Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C237
  Reference Plasmid   JN106170.1
  Reference Plasmid Size   75067
  Reference Plasmid GC Content   0.62
  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
M0071114 OBOHPKEH_00057 49165 3 Skin 0.38 protein_coding synonymous_variant LOW 642T>C Cys214Cys
M0071115 OBOHPKEH_00057 49167 3 Skin 0.38 protein_coding missense_variant MODERATE 644C>G Ala215Gly
M0071116 OBOHPKEH_00057 49171 3 Skin 0.38 protein_coding synonymous_variant LOW 648A>G Lys216Lys
M0071117 OBOHPKEH_00057 49183 3 Skin 0.38 protein_coding synonymous_variant LOW 660G>A Glu220Glu
M0071118 OBOHPKEH_00057 49192 3 Skin 0.38 protein_coding synonymous_variant LOW 669T>C Ser223Ser
M0071119 OBOHPKEH_00057 49201 3 Skin 0.38 protein_coding synonymous_variant LOW 678T>C Arg226Arg
M0071120 OBOHPKEH_00057 49212 3 Skin 0.38 protein_coding missense_variant MODERATE 689C>T Ala230Val
M0071121 OBOHPKEH_00057 49213 3 Skin 0.38 protein_coding synonymous_variant LOW 690A>T Ala230Ala
M0071122 OBOHPKEH_00057 49240 3 Skin 0.38 protein_coding synonymous_variant LOW 717A>G Glu239Glu
M0071123 OBOHPKEH_00057 49267 3 Skin 0.38 protein_coding synonymous_variant LOW 744G>T Val248Val
M0071124 OBOHPKEH_00057 49270 3 Skin 0.38 protein_coding synonymous_variant LOW 747A>C Pro249Pro
M0071125 OBOHPKEH_00057 49422 3 Skin 0.38 protein_coding missense_variant MODERATE 899C>T Ala300Val






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
OBOHPKEH_00070 Mercury (Hg) 91 1e-38 1 78 1.0000 1.0000 experiment
OBOHPKEH_00071 Mercury (Hg) 95 1.9e-60 1 121 1.0000 1.0000 experiment
OBOHPKEH_00072 Mercury (Hg) 86.6 1.4e-270 1 561 1.0000 1.0000 experiment
OBOHPKEH_00074 Mercury (Hg) 95.6 3.4e-41 1 91 1.0000 1.0000 experiment
OBOHPKEH_00075 Mercury (Hg) 96.6 8.3e-61 1 116 1.0000 1.0000 experiment
OBOHPKEH_00076 Mercury (Hg) 94.4 3.6e-74 1 142 0.9861 0.9861 experiment
OBOHPKEH_00069 Mercury (Hg) 86.6 7.5e-169 1 329 1.0000 0.8044 prediction
OBOHPKEH_00070 Mercury (Hg) 100 2.3e-39 1 78 1.0000 1.0000 prediction
OBOHPKEH_00071 Mercury (Hg) 100 3.3e-61 1 121 1.0000 1.0000 prediction
OBOHPKEH_00072 Mercury (Hg), Phenylmercury Acetate [class: Organo-mercury] 100 0 1 561 1.0000 1.0000 prediction
OBOHPKEH_00074 Mercury (Hg) 100 4.8e-41 1 91 1.0000 1.0000 prediction
OBOHPKEH_00075 Mercury (Hg) 100 5.9e-60 1 116 1.0000 1.0000 prediction
OBOHPKEH_00076 Mercury (Hg) 100 1.1e-76 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






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
OBOHPKEH_00016 AFK33134.1|GH23 100 7.2e-146 1 214 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
OBOHPKEH_00004 3.A.7.4.1 75.1 1.9e-130 1 320 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00007 3.A.7.4.1 89.2 0 1 852 1.0000 2.6625 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00008 3.A.7.4.1 73.4 1.4e-107 1 253 0.9961 0.8094 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00009 3.A.7.4.1 81.9 2.4e-140 1 297 1.0000 0.9344 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00011 3.A.7.4.1 76.4 3.8e-193 1 462 1.0000 1.4781 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00012 3.A.7.4.1 72.5 6.6e-94 1 255 1.0000 0.7938 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00014 3.A.7.4.1 73 3.4e-186 1 587 0.9932 1.7688 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
OBOHPKEH_00070 1.A.72.5.1 78.7 4.1e-31 1 75 0.9615 0.9615 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
OBOHPKEH_00074 1.A.72.3.1 95.6 1.3e-39 1 91 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
OBOHPKEH_00075 1.A.72.3.1 92.2 3.2e-56 1 116 1.0000 1.2747 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
OBOHPKEH_00084 2.A.1.15.3 76 5.6e-192 3 456 0.9806 0.9870 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)