Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C952
  Reference Plasmid   NZ_CP083660.1
  Reference Plasmid Size   89812
  Reference Plasmid GC Content   0.39
  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
M0104965 BCDLOIPD_00050 44765 3 Skin 0.23 protein_coding missense_variant MODERATE 215A>G Tyr72Cys
M0104966 BCDLOIPD_00050 44802 3 Skin 0.23 protein_coding synonymous_variant LOW 252T>C Asp84Asp
M0104967 BCDLOIPD_00050 44803 3 Skin 0.23 protein_coding missense_variant MODERATE 253A>G Ile85Val
M0104968 BCDLOIPD_00071 71697 3 Skin 0.23 protein_coding synonymous_variant LOW 2889A>G Thr963Thr






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
BCDLOIPD_00034 Arsenic (As) 90.9 1.1e-200 4 365 0.9918 0.9972 prediction
BCDLOIPD_00035 Arsenic (As) 75.5 1e-98 3 234 0.9957 0.9708 prediction
BCDLOIPD_00036 Arsenic (As) 94.2 2.5e-178 1 346 1.0000 1.0000 prediction
BCDLOIPD_00061 Copper (Cu) 100 0 1 791 1.0000 1.0000 prediction
BCDLOIPD_00064 Cadmium (Cd), Zinc (Zn) 83.2 2.1e-109 1 226 1.0000 0.9869 prediction
EENOJDEC_00034 Arsenic (As) 90.9 1.1e-200 4 365 0.9918 0.9972 prediction
EENOJDEC_00035 Arsenic (As) 75.5 1e-98 3 234 0.9957 0.9708 prediction
EENOJDEC_00036 Arsenic (As) 94.2 2.5e-178 1 346 1.0000 1.0000 prediction
EENOJDEC_00061 Copper (Cu) 100 0 1 791 1.0000 1.0000 prediction
EENOJDEC_00064 Cadmium (Cd), Zinc (Zn) 83.2 2.1e-109 1 226 1.0000 0.9869 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
BCDLOIPD_00054 PHI:8812 CopA (ABUW_2707) 75.5 0 1 822 0.9964 0.9988 rodents nosocomial infection copper-translocating P-type ATPase unaffected pathogenicity
BCDLOIPD_00056 PHI:10395 copD (ABUW_3327) 74.1 1.7e-120 16 308 0.9513 1.0000 moths nosocomial infection copper resistance D reduced virulence
BCDLOIPD_00057 PHI:10398 copC (ABUW_3326) 78.6 1.8e-52 1 126 1.0000 1.0000 moths nosocomial infection copper resistance protein reduced virulence
BCDLOIPD_00063 PHI:10394 cusS (ABUW_3324) 75.5 3.3e-200 1 457 0.9807 0.9978 moths nosocomial infection sensor kinase reduced virulence
BCDLOIPD_00064 PHI:10397 cusR (ABUW_3323) 95.1 3.3e-121 1 226 1.0000 0.9956 moths nosocomial infection DNA-binding response regulator reduced virulence
BCDLOIPD_00066 PHI:10393 cueO (ABUW_3321) 86.4 0 1 687 1.0000 1.0000 moths nosocomial infection copper resistance protein A reduced virulence
BCDLOIPD_00067 PHI:10396 copB (ABUW_3320) 73.2 5.9e-126 1 306 1.0000 1.0000 moths nosocomial infection autotransporter domain-containing protein reduced virulence
EENOJDEC_00054 PHI:8812 CopA (ABUW_2707) 75.5 0 1 822 0.9964 0.9988 rodents nosocomial infection copper-translocating P-type ATPase unaffected pathogenicity
EENOJDEC_00056 PHI:10395 copD (ABUW_3327) 74.1 1.7e-120 16 308 0.9513 1.0000 moths nosocomial infection copper resistance D reduced virulence
EENOJDEC_00057 PHI:10398 copC (ABUW_3326) 78.6 1.8e-52 1 126 1.0000 1.0000 moths nosocomial infection copper resistance protein reduced virulence
EENOJDEC_00063 PHI:10394 cusS (ABUW_3324) 75.5 3.3e-200 1 457 0.9807 0.9978 moths nosocomial infection sensor kinase reduced virulence
EENOJDEC_00064 PHI:10397 cusR (ABUW_3323) 95.1 3.3e-121 1 226 1.0000 0.9956 moths nosocomial infection DNA-binding response regulator reduced virulence
EENOJDEC_00066 PHI:10393 cueO (ABUW_3321) 86.4 0 1 687 1.0000 1.0000 moths nosocomial infection copper resistance protein A reduced virulence
EENOJDEC_00067 PHI:10396 copB (ABUW_3320) 73.2 5.9e-126 1 306 1.0000 1.0000 moths nosocomial infection autotransporter domain-containing protein 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





        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
BCDLOIPD_00056 9.B.62.1.6 74.1 3.8e-120 16 308 0.9513 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.62 The Copper Resistance (CopD) Family
EENOJDEC_00056 9.B.62.1.6 74.1 3.8e-120 16 308 0.9513 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.62 The Copper Resistance (CopD) Family