Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C872
  Reference Plasmid   NZ_CP072225.1
  Reference Plasmid Size   54985
  Reference Plasmid GC Content   0.33
  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
M0185658 FMGDHKED_00047 41187 4 Gut 0.15 protein_coding missense_variant MODERATE 175G>A Glu59Lys
M0185659 FMGDHKED_00047 41188 4 Gut 0.15 protein_coding synonymous_variant LOW 174G>A Glu58Glu
M0185660 FMGDHKED_00032 29981 3 Gut 0.11 protein_coding synonymous_variant LOW 303T>G Arg101Arg
M0185661 FMGDHKED_00032 30179 3 Gut 0.11 protein_coding synonymous_variant LOW 105A>G Val35Val
M0185662 FMGDHKED_00033 30848 3 Gut 0.11 protein_coding missense_variant MODERATE 542A>C Lys181Thr
M0185663 FMGDHKED_00035 33005 3 Gut 0.11 protein_coding missense_variant MODERATE 670A>T Thr224Ser
M0185664 FMGDHKED_00035 33110 3 Gut 0.11 protein_coding missense_variant MODERATE 565A>C Lys189Gln
M0185665 FMGDHKED_00036 33906 3 Gut 0.11 protein_coding synonymous_variant LOW 192A>G Arg64Arg
M0185666 FMGDHKED_00036 34278 3 Gut 0.11 protein_coding synonymous_variant LOW 564A>G Lys188Lys
M0185667 FMGDHKED_00037 35010 3 Gut 0.11 protein_coding missense_variant MODERATE 284G>A Arg95Lys






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
NLBCPJKE_00011 ARO:3000205 99.5 7.51e-286 1 386 1.0000 0.9948 glycylcycline tetracycline inactivation enzyme antibiotic inactivation
NLBCPJKE_00012 ARO:3004608 95.3 6.28e-291 1 408 1.0000 1.0000 macrolide antibiotic macrolide esterase antibiotic inactivation
NLBCPJKE_00013 ARO:3004683 100 1.08e-214 1 287 1.0000 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
NLBCPJKE_00015 ARO:3001777 100 1.2e-200 1 274 1.0000 1.0000 penicillin beta-lactam OXA beta-lactamase antibiotic inactivation
NLBCPJKE_00016 ARO:3000498 98.5 1.76e-189 1 266 1.0000 1.0000 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration
FMGDHKED_00011 ARO:3000205 99.5 7.51e-286 1 386 1.0000 0.9948 glycylcycline tetracycline inactivation enzyme antibiotic inactivation
FMGDHKED_00012 ARO:3004608 95.3 6.28e-291 1 408 1.0000 1.0000 macrolide antibiotic macrolide esterase antibiotic inactivation
FMGDHKED_00013 ARO:3004683 100 1.08e-214 1 287 1.0000 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
FMGDHKED_00015 ARO:3001777 100 1.2e-200 1 274 1.0000 1.0000 penicillin beta-lactam OXA beta-lactamase antibiotic inactivation
FMGDHKED_00016 ARO:3000498 98.5 1.76e-189 1 266 1.0000 1.0000 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration






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





        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
NLBCPJKE_00032 9.B.154.1.1 95.2 3.1e-84 1 167 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.154 The Putative Holin-2 (PH-2) Family
FMGDHKED_00032 9.B.154.1.1 95.2 3.1e-84 1 167 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.154 The Putative Holin-2 (PH-2) Family