Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1073
  Reference Plasmid   NZ_CP104280.1
  Reference Plasmid Size   143067
  Reference Plasmid GC Content   0.57
  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
M0106912 AKDFDHLG_00020 17398 7 Skin 0.47 protein_coding missense_variant MODERATE 146C>T Ala49Val
M0106913 AKDFDHLG_00020 17267 3 Skin 0.20 protein_coding synonymous_variant LOW 15T>C Leu5Leu
M0106914 AKDFDHLG_00021 19003 4 Skin 0.27 protein_coding synonymous_variant LOW 576T>C Asp192Asp






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
AKDFDHLG_00013 Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Ethidium Bromide [class: Phenanthridine], Acriflavine [class: Acridine], Chlorhexidine [class: Biguanides], Pyronin Y [class: Xanthene], Rhodamine 6G [class: Xanthene], Methyl Viologen [class: Paraquat], Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], 4,6-diamidino-2-phenylindole (DAPI) [class: Diamindine], Acridine Orange [class: Acridine], Sodium Dodecyl Sulfate (SDS) [class: Organo-sulfate], Sodium Deoxycholate (SDC) [class: Acid], Crystal Violet [class: Triarylmethane], Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)], Cetylpyridinium Chloride (CPC) [class: Quaternary Ammonium Compounds (QACs)], Dequalinium [class: Quaternary Ammonium Compounds (QACs)] 100 1.1e-60 1 115 1.0000 1.0000 experiment
AKDFDHLG_00029 Arsenic (As), Antimony (Sb) 70.7 2.9e-55 1 140 0.9790 0.9929 experiment
AKDFDHLG_00083 Mercury (Hg) 94.9 7.1e-40 1 78 1.0000 1.0000 experiment
AKDFDHLG_00084 Mercury (Hg) 95 3.6e-59 1 121 1.0000 1.0000 experiment
AKDFDHLG_00085 Mercury (Hg) 90.9 3.3e-288 1 561 1.0000 1.0000 experiment
AKDFDHLG_00086 Mercury (Hg) 100 2.7e-43 1 91 1.0000 1.0000 experiment
AKDFDHLG_00087 Mercury (Hg) 100 2.3e-63 1 116 1.0000 1.0000 experiment
AKDFDHLG_00088 Mercury (Hg) 100 1.7e-79 1 144 1.0000 1.0000 experiment
AKDFDHLG_00029 Arsenic (As) 72.1 4.6e-54 1 140 0.9790 0.9929 prediction
AKDFDHLG_00030 Arsenic (As) 84 2.1e-112 2 238 0.9958 0.9713 prediction
AKDFDHLG_00082 Mercury (Hg) 90.9 3.4e-177 1 329 1.0000 0.8044 prediction
AKDFDHLG_00083 Mercury (Hg) 100 2.3e-39 1 78 1.0000 1.0000 prediction
AKDFDHLG_00084 Mercury (Hg) 100 2.8e-60 1 121 1.0000 1.0000 prediction
AKDFDHLG_00085 Mercury (Hg), Phenylmercury Acetate [class: Organo-mercury] 100 0 1 561 1.0000 1.0000 prediction
AKDFDHLG_00086 Mercury (Hg) 100 6.3e-41 1 91 1.0000 1.0000 prediction
AKDFDHLG_00087 Mercury (Hg) 100 5.3e-61 1 116 1.0000 1.0000 prediction
AKDFDHLG_00088 Mercury (Hg) 100 3.9e-77 1 144 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
AKDFDHLG_00011 ARO:3002861 100 1.61e-114 1 152 1.0000 0.9682 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement
AKDFDHLG_00012 ARO:3002594 100 2.6e-139 1 184 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
AKDFDHLG_00013 ARO:3005010 100 2.01e-78 1 115 1.0000 1.0000 disinfecting agents and antiseptics major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
AKDFDHLG_00014 ARO:3000410 99.6 2.41e-198 1 279 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
AKDFDHLG_00020 ARO:3002703 99.7 2.43e-252 1 391 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
AKDFDHLG_00091 ARO:3007635 100 1.72e-214 1 302 1.0000 1.0000 cephalosporin CAE beta-lactamase antibiotic inactivation
AKDFDHLG_00096 ARO:3003109 100 0 1 491 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
AKDFDHLG_00097 ARO:3003741 100 1.87e-214 1 294 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation
AKDFDHLG_00100 ARO:3000410 99.6 1.64e-197 6 283 0.9823 0.9964 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
AKDFDHLG_00103 ARO:3006890 100 1.25e-194 1 267 1.0000 1.0000 carbapenem AFM beta-lactamase antibiotic inactivation
AKDFDHLG_00104 ARO:3001205 97.5 2.28e-89 1 121 1.0000 1.0000 glycopeptide antibiotic Bleomycin resistant protein antibiotic inactivation
AKDFDHLG_00114 ARO:3000410 99.6 1.64e-197 6 283 0.9823 0.9964 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement






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
AKDFDHLG_00010 PHI:9804 int 100 4e-14 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence
AKDFDHLG_00099 PHI:9804 int 100 3.8e-14 1 37 0.1160 1.0000 rodents gastroenteritis integrase reduced virulence
AKDFDHLG_00103 PHI:6347 NDM-1 86.6 2.2e-132 7 267 0.9775 0.9667 moths infection carbapenemase unaffected pathogenicity
AKDFDHLG_00113 PHI:9804 int 100 3.3e-14 1 37 0.1317 1.0000 rodents gastroenteritis integrase 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
AKDFDHLG_00069 WBM40480.1|GH23 99.4 2.62e-123 1 177 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
AKDFDHLG_00008 2.A.53.3.1 71.2 5.9e-176 1 468 0.9630 0.9472 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family
AKDFDHLG_00083 1.A.72.5.1 82.1 4.4e-33 1 78 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
AKDFDHLG_00086 1.A.72.3.1 94.5 2.2e-39 1 91 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
AKDFDHLG_00087 1.A.72.3.1 93.1 2.2e-57 1 116 1.0000 1.2747 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily