Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1367
  Reference Plasmid   NZ_LT985309.1
  Reference Plasmid Size   83523
  Reference Plasmid GC Content   0.51
  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
M0208063 KKLDAKFC_00079 70015 3 Gut 0.12 protein_coding synonymous_variant LOW 231A>G Glu77Glu
M0208064 KKLDAKFC_00079 70057 3 Gut 0.12 protein_coding synonymous_variant LOW 189C>A Gly63Gly
M0208065 KKLDAKFC_00079 70069 3 Gut 0.12 protein_coding synonymous_variant LOW 177A>G Gly59Gly
M0208066 KKLDAKFC_00079 70077 3 Gut 0.12 protein_coding missense_variant MODERATE 169A>G Asn57Asp
M0208067 KKLDAKFC_00079 70093 3 Gut 0.12 protein_coding synonymous_variant LOW 153A>T Val51Val
M0208068 KKLDAKFC_00079 70098 3 Gut 0.12 protein_coding missense_variant MODERATE 148T>C Trp50Arg
M0208069 KKLDAKFC_00079 70117 3 Gut 0.12 protein_coding synonymous_variant LOW 129A>G Thr43Thr
M0208070 KKLDAKFC_00079 70135 3 Gut 0.12 protein_coding synonymous_variant LOW 111C>T Ala37Ala
M0208071 KKLDAKFC_00079 70152 4 Gut 0.16 protein_coding missense_variant MODERATE 94G>A Ala32Thr
M0208072 KKLDAKFC_00079 70159 4 Gut 0.16 protein_coding synonymous_variant LOW 87G>A Gln29Gln
M0208073 KKLDAKFC_00079 70198 4 Gut 0.16 protein_coding synonymous_variant LOW 48T>C Ile16Ile
M0208074 KKLDAKFC_00079 70200 4 Gut 0.16 protein_coding missense_variant MODERATE 46A>G Ile16Val
M0208075 KKLDAKFC_00079 70201 4 Gut 0.16 protein_coding synonymous_variant LOW 45G>A Ala15Ala
M0208076 KKLDAKFC_00079 70206 4 Gut 0.16 protein_coding synonymous_variant LOW 40A>C Arg14Arg
M0208077 KKLDAKFC_00079 70207 4 Gut 0.16 protein_coding synonymous_variant LOW 39G>A Gln13Gln
M0208078 KKLDAKFC_00072 70267 8 Gut 0.32 protein_coding upstream_gene_variant MODIFIER -4024C>T None
M0208079 KKLDAKFC_00072 70342 7 Gut 0.28 protein_coding upstream_gene_variant MODIFIER -4099T>C None
M0208080 KKLDAKFC_00081 70892 7 Gut 0.28 protein_coding missense_variant MODERATE 289C>A Leu97Met
M0208081 KKLDAKFC_00081 70894 7 Gut 0.28 protein_coding synonymous_variant LOW 291G>C Leu97Leu
M0208082 KKLDAKFC_00081 70904 7 Gut 0.28 protein_coding missense_variant MODERATE 301C>G Leu101Val
M0208083 KKLDAKFC_00081 70906 7 Gut 0.28 protein_coding synonymous_variant LOW 303G>A Leu101Leu
M0208084 KKLDAKFC_00081 71063 7 Gut 0.28 protein_coding missense_variant MODERATE 460A>T Arg154Trp
M0208085 KKLDAKFC_00082 71217 7 Gut 0.28 protein_coding synonymous_variant LOW 324G>A Arg108Arg
M0208086 KKLDAKFC_00082 71274 7 Gut 0.28 protein_coding synonymous_variant LOW 267G>T Gly89Gly
M0208087 KKLDAKFC_00083 71719 7 Gut 0.28 protein_coding synonymous_variant LOW 51G>A Gly17Gly
M0208088 KKLDAKFC_00083 71865 6 Gut 0.24 protein_coding stop_gained HIGH 197G>A Trp66*
M0208089 KKLDAKFC_00083 71882 7 Gut 0.28 protein_coding missense_variant MODERATE 214A>G Thr72Ala
M0208090 KKLDAKFC_00074 72401 7 Gut 0.28 protein_coding upstream_gene_variant MODIFIER -4364A>G None
M0208091 KKLDAKFC_00076 73424 9 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -4732C>A None
