Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C533
  Reference Plasmid   NZ_CP026426.1
  Reference Plasmid Size   257654
  Reference Plasmid GC Content   0.40
  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
M0093272 NHHODIHB_00178 162167 7 Skin 0.32 protein_coding missense_variant MODERATE 169T>C Tyr57His
M0093273 NHHODIHB_00176 163220 4 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -2243A>G None






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
NHHODIHB_00123 Arsenic (As) 70.7 2.8e-68 11 177 0.9435 0.7198 experiment
NKIPAJDM_00123 Arsenic (As) 70.7 2.8e-68 11 177 0.9435 0.7198 experiment
NHHODIHB_00094 Arsenic (As) 91.2 2.8e-201 4 365 0.9918 0.9972 prediction
NHHODIHB_00095 Arsenic (As) 75.5 1e-98 3 234 0.9957 0.9708 prediction
NHHODIHB_00096 Arsenic (As) 94.2 2.5e-178 1 346 1.0000 1.0000 prediction
NHHODIHB_00115 Copper (Cu) 99 0 1 693 1.0000 0.8761 prediction
NHHODIHB_00118 Cadmium (Cd), Zinc (Zn) 83.2 1.6e-109 1 226 1.0000 0.9869 prediction
NHHODIHB_00123 Arsenic (As) 77.3 1.7e-74 6 177 0.9718 0.7167 prediction
NKIPAJDM_00094 Arsenic (As) 91.2 2.8e-201 4 365 0.9918 0.9972 prediction
NKIPAJDM_00095 Arsenic (As) 75.5 1e-98 3 234 0.9957 0.9708 prediction
NKIPAJDM_00096 Arsenic (As) 94.2 2.5e-178 1 346 1.0000 1.0000 prediction
NKIPAJDM_00115 Copper (Cu) 99 0 1 693 1.0000 0.8761 prediction
NKIPAJDM_00118 Cadmium (Cd), Zinc (Zn) 83.2 1.6e-109 1 226 1.0000 0.9869 prediction
NKIPAJDM_00123 Arsenic (As) 77.3 1.7e-74 6 177 0.9718 0.7167 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
NHHODIHB_00107 PHI:10395 copD (ABUW_3327) 74.1 5.5e-121 1 293 1.0000 1.0000 moths nosocomial infection copper resistance D reduced virulence
NHHODIHB_00108 PHI:10398 copC (ABUW_3326) 78.6 2.3e-52 1 126 1.0000 1.0000 moths nosocomial infection copper resistance protein reduced virulence
NHHODIHB_00117 PHI:10394 cusS (ABUW_3324) 75.1 4.7e-199 1 457 0.9807 0.9978 moths nosocomial infection sensor kinase reduced virulence
NHHODIHB_00118 PHI:10397 cusR (ABUW_3323) 94.7 7.2e-121 1 226 1.0000 0.9956 moths nosocomial infection DNA-binding response regulator reduced virulence
NHHODIHB_00120 PHI:10393 cueO (ABUW_3321) 83.9 0 1 667 1.0000 1.0000 moths nosocomial infection copper resistance protein A reduced virulence
NHHODIHB_00121 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
NHHODIHB_00199 PHI:6492 lipA 77.4 5.8e-148 10 323 0.9691 0.9258 rodents nosocomial infection lipase reduced virulence
NKIPAJDM_00107 PHI:10395 copD (ABUW_3327) 74.1 5.5e-121 1 293 1.0000 1.0000 moths nosocomial infection copper resistance D reduced virulence
NKIPAJDM_00108 PHI:10398 copC (ABUW_3326) 78.6 2.3e-52 1 126 1.0000 1.0000 moths nosocomial infection copper resistance protein reduced virulence
NKIPAJDM_00117 PHI:10394 cusS (ABUW_3324) 75.1 4.7e-199 1 457 0.9807 0.9978 moths nosocomial infection sensor kinase reduced virulence
NKIPAJDM_00118 PHI:10397 cusR (ABUW_3323) 94.7 7.2e-121 1 226 1.0000 0.9956 moths nosocomial infection DNA-binding response regulator reduced virulence
NKIPAJDM_00120 PHI:10393 cueO (ABUW_3321) 83.9 0 1 667 1.0000 1.0000 moths nosocomial infection copper resistance protein A reduced virulence
NKIPAJDM_00121 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
NKIPAJDM_00199 PHI:6492 lipA 77.4 5.8e-148 10 323 0.9691 0.9258 rodents nosocomial infection lipase 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
NHHODIHB_00011 AUX91407.1|GT2 100 6.28e-308 1 417 1 1
NKIPAJDM_00011 AUX91407.1|GT2 100 6.28e-308 1 417 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
NHHODIHB_00107 9.B.62.1.6 74.1 1.2e-120 1 293 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.62 The Copper Resistance (CopD) Family
NKIPAJDM_00107 9.B.62.1.6 74.1 1.2e-120 1 293 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.62 The Copper Resistance (CopD) Family