Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C689
  Reference Plasmid   NZ_CP047660.1
  Reference Plasmid Size   134831
  Reference Plasmid GC Content   0.48
  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
M0172666 MMNECMBF_00028 38008 8 Gut 0.47 protein_coding synonymous_variant LOW 183A>C Gly61Gly
M0172667 MMNECMBF_00030 39366 10 Gut 0.59 protein_coding synonymous_variant LOW 975C>A Ile325Ile
M0172668 MMNECMBF_00029 41313 5 Gut 0.29 protein_coding upstream_gene_variant MODIFIER -2030C>A 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
MMNECMBF_00005 VFG042387 AIDA-I 73.1 0 127 1419 0.9112 1.0054 Adherence AIDA-I prediction
MMNECMBF_00008 VFG042525 Adhesive factor/rabbit 1 (AF/R1) pili 75.6 4.7e-81 1 193 1.0 1 Adherence transcriptional activator precursor AfrS prediction
MMNECMBF_00024 VFG042387 AIDA-I 74.8 0 49 1174 0.9591 0.8756 Adherence AIDA-I prediction







        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
MMNECMBF_00004 PHI:5228 BAHT 71.1 1.5e-177 3 386 0.9796 0.9389 rodents None heptosyltransferase reduced virulence
MMNECMBF_00023 PHI:5228 BAHT 72.1 3.5e-179 3 386 0.9796 0.9389 rodents None heptosyltransferase 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
MMNECMBF_00004 QHJ59357.1|GT112 99.7 1.12000000000006e-311 1 392 1 0.9138
MMNECMBF_00012 QHJ59359.1|PL8 100 0 15 800 0.9825 1
MMNECMBF_00023 QHJ59268.1|GT112 100 1.91999999999982e-312 1 392 1 1
MMNECMBF_00108 AKO58984.1|GH23 100 1.73e-124 1 169 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
MMNECMBF_00005 1.B.12.1.1 73.1 0 127 1419 0.9112 0.9689 1 Channels/Pores 1.B β-Barrel Porins 1.B.12 The Autotransporter-1 (AT-1) Family
MMNECMBF_00011 1.B.21.2.5 99.1 1.8e-189 1 317 1.0000 0.9520 1 Channels/Pores 1.B β-Barrel Porins 1.B.21 The OmpG Porin (OmpG) Family
MMNECMBF_00024 1.B.12.1.1 74.8 0 49 1174 0.9591 0.8904 1 Channels/Pores 1.B β-Barrel Porins 1.B.12 The Autotransporter-1 (AT-1) Family
MMNECMBF_00070 1.E.53.1.11 100 1.1e-21 1 49 1.0000 0.7206 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family