M0208092 KKLDAKFC_00086 74664 9 Gut 0.36 protein_coding missense_variant MODERATE 191A>G Gln64Arg
M0208093 KKLDAKFC_00086 74974 9 Gut 0.36 protein_coding missense_variant MODERATE 501A>G Ile167Met
M0208094 KKLDAKFC_00087 76005 9 Gut 0.36 protein_coding missense_variant MODERATE 649T>C Phe217Leu
M0208095 KKLDAKFC_00082 76219 9 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -4679T>C None
M0208096 KKLDAKFC_00088 77130 6 Gut 0.24 protein_coding synonymous_variant LOW 829C>A Arg277Arg
M0208097 KKLDAKFC_00088 77973 9 Gut 0.36 protein_coding missense_variant MODERATE 1672C>A Leu558Met
M0208098 KKLDAKFC_00088 77995 9 Gut 0.36 protein_coding missense_variant MODERATE 1694G>A Gly565Asp
M0208099 KKLDAKFC_00088 78171 9 Gut 0.36 protein_coding missense_variant MODERATE 1870C>T His624Tyr
M0208100 KKLDAKFC_00088 78191 9 Gut 0.36 protein_coding missense_variant MODERATE 1890A>G Ile630Met
M0208101 KKLDAKFC_00088 78410 9 Gut 0.36 protein_coding synonymous_variant LOW 2109G>A Leu703Leu
M0208102 KKLDAKFC_00091 80198 9 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -463A>C None
M0208103 KKLDAKFC_00069 62500 3 Gut 0.12 protein_coding missense_variant MODERATE 544A>G Thr182Ala
M0208104 KKLDAKFC_00068 64782 8 Gut 0.32 protein_coding upstream_gene_variant MODIFIER -3107C>T None
M0208105 KKLDAKFC_00071 65088 6 Gut 0.24 protein_coding synonymous_variant LOW 132C>T Tyr44Tyr






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
KKLDAKFC_00089 VFG001827 ShET2 99.7 7.9e-225 1 391 1.0 1 Exotoxin enterotoxin experiment
KKLDAKFC_00089 VFG036084 Enterotoxin SenB/TieB 100 1.2e-224 1 391 1.0 1 Exotoxin enterotoxin production-related protein TieB 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
KKLDAKFC_00086 PHI:10792 cjrA 100 5.6e-166 1 291 1.0000 1.0000 primates neonatal meningitis iron-regulated protein increased virulence (hypervirulence)
KKLDAKFC_00087 PHI:10793 cjrB 100 1.7e-137 1 258 1.0000 1.0000 primates neonatal meningitis colicin Js sensitivity protein increased virulence (hypervirulence)
KKLDAKFC_00088 PHI:10794 cjrC 100 0 1 753 1.0000 1.0000 primates neonatal meningitis TonB-dependent colicin J protein increased virulence (hypervirulence)
KKLDAKFC_00089 PHI:10795 senB 100 4.2e-225 1 391 1.0000 1.0000 primates neonatal meningitis enterotoxin increased virulence (hypervirulence)






        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
KKLDAKFC_00009 2.A.108.2.10 100 5e-101 3 175 0.9886 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.108 The Iron/Lead Transporter (ILT) Family
KKLDAKFC_00010 2.A.108.2.10 100 0 1 646 1.0000 3.7341 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.108 The Iron/Lead Transporter (ILT) Family
KKLDAKFC_00087 2.C.1.1.3 100 3.7e-137 1 258 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.C Ion-gradient-driven energizers 2.C.1 The TonB-ExbB-ExbD/TolA-TolQ-TolR Outer Membrane Receptor Energizers and Stabilizers (TonB/TolA) Family
KKLDAKFC_00088 1.B.14.7.1 100 0 1 753 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.14 The Outer Membrane Receptor (OMR) Family