1|GH32 99.8 0 1 479 1 1
FMOBEJJF_00158 AOM14759.1|GH13_18 100 0 1 486 1 1
FMOBEJJF_00159 QQJ93880.1|GH13_31 100 8.67e-306 14 419 0.969 1
FMOBEJJF_00160 QAA21152.1|GH36 100 0 1 727 1 1
FMOBEJJF_00164 AWV59846.1|GH4 100 0 1 436 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
FMOBEJJF_00039 3.A.1.122.3 89.2 1.6e-192 1 399 1.0000 1.7577 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FMOBEJJF_00040 3.A.1.122.3 92.5 3.1e-119 1 227 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FMOBEJJF_00041 3.A.1.122.3 75.8 3.6e-163 3 405 0.9951 1.7797 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FMOBEJJF_00161 3.A.1.1.28 75.3 5.4e-118 5 276 0.9855 0.7294 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FMOBEJJF_00162 3.A.1.1.28 74.1 2.8e-125 1 290 1.0000 0.7692 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily