Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C90
  Reference Plasmid   CP049613.1
  Reference Plasmid Size   60372
  Reference Plasmid GC Content   0.53
  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
M0143831 KFOHPCMO_00022 19107 3 Gut 0.50 protein_coding missense_variant MODERATE 110C>T Pro37Leu
M0143832 KFOHPCMO_00023 19644 4 Gut 0.67 protein_coding missense_variant MODERATE 134C>T Pro45Leu
M0143833 KFOHPCMO_00024 19818 3 Gut 0.50 protein_coding missense_variant MODERATE 325A>G Ser109Gly
M0143834 KFOHPCMO_00025 20172 3 Gut 0.50 protein_coding synonymous_variant LOW 12A>T Ser4Ser
M0143835 KFOHPCMO_00025 20280 3 Gut 0.50 protein_coding synonymous_variant LOW 120A>G Val40Val
M0143836 KFOHPCMO_00026 21153 3 Gut 0.50 protein_coding missense_variant MODERATE 106T>C Ser36Pro
M0143837 KFOHPCMO_00027 24121 3 Gut 0.50 protein_coding synonymous_variant LOW 1188G>T Gly396Gly






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
KFOHPCMO_00026 VFG042382 EtpA 99.7 0 1 598 1.0 0.9917 Adherence two-partner secretion transporter EtpB experiment
KFOHPCMO_00027 VFG034541 EtpA 94.8 0 1 1531 1.0 0.9948 Adherence Two-partner secreted adhesin EtpA experiment
KFOHPCMO_00026 VFG042382 EtpA 99.7 0 1 598 1.0 0.9917 Adherence two-partner secretion transporter EtpB prediction
KFOHPCMO_00027 VFG034541 EtpA 94.8 0 1 1531 1.0 0.9948 Adherence Two-partner secreted adhesin EtpA prediction
KFOHPCMO_00046 VFG017870 Icm/dot type IVB locus 77.9 1e-89 1 208 0.9905 0.9952 Effector delivery system ParA family protein 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






        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
KFOHPCMO_00029 CBJ04457.1|GT41 99.2 0 1 637 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
KFOHPCMO_00004 3.A.7.10.1 99 5e-276 1 486 1.0000 5.0625 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
KFOHPCMO_00005 3.A.7.10.1 99.3 1.6e-159 1 269 1.0000 2.8021 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
KFOHPCMO_00006 3.A.7.10.1 98.9 1.8e-206 1 356 1.0000 3.7083 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
KFOHPCMO_00007 3.A.7.10.1 99.5 9.3e-244 1 402 1.0000 4.1875 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
KFOHPCMO_00009 1.E.53.1.10 90.7 4.2e-16 9 51 0.8431 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
KFOHPCMO_00026 1.B.20.3.3 99.7 0 1 598 1.0000 0.9917 1 Channels/Pores 1.B β-Barrel Porins 1.B.20 The Two-Partner Secretion (TPS) Family
KFOHPCMO_00030 9.B.127.1.3 98.8 1.2e-93 1 164 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.127 The DUF2919 (PF11143) Family