Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C783
  Reference Plasmid   NZ_CP062072.1
  Reference Plasmid Size   274836
  Reference Plasmid GC Content   0.32
  Reference Plasmid Mobility Type   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
M0177582 HMOPPCHA_00044 38861 3 Gut 0.25 protein_coding synonymous_variant LOW 480G>A Gln160Gln
M0177583 HMOPPCHA_00044 38879 3 Gut 0.25 protein_coding synonymous_variant LOW 462A>G Lys154Lys
M0177584 HMOPPCHA_00044 38888 3 Gut 0.25 protein_coding synonymous_variant LOW 453C>T Asp151Asp
M0177585 HMOPPCHA_00044 38891 3 Gut 0.25 protein_coding synonymous_variant LOW 450T>C Ile150Ile
M0177586 HMOPPCHA_00044 38898 3 Gut 0.25 protein_coding missense_variant MODERATE 443C>G Ala148Gly
M0177587 HMOPPCHA_00044 38899 3 Gut 0.25 protein_coding missense_variant MODERATE 442G>T Ala148Ser
M0177588 HMOPPCHA_00044 38910 3 Gut 0.25 protein_coding missense_variant MODERATE 431C>T Thr144Ile
M0177589 HMOPPCHA_00044 39037 3 Gut 0.25 protein_coding synonymous_variant LOW 304C>T Leu102Leu
M0177590 HMOPPCHA_00044 39041 3 Gut 0.25 protein_coding missense_variant MODERATE 300G>A Met100Ile
M0177591 HMOPPCHA_00044 39084 3 Gut 0.25 protein_coding missense_variant MODERATE 257T>C Val86Ala
M0177592 HMOPPCHA_00041 39428 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2225C>T None
M0177593 HMOPPCHA_00045 39558 3 Gut 0.25 protein_coding missense_variant MODERATE 70G>A Glu24Lys
M0177594 HMOPPCHA_00041 40038 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2835G>A None
M0177595 HMOPPCHA_00046 40062 3 Gut 0.25 protein_coding initiator_codon_variant LOW 1A>T Met1?
M0177596 HMOPPCHA_00046 40196 3 Gut 0.25 protein_coding synonymous_variant LOW 135T>C Cys45Cys
M0177597 HMOPPCHA_00046 40199 3 Gut 0.25 protein_coding synonymous_variant LOW 138A>C Ala46Ala
M0177598 HMOPPCHA_00046 40217 3 Gut 0.25 protein_coding synonymous_variant LOW 156G>A Thr52Thr
M0177599 HMOPPCHA_00046 40310 3 Gut 0.25 protein_coding synonymous_variant LOW 249T>C Val83Val
M0177600 HMOPPCHA_00046 40360 3 Gut 0.25 protein_coding missense_variant MODERATE 299G>A Arg100Lys






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






        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
EMGNKHGF_00031 ARO:3002626 100 9.66e-218 1 287 1.0000 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
EMGNKHGF_00284 ARO:3002597 100 0 1 446 0.9759 0.9311 aminoglycoside antibiotic aminoglycoside bifunctional resistance protein antibiotic inactivation
HMOPPCHA_00031 ARO:3002626 100 9.66e-218 1 287 1.0000 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
HMOPPCHA_00284 ARO:3002597 100 0 1 446 0.9759 0.9311 aminoglycoside antibiotic aminoglycoside bifunctional resistance protein 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
EMGNKHGF_00288 CCO11850.2|GH4 79.8 3.76e-121 222 439 0.4966 1
HMOPPCHA_00288 CCO11850.2|GH4 79.8 3.76e-121 222 439 0.4966 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
EMGNKHGF_00127 4.A.6.1.25 86.5 2e-119 1 244 0.9606 1.7305 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
EMGNKHGF_00128 4.A.6.1.25 79.6 2.9e-127 2 276 0.9964 2.0213 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
HMOPPCHA_00127 4.A.6.1.25 86.5 2e-119 1 244 0.9606 1.7305 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
HMOPPCHA_00128 4.A.6.1.25 79.6 2.9e-127 2 276 0.9964 2.0213 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family