Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C463
  Reference Plasmid   NZ_CP018625.1
  Reference Plasmid Size   111755
  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
M0166317 MGMFEEEN_00055 42383 14 Gut 0.17 protein_coding missense_variant MODERATE 241A>G Lys81Glu
M0166318 MGMFEEEN_00058 44854 5 Gut 0.06 protein_coding synonymous_variant LOW 729G>A Lys243Lys
M0166319 MGMFEEEN_00049 43877 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4456T>C None
M0166320 MGMFEEEN_00024 21920 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4397C>T None
M0166321 MGMFEEEN_00058 44595 4 Gut 0.05 protein_coding missense_variant MODERATE 470T>C Leu157Pro
M0166322 MGMFEEEN_00058 45244 3 Gut 0.04 protein_coding synonymous_variant LOW 1119A>C Val373Val
M0166323 MGMFEEEN_00058 45262 3 Gut 0.04 protein_coding synonymous_variant LOW 1137T>C Val379Val
M0166324 MGMFEEEN_00051 45562 4 Gut 0.05 protein_coding upstream_gene_variant MODIFIER -4476G>A None
M0166325 MGMFEEEN_00051 45583 4 Gut 0.05 protein_coding upstream_gene_variant MODIFIER -4497T>C None
M0166326 MGMFEEEN_00051 45607 4 Gut 0.05 protein_coding upstream_gene_variant MODIFIER -4521A>C None
M0166327 MGMFEEEN_00051 45613 4 Gut 0.05 protein_coding upstream_gene_variant MODIFIER -4527G>A None
M0166328 MGMFEEEN_00051 45614 4 Gut 0.05 protein_coding upstream_gene_variant MODIFIER -4528G>A None
M0166329 MGMFEEEN_00051 45700 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4614T>C None
M0166330 MGMFEEEN_00092 67833 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -57T>C None
M0166331 MGMFEEEN_00057 43425 3 Gut 0.04 protein_coding synonymous_variant LOW 348T>A Ile116Ile






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
MGMFEEEN_00059 VFG043980 Colicin Ib 99.7 0 1 626 1.0 1 Exotoxin colicin-like pore-forming protein prediction
MGMFEEEN_00066 VFG017870 Icm/dot type IVB locus 77.9 1e-89 1 208 0.9905 0.9952 Effector delivery system ParA family 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
MGMFEEEN_00031 Mercury (Hg) 93.8 4e-73 1 144 1.0000 1.0000 experiment
MGMFEEEN_00032 Mercury (Hg) 100 1.2e-62 1 116 1.0000 1.0000 experiment
MGMFEEEN_00033 Mercury (Hg) 90.1 7e-39 1 91 1.0000 1.0000 experiment
MGMFEEEN_00035 Mercury (Hg) 85.3 5e-268 1 564 1.0018 1.0071 experiment
MGMFEEEN_00036 Mercury (Hg) 82.6 1.3e-48 1 120 1.0083 1.0000 experiment
MGMFEEEN_00037 Mercury (Hg) 78.2 4.9e-33 1 78 1.0000 1.0000 experiment
MGMFEEEN_00031 Mercury (Hg) 100 4.3e-76 1 144 1.0000 0.7619 prediction
MGMFEEEN_00032 Mercury (Hg) 99.1 3.5e-60 1 116 1.0000 1.0000 prediction
MGMFEEEN_00033 Mercury (Hg) 100 6.3e-41 1 91 1.0000 0.8835 prediction
MGMFEEEN_00035 Mercury (Hg), Phenylmercury Acetate [class: Organo-mercury] 100 0 1 564 1.0000 1.0000 prediction
MGMFEEEN_00036 Mercury (Hg) 91.7 5.5e-53 1 120 1.0000 1.0000 prediction
MGMFEEEN_00037 Mercury (Hg) 83.3 2.7e-32 1 78 1.0000 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
MGMFEEEN_00041 ARO:3002641 98.5 6.49e-208 1 271 1.0000 1.0000 aminoglycoside antibiotic APH(3') antibiotic inactivation
MGMFEEEN_00043 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation
MGMFEEEN_00044 ARO:3002639 99.6 5.98e-202 1 267 1.0000 1.0000 aminoglycoside antibiotic APH(3'') antibiotic inactivation
MGMFEEEN_00045 ARO:3000412 99.6 8.29e-186 1 271 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
MGMFEEEN_00047 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






        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
MGMFEEEN_00010 AHF22950.1|GH23 100 5.89e-138 1 186 1 1
MGMFEEEN_00135 ASL56610.1|GH23 100 4.31e-139 2 189 0.9947 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
MGMFEEEN_00032 1.A.72.3.1 87.9 3e-54 1 116 1.0000 1.2747 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
MGMFEEEN_00033 1.A.72.3.1 90.1 2.6e-37 1 91 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
MGMFEEEN_00037 1.A.72.5.1 100 1.8e-39 1 78 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.72 The Mercuric Ion Pore (Mer) Superfamily
MGMFEEEN_00059 1.C.1.1.2 98.7 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
MGMFEEEN_00060 8.B.24.2.1 99.1 3.2e-56 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
MGMFEEEN_00099 3.A.7.10.1 100 0 1 763 1.0000 7.9479 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00100 3.A.7.10.1 99.7 1.2e-207 1 356 1.0000 3.7083 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00101 3.A.7.10.1 99.8 1.2e-243 1 402 1.0000 4.1875 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00102 1.E.53.1.10 88.4 5.4e-16 9 51 0.8431 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
MGMFEEEN_00107 9.B.40.1.2 92.1 0 1 720 1.0000 0.9691 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.40 The DotA/TraY (DotA/TraY) Family
MGMFEEEN_00118 3.A.7.10.1 100 6.1e-185 1 327 1.0000 3.4063 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00119 3.A.7.10.1 99.6 4.3e-129 1 230 1.0000 2.3958 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00120 3.A.7.10.1 100 1.3e-57 1 115 1.0000 1.1979 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00123 3.A.7.10.1 99 4.6e-56 1 96 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00124 3.A.7.10.1 100 3.3e-222 1 382 1.0000 3.9792 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00125 3.A.7.10.1 100 5.6e-160 1 272 1.0000 2.8333 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
MGMFEEEN_00126 3.A.7.10.1 100 6e-87 1 152 1.0000 1.5833 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family