Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C663
  Reference Plasmid   NZ_CP044051.1
  Reference Plasmid Size   282877
  Reference Plasmid GC Content   0.46
  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
M0097186 BJMEIABF_00206 178257 3 Skin 0.23 protein_coding synonymous_variant LOW 933C>T Asp311Asp
M0097187 BJMEIABF_00206 178306 4 Skin 0.31 protein_coding missense_variant MODERATE 884C>T Ala295Val
M0097188 BJMEIABF_00206 178739 5 Skin 0.38 protein_coding missense_variant MODERATE 451A>G Lys151Glu
M0097189 BJMEIABF_00206 179035 3 Skin 0.23 protein_coding missense_variant MODERATE 155T>C Val52Ala






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







        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
BJMEIABF_00139 Arsenic (As) 83.8 2e-114 1 234 1.0000 1.0086 experiment
BJMEIABF_00140 Arsenic (As) 84.3 1.2e-42 1 89 0.8396 0.7607 experiment
BJMEIABF_00141 Arsenic (As), Antimony (Sb) 86.5 9.8e-208 1 429 1.0000 1.0000 experiment
BJMEIABF_00142 Arsenic (As), Antimony (Sb) 90 2.4e-70 1 140 0.9929 0.9929 experiment
BJMEIABF_00161 Cobalt (Co), Nickel (Ni), Iron (Fe) 92.2 8.7e-42 1 90 1.0000 1.0000 experiment
BJMEIABF_00162 Nickel (Ni) 74.1 2.4e-162 1 369 1.0081 0.9947 experiment
BJMEIABF_00163 Copper (Cu), Silver (Ag) 91.7 3.7e-66 1 144 1.0000 1.0000 experiment
BJMEIABF_00164 Copper (Cu) 98 1.1e-249 1 448 1.0000 0.9614 experiment
BJMEIABF_00252 Tellurium (Te) 88.5 1.4e-97 1 191 1.0000 1.0000 experiment
BJMEIABF_00253 Tellurium (Te) 95.3 5.5e-102 1 192 1.0000 1.0000 experiment
BJMEIABF_00254 Tellurium (Te) 90.5 1.4e-175 1 346 1.0000 1.0000 experiment
BJMEIABF_00255 Tellurium (Te) 92.4 5e-58 1 118 0.7815 0.9672 experiment
BJMEIABF_00256 Tellurium (Te) 77.8 2e-159 45 385 0.8909 1.0118 experiment
BJMEIABF_00257 Tellurium (Te) 99.5 6.5e-111 1 193 1.0000 1.0000 experiment
BJMEIABF_00264 Tellurium (Te) 99.4 3.1e-79 1 155 1.0000 1.0000 experiment
BJMEIABF_00139 Arsenic (As) 100 2.3e-119 27 234 0.8889 1.0000 prediction
BJMEIABF_00140 Arsenic (As) 100 2.1e-56 1 106 1.0000 1.0000 prediction
BJMEIABF_00141 Arsenic (As), Antimony (Sb) 86.9 1.2e-206 1 429 1.0000 1.0000 prediction
BJMEIABF_00142 Arsenic (As) 100 9.3e-76 1 141 1.0000 1.0000 prediction
BJMEIABF_00161 Cobalt (Co), Nickel (Ni), Iron (Fe) 100 1.1e-42 1 90 1.0000 1.0000 prediction
BJMEIABF_00162 Nickel (Ni) 74.5 1.5e-160 1 370 1.0135 0.9973 prediction
BJMEIABF_00163 Copper (Cu), Silver (Ag) 100 1.3e-69 1 144 1.0000 1.0000 prediction
BJMEIABF_00164 Copper (Cu) 100 5.1e-253 1 448 1.0000 1.0000 prediction
BJMEIABF_00252 Tellurium (Te) 89.5 4.9e-96 1 191 1.0000 1.0000 prediction
BJMEIABF_00253 Tellurium (Te) 99.5 8.5e-104 1 192 1.0000 1.0000 prediction
BJMEIABF_00254 Tellurium (Te) 100 7.4e-191 1 346 1.0000 1.0000 prediction
BJMEIABF_00255 Tellurium (Te) 99.3 7.4e-79 1 151 1.0000 1.0000 prediction
BJMEIABF_00256 Tellurium (Te) 79.6 2.4e-182 1 385 1.0052 1.0104 prediction
BJMEIABF_00257 Tellurium (Te) 100 3.9e-109 1 193 1.0000 1.0000 prediction
BJMEIABF_00264 Tellurium (Te) 100 1.9e-77 1 155 1.0000 1.0000 prediction






        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
BJMEIABF_00079 ARO:3003479 100 1.46e-152 1 207 1.0000 0.9952 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic target alteration
BJMEIABF_00080 ARO:3000166 99.5 7.52e-284 1 401 1.0000 1.0000 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
BJMEIABF_00201 ARO:3002639 99.6 5.98e-202 1 267 1.0000 1.0000 aminoglycoside antibiotic APH(3'') antibiotic inactivation
BJMEIABF_00202 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation
BJMEIABF_00221 ARO:3002639 99.6 5.98e-202 1 267 1.0000 1.0000 aminoglycoside antibiotic APH(3'') antibiotic inactivation
BJMEIABF_00222 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) 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






        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
BJMEIABF_00116 AXN77054.1|GH23 100 4.52e-134 1 179 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
BJMEIABF_00072 1.E.53.1.7 95.8 3.4e-32 1 71 1.0000 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
BJMEIABF_00075 2.A.27.1.4 100 5.3e-215 1 401 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.27 The Glutamate:Na+ Symporter (ESS) Family
BJMEIABF_00080 2.A.1.2.68 100 2.2e-221 1 401 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
BJMEIABF_00141 3.A.4.1.1 86.5 8.2e-206 1 429 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.4 The Arsenite-Antimonite (ArsAB) Efflux Family
BJMEIABF_00144 2.A.53.3.1 99.8 1.2e-269 1 492 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family
BJMEIABF_00162 2.A.113.1.2 74.1 9e-161 1 369 0.9946 0.9947 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.113 The Nickel/cobalt Transporter (NicO) Family
BJMEIABF_00178 9.B.102.5.2 81 3.8e-59 1 142 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.102 The YedE/YeeE (YedE/YeeE) Family
BJMEIABF_00179 9.B.102.5.5 79.9 1.7e-59 1 139 0.9720 0.9929 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.102 The YedE/YeeE (YedE/YeeE) Family
BJMEIABF_00254 2.A.109.1.1 100 1.2e-191 1 346 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.109 The Tellurium Ion Resistance (TerC) Family