Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C457
  Reference Plasmid   NZ_CP017464.1
  Reference Plasmid Size   115760
  Reference Plasmid GC Content   0.31
  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
M0088613 ILKBNKLN_00099 95158 8 Skin 0.35 protein_coding synonymous_variant LOW 1902T>C Asn634Asn
M0088614 ILKBNKLN_00099 95634 6 Skin 0.26 protein_coding missense_variant MODERATE 1426A>G Asn476Asp
M0088615 ILKBNKLN_00099 95635 7 Skin 0.30 protein_coding synonymous_variant LOW 1425T>C Asp475Asp
M0088616 ILKBNKLN_00099 95746 7 Skin 0.30 protein_coding synonymous_variant LOW 1314C>T Asn438Asn
M0088617 ILKBNKLN_00097 93092 8 Skin 0.35 protein_coding missense_variant MODERATE 440G>A Arg147Lys
M0088618 ILKBNKLN_00097 93227 8 Skin 0.35 protein_coding missense_variant MODERATE 305A>G Asn102Ser
M0088619 ILKBNKLN_00097 93388 7 Skin 0.30 protein_coding synonymous_variant LOW 144A>G Gly48Gly
M0088620 ILKBNKLN_00097 93443 5 Skin 0.22 protein_coding missense_variant MODERATE 89A>C Lys30Thr
M0088621 ILKBNKLN_00097 93540 7 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -9T>G None
M0088622 ILKBNKLN_00098 93800 6 Skin 0.26 protein_coding synonymous_variant LOW 1185C>T Asn395Asn
M0088623 ILKBNKLN_00098 93889 7 Skin 0.30 protein_coding missense_variant MODERATE 1096A>C Asn366His
M0088624 ILKBNKLN_00098 93917 7 Skin 0.30 protein_coding synonymous_variant LOW 1068G>A Lys356Lys
M0088625 ILKBNKLN_00098 93922 7 Skin 0.30 protein_coding missense_variant MODERATE 1063G>A Gly355Ser
M0088626 ILKBNKLN_00098 93940 7 Skin 0.30 protein_coding missense_variant MODERATE 1045A>G Ser349Gly
M0088627 ILKBNKLN_00098 94093 7 Skin 0.30 protein_coding missense_variant MODERATE 892C>G Pro298Ala
M0088628 ILKBNKLN_00098 94220 7 Skin 0.30 protein_coding synonymous_variant LOW 765T>G Leu255Leu
M0088629 ILKBNKLN_00090 88269 3 Skin 0.13 protein_coding missense_variant MODERATE 529A>G Ser177Gly
M0088630 ILKBNKLN_00090 88595 3 Skin 0.13 protein_coding synonymous_variant LOW 855C>A Ile285Ile
M0088631 ILKBNKLN_00090 88662 3 Skin 0.13 protein_coding missense_variant MODERATE 922G>A Ala308Thr
M0088632 ILKBNKLN_00090 88687 3 Skin 0.13 protein_coding missense_variant MODERATE 947T>C Ile316Thr
M0088633 ILKBNKLN_00090 88823 3 Skin 0.13 protein_coding synonymous_variant LOW 1083G>A Leu361Leu
M0088634 ILKBNKLN_00090 88830 3 Skin 0.13 protein_coding synonymous_variant LOW 1090T>C Leu364Leu
M0088635 ILKBNKLN_00097 93223 6 Skin 0.26 protein_coding synonymous_variant LOW 309G>A Lys103Lys
M0088636 ILKBNKLN_00097 93253 7 Skin 0.30 protein_coding synonymous_variant LOW 279T>C Ile93Ile
M0088637 ILKBNKLN_00098 93568 4 Skin 0.17 protein_coding missense_variant MODERATE 1417G>A Val473Ile
M0088638 ILKBNKLN_00098 93587 3 Skin 0.13 protein_coding missense_variant MODERATE 1398T>G Asp466Glu
M0088639 ILKBNKLN_00098 94127 4 Skin 0.17 protein_coding synonymous_variant LOW 858G>A Glu286Glu
M0088640 ILKBNKLN_00098 94558 3 Skin 0.13 protein_coding missense_variant MODERATE 427G>A Val143Ile
M0088641 ILKBNKLN_00098 94784 6 Skin 0.26 protein_coding synonymous_variant LOW 201C>T Phe67Phe
M0088642 ILKBNKLN_00098 94851 3 Skin 0.13 protein_coding missense_variant MODERATE 134C>A Thr45Lys
