Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1357
  Reference Plasmid   NZ_LR890336.1
  Reference Plasmid Size   98796
  Reference Plasmid GC Content   0.48
  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
M0207117 HMKGPHOH_00072 58270 4 Gut 1.00 protein_coding synonymous_variant LOW 2391G>A Ser797Ser
M0207118 HMKGPHOH_00072 58276 4 Gut 1.00 protein_coding synonymous_variant LOW 2385T>C Gly795Gly
M0207119 HMKGPHOH_00072 58283 4 Gut 1.00 protein_coding missense_variant MODERATE 2378A>T Tyr793Phe
M0207120 HMKGPHOH_00072 58297 4 Gut 1.00 protein_coding synonymous_variant LOW 2364G>C Thr788Thr
M0207121 HMKGPHOH_00072 58303 4 Gut 1.00 protein_coding synonymous_variant LOW 2358T>C Gly786Gly
M0207122 HMKGPHOH_00072 58317 4 Gut 1.00 protein_coding missense_variant MODERATE 2344G>A Ala782Thr
M0207123 HMKGPHOH_00072 58351 4 Gut 1.00 protein_coding synonymous_variant LOW 2310C>T Asn770Asn
M0207124 HMKGPHOH_00072 58366 4 Gut 1.00 protein_coding synonymous_variant LOW 2295C>G Arg765Arg
M0207125 HMKGPHOH_00072 58378 4 Gut 1.00 protein_coding synonymous_variant LOW 2283G>A Glu761Glu
M0207126 HMKGPHOH_00072 58387 4 Gut 1.00 protein_coding synonymous_variant LOW 2274T>C Gly758Gly
M0207127 HMKGPHOH_00072 58393 4 Gut 1.00 protein_coding synonymous_variant LOW 2268C>A Val756Val
M0207128 HMKGPHOH_00072 58396 4 Gut 1.00 protein_coding synonymous_variant LOW 2265A>T Thr755Thr
M0207129 HMKGPHOH_00072 58419 4 Gut 1.00 protein_coding missense_variant MODERATE 2242A>G Ile748Val
M0207130 HMKGPHOH_00072 58465 4 Gut 1.00 protein_coding synonymous_variant LOW 2196T>C Thr732Thr
M0207131 HMKGPHOH_00072 58468 4 Gut 1.00 protein_coding synonymous_variant LOW 2193G>A Val731Val
M0207132 HMKGPHOH_00072 58483 4 Gut 1.00 protein_coding synonymous_variant LOW 2178G>T Gly726Gly
M0207133 HMKGPHOH_00072 58486 4 Gut 1.00 protein_coding missense_variant MODERATE 2175C>A Asp725Glu
M0207134 HMKGPHOH_00072 58520 4 Gut 1.00 protein_coding missense_variant MODERATE 2141A>G Lys714Arg
M0207135 HMKGPHOH_00072 58591 4 Gut 1.00 protein_coding synonymous_variant LOW 2070C>T Arg690Arg
M0207136 HMKGPHOH_00072 58627 4 Gut 1.00 protein_coding synonymous_variant LOW 2034G>A Gly678Gly
M0207137 HMKGPHOH_00072 58882 4 Gut 1.00 protein_coding synonymous_variant LOW 1779T>C Phe593Phe
M0207138 HMKGPHOH_00072 58906 4 Gut 1.00 protein_coding synonymous_variant LOW 1755A>C Gly585Gly
M0207139 HMKGPHOH_00072 58918 4 Gut 1.00 protein_coding synonymous_variant LOW 1743A>T Val581Val






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






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
HMKGPHOH_00054 AYL89119.1|GH24 96.2 7.07999998312391e-316 1753 2255 0.2231 0.9031
HMKGPHOH_00057 QHN01840.1|GH24 100 2.31e-139 1 185 1 1
HMKGPHOH_00077 AHM48155.1|GH23 95.9 0 1 1132 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
HMKGPHOH_00068 1.E.4.1.1 100 1.3e-54 1 109 1.0000 1.0000 1 Channels/Pores 1.E Holins 1.E.4 The LydA Holin (LydA Holin) Family