Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C68
  Reference Plasmid   CP025898.1
  Reference Plasmid Size   79888
  Reference Plasmid GC Content   0.52
  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
M0143583 NOBILGBL_00018 20871 6 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -4144T>A None
M0143584 NOBILGBL_00024 23918 7 Gut 0.20 protein_coding upstream_gene_variant MODIFIER -2234A>G None
M0143585 NOBILGBL_00051 43259 6 Gut 0.17 protein_coding synonymous_variant LOW 1692A>G Glu564Glu
M0143586 NOBILGBL_00051 43265 6 Gut 0.17 protein_coding synonymous_variant LOW 1698C>T Ala566Ala
M0143587 NOBILGBL_00051 43271 6 Gut 0.17 protein_coding synonymous_variant LOW 1704C>A Gly568Gly
M0143588 NOBILGBL_00051 43274 6 Gut 0.17 protein_coding synonymous_variant LOW 1707T>C Phe569Phe
M0143589 NOBILGBL_00051 43322 6 Gut 0.17 protein_coding synonymous_variant LOW 1755T>C His585His
M0143590 NOBILGBL_00051 43375 6 Gut 0.17 protein_coding missense_variant MODERATE 1808T>C Val603Ala
M0143591 NOBILGBL_00051 43376 6 Gut 0.17 protein_coding synonymous_variant LOW 1809C>T Val603Val
M0143592 NOBILGBL_00051 43379 6 Gut 0.17 protein_coding synonymous_variant LOW 1812A>G Ala604Ala
M0143593 NOBILGBL_00051 43433 6 Gut 0.17 protein_coding synonymous_variant LOW 1866T>C His622His
M0143594 NOBILGBL_00051 43505 6 Gut 0.17 protein_coding synonymous_variant LOW 1938G>A Glu646Glu
M0143595 NOBILGBL_00024 24822 3 Gut 0.09 protein_coding upstream_gene_variant MODIFIER -3138A>G None
M0143596 NOBILGBL_00081 67377 4 Gut 0.11 protein_coding missense_variant MODERATE 1760T>C Val587Ala






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
NOBILGBL_00011 VFG043980 Colicin Ib 98.9 0 1 626 1.0 1 Exotoxin colicin-like pore-forming protein prediction
NOBILGBL_00034 VFG041000 AAI/SCI-II T6SS 91.5 3.1e-98 1 188 1.0 1 Effector delivery system hypothetical protein 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
NOBILGBL_00014 ARO:3002790 100 1.11e-111 1 218 1.0000 1.0000 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection
NOBILGBL_00020 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation






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
NOBILGBL_00035 PHI:3113 stbA 97.9 2.8e-182 1 326 1.0000 1.0000 rodents neonatal meningitis stability protein for the plasmid 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
NOBILGBL_00058 QHR58122.1|GH23 99.3 6.76e-106 1 150 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
NOBILGBL_00011 1.C.1.1.2 99.8 0 1 626 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family
NOBILGBL_00012 8.B.24.2.1 98.2 2.7e-55 1 110 0.9565 0.8661 8 Accessory Factors Involved in Transport 8.B Ribosomally synthesized protein/peptide toxins/agonists that target channels and carriers 8.B.24 The Colicin Immunity Protein (ColIP) Functional Family