M0088643 ILKBNKLN_00098 94886 5 Skin 0.22 protein_coding synonymous_variant LOW 99T>C Asn33Asn
M0088644 ILKBNKLN_00098 94895 5 Skin 0.22 protein_coding synonymous_variant LOW 90T>C Asp30Asp
M0088645 ILKBNKLN_00098 94938 6 Skin 0.26 protein_coding missense_variant MODERATE 47C>T Thr16Ile
M0088646 ILKBNKLN_00099 95083 6 Skin 0.26 protein_coding synonymous_variant LOW 1977T>A Ile659Ile
M0088647 ILKBNKLN_00099 95086 6 Skin 0.26 protein_coding synonymous_variant LOW 1974G>A Leu658Leu
M0088648 ILKBNKLN_00099 95089 6 Skin 0.26 protein_coding synonymous_variant LOW 1971C>G Gly657Gly
M0088649 ILKBNKLN_00099 95209 6 Skin 0.26 protein_coding synonymous_variant LOW 1851T>C Ile617Ile
M0088650 ILKBNKLN_00099 95358 4 Skin 0.17 protein_coding missense_variant MODERATE 1702G>A Asp568Asn
M0088651 ILKBNKLN_00099 96424 6 Skin 0.26 protein_coding synonymous_variant LOW 636T>C Ser212Ser
M0088652 ILKBNKLN_00099 96514 4 Skin 0.17 protein_coding synonymous_variant LOW 546T>G Ala182Ala
M0088653 ILKBNKLN_00099 96712 3 Skin 0.13 protein_coding synonymous_variant LOW 348T>C Ile116Ile
M0088654 ILKBNKLN_00099 96753 4 Skin 0.17 protein_coding missense_variant MODERATE 307G>A Ala103Thr
M0088655 ILKBNKLN_00099 96882 6 Skin 0.26 protein_coding missense_variant MODERATE 178A>C Met60Leu
M0088656 ILKBNKLN_00099 97009 4 Skin 0.17 protein_coding synonymous_variant LOW 51T>C Ser17Ser
M0088657 ILKBNKLN_00099 97040 4 Skin 0.17 protein_coding missense_variant MODERATE 20C>A Ala7Glu
M0088658 ILKBNKLN_00097 93130 5 Skin 0.22 protein_coding synonymous_variant LOW 402G>A Val134Val
M0088659 ILKBNKLN_00098 94780 5 Skin 0.22 protein_coding missense_variant MODERATE 205A>G Lys69Glu
M0088660 ILKBNKLN_00099 95094 3 Skin 0.13 protein_coding missense_variant MODERATE 1966A>G Ile656Val
M0088661 ILKBNKLN_00099 95164 5 Skin 0.22 protein_coding synonymous_variant LOW 1896G>T Val632Val
M0088662 ILKBNKLN_00099 95308 3 Skin 0.13 protein_coding synonymous_variant LOW 1752T>C Ser584Ser
M0088663 ILKBNKLN_00099 96149 4 Skin 0.17 protein_coding missense_variant MODERATE 911G>T Ser304Ile
M0088664 ILKBNKLN_00099 95590 4 Skin 0.17 protein_coding synonymous_variant LOW 1470T>C Ser490Ser
M0088665 ILKBNKLN_00097 97120 3 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -3589T>G None
M0088666 ILKBNKLN_00097 97134 3 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -3603T>C 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
ILKBNKLN_00016 Arsenic (As) 97.7 6.7e-75 1 131 1.0000 1.0000 experiment
ILKBNKLN_00017 Arsenic (As), Antimony (Sb) 93.7 8.8e-217 1 429 1.0000 1.0000 experiment
ILKBNKLN_00018 Arsenic (As), Antimony (Sb), Bismuth (Bi) 97.1 2.5e-56 1 104 1.0000 1.0000 experiment
ILKBNKLN_00040 Cadmium (Cd), Zinc (Zn) 89.8 5.7e-97 1 205 1.0000 1.0000 experiment
ILKBNKLN_00098 Copper (Cu), Cobalt (Co) 87.4 9.1e-231 31 476 0.9350 0.9978 experiment
NMLKLBLP_00016 Arsenic (As) 97.7 6.7e-75 1 131 1.0000 1.0000 experiment
NMLKLBLP_00017 Arsenic (As), Antimony (Sb) 93.7 8.8e-217 1 429 1.0000 1.0000 experiment
NMLKLBLP_00018 Arsenic (As), Antimony (Sb), Bismuth (Bi) 97.1 2.5e-56 1 104 1.0000 1.0000 experiment
NMLKLBLP_00040 Cadmium (Cd), Zinc (Zn) 89.8 5.7e-97 1 205 1.0000 1.0000 experiment
NMLKLBLP_00098 Copper (Cu), Cobalt (Co) 87.4 9.1e-231 31 476 0.9350 0.9978 experiment
ILKBNKLN_00016 Arsenic (As) 100 2.1e-74 1 131 1.0000 1.0000 prediction
ILKBNKLN_00017 Arsenic (As), Antimony (Sb) 100 4.3e-225 1 429 1.0000 1.0000 prediction
ILKBNKLN_00018 Arsenic (As) 100 4.6e-56 1 104 1.0000 1.0000 prediction
ILKBNKLN_00040 Cadmium (Cd), Zinc (Zn) 99 6.5e-102 1 205 1.0000 1.0000 prediction
ILKBNKLN_00098 Copper (Cu), Cobalt (Co) 100 4.6e-276 1 477 1.0000 1.0000 prediction
ILKBNKLN_00099 Copper (Cu) 98.1 0 1 686 1.0015 1.0000 prediction
NMLKLBLP_00016 Arsenic (As) 100 2.1e-74 1 131 1.0000 1.0000 prediction
NMLKLBLP_00017 Arsenic (As), Antimony (Sb) 100 4.3e-225 1 429 1.0000 1.0000 prediction
NMLKLBLP_00018 Arsenic (As) 100 4.6e-56 1 104 1.0000 1.0000 prediction
NMLKLBLP_00040 Cadmium (Cd), Zinc (Zn) 99 6.5e-102 1 205 1.0000 1.0000 prediction
NMLKLBLP_00098 Copper (Cu), Cobalt (Co) 100 4.6e-276 1 477 1.0000 1.0000 prediction
NMLKLBLP_00099 Copper (Cu) 98.1 0 1 686 1.0015 1.0000 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
ILKBNKLN_00034 PHI:6191 Lqo 82.3 3.8e-247 1 497 0.9960 1.0000 rodents skin infection; food poisoning; respiratory disease L-lactate-quinone oxidoreductases reduced virulence
ILKBNKLN_00035 PHI:11807 ohyA 74.5 3.8e-270 1 591 1.0000 1.0000 rodents skin infection; food poisoning; respiratory disease oleate hydratase reduced virulence
NMLKLBLP_00034 PHI:6191 Lqo 82.3 3.8e-247 1 497 0.9960 1.0000 rodents skin infection; food poisoning; respiratory disease L-lactate-quinone oxidoreductases reduced virulence
NMLKLBLP_00035 PHI:11807 ohyA 74.5 3.8e-270 1 591 1.0000 1.0000 rodents skin infection; food poisoning; respiratory disease oleate hydratase 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
ILKBNKLN_00042 ATH63766.1|GT8 100 0 1 453 1 1
ILKBNKLN_00043 ATH63767.1|GT4 100 0 1 503 1 1
ILKBNKLN_00107 QKQ09233.1|GT2 98.4 8.42e-258 1 367 1 1
ILKBNKLN_00118 ATH63830.1|GH13_31 100 0 1 552 1 1
NMLKLBLP_00042 ATH63766.1|GT8 100 0 1 453 1 1
NMLKLBLP_00043 ATH63767.1|GT4 100 0 1 503 1 1
NMLKLBLP_00107 QKQ09233.1|GT2 98.4 8.42e-258 1 367 1 1
NMLKLBLP_00118 ATH63830.1|GH13_31 100 0 1 552 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
ILKBNKLN_00017 2.A.45.1.1 92.5 1e-211 1 429 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.45 The Arsenite-Antimonite (ArsB) Efflux Family
ILKBNKLN_00033 2.A.118.1.7 72.7 8.7e-210 16 521 0.9712 0.9807 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.118 The Basic Amino Acid Antiporter (ArcD) Family
ILKBNKLN_00040 2.A.77.1.1 89.3 4.8e-95 1 205 1.0000 0.9809 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.77 The Cadmium Resistance (CadD) Family
NMLKLBLP_00017 2.A.45.1.1 92.5 1e-211 1 429 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.45 The Arsenite-Antimonite (ArsB) Efflux Family
NMLKLBLP_00033 2.A.118.1.7 72.7 8.7e-210 16 521 0.9712 0.9807 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.118 The Basic Amino Acid Antiporter (ArcD) Family
NMLKLBLP_00040 2.A.77.1.1 89.3 4.8e-95 1 205 1.0000 0.9809 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.77 The Cadmium Resistance (CadD) Family