Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1850
  Reference Plasmid   1111525849663500_bin.20__k141_1265514
  Reference Plasmid Size   103815
  Reference Plasmid GC Content   0.56
  Reference Plasmid Mobility Type   non-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
M0018906 KAAGILIN_00070 78933 21 Skin 0.11 protein_coding stop_lost&splice_region_variant HIGH 100T>G Ter34Gluext*?
M0018907 KAAGILIN_00075 86768 9 Skin 0.05 protein_coding missense_variant MODERATE 1132C>T Pro378Ser
M0018908 KAAGILIN_00018 20056 16 Skin 0.08 protein_coding synonymous_variant LOW 169C>A Arg57Arg
M0018909 KAAGILIN_00024 27430 14 Skin 0.07 protein_coding synonymous_variant LOW 1305G>T Leu435Leu






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
KAAGILIN_00007 VFG000445 Type 1 fimbriae 71.4 5.5e-85 14 230 0.9435 0.9435 Adherence chaperone protein FimC experiment
KAAGILIN_00008 VFG000446 Type 1 fimbriae 75.6 0 17 845 0.9811 0.9529 Adherence usher protein FimD experiment
KAAGILIN_00009 VFG000447 Type 1 fimbriae 75.5 6.7e-140 13 335 0.9642 0.9642 Adherence type I fimbriae minor fimbrial subunit FimH, adhesin experiment
KAAGILIN_00011 VFG000449 Type 1 fimbriae 77.6 2.4e-87 1 208 1.0 0.9905 Adherence DNA-binding response regulator experiment
KAAGILIN_00067 VFG048518 Ent 85.3 0 1 735 1.0 0.9906 Nutritional/Metabolic factor outer membrane receptor FepA experiment
KAAGILIN_00072 VFG000925 Enterobactin 86.7 1.5e-134 1 263 0.9925 0.9705 Nutritional/Metabolic factor ferrienterobactin ABC transporter ATPase experiment
KAAGILIN_00073 VFG000928 Enterobactin 86.8 3e-153 5 330 0.9879 0.9879 Nutritional/Metabolic factor iron-enterobactin ABC transporter permease experiment
KAAGILIN_00074 VFG048468 Ent 84.1 3e-148 1 333 0.994 0.994 Nutritional/Metabolic factor iron-enterobactin transporter membrane protein experiment
KAAGILIN_00075 VFG048459 Ent 87.4 1.1e-192 1 406 0.9667 0.9831 Nutritional/Metabolic factor enterobactin exporter EntS experiment
KAAGILIN_00076 VFG000924 Enterobactin 80.5 5.2e-142 1 318 0.9969 1 Nutritional/Metabolic factor ferrienterobactin ABC transporter periplasmic binding protein experiment
KAAGILIN_00077 VFG048439 Ent 78.3 8.5e-179 1 391 1.0 1 Nutritional/Metabolic factor isochorismate synthase experiment
KAAGILIN_00078 VFG048429 Ent 82 5.7e-258 3 531 0.9869 0.9888 Nutritional/Metabolic factor enterobactin synthase subunit E experiment
KAAGILIN_00079 VFG048419 Ent 90.8 3.2e-151 1 283 1.0 1 Nutritional/Metabolic factor 2,3-dihydro-2,3-dihydroxybenzoate synthetase, isochroismatase experiment
KAAGILIN_00080 VFG048409 Ent 86.2 4.6e-117 5 251 0.9841 0.996 Nutritional/Metabolic factor 2,3-dihydroxybenzoate-2,3-dehydrogenase experiment
KAAGILIN_00007 VFG000445 Type 1 fimbriae 71.4 4.1e-84 14 230 0.9435 0.9435 Adherence chaperone protein FimC prediction
KAAGILIN_00008 VFG042682 Type 1 fimbriae 74.3 0 1 844 0.9988 0.9668 Adherence outer membrane usher protein prediction
KAAGILIN_00009 VFG021168 Type 1 fimbriae 75.9 1.6e-140 13 335 0.9642 0.9642 Adherence type I fimbriae minor fimbrial subunit FimH, adhesin prediction
KAAGILIN_00011 VFG042685 Type 1 fimbriae 77.6 8e-87 1 208 1.0 0.9905 Adherence putative regulatory protein prediction
KAAGILIN_00067 VFG048511 Ent 86.6 0 1 735 1.0 0.9813 Nutritional/Metabolic factor outer membrane receptor FepA prediction
KAAGILIN_00072 VFG013021 Enterobactin synthesis and transport 87.1 5e-134 1 263 0.9925 0.9705 Nutritional/Metabolic factor iron-enterobactin ABC transporter ATP-binding protein prediction
KAAGILIN_00073 VFG013036 Enterobactin synthesis and transport 87.1 7.8e-153 5 330 0.9879 0.9879 Nutritional/Metabolic factor iron-enterobactin ABC transporter permease prediction
KAAGILIN_00074 VFG048461 Ent 85.6 4.8e-150 1 333 0.994 0.994 Nutritional/Metabolic factor iron-enterobactin transporter membrane protein prediction
KAAGILIN_00075 VFG048460 Ent 87.7 2.9e-192 1 406 0.9667 0.9831 Nutritional/Metabolic factor enterobactin exporter EntS prediction
KAAGILIN_00076 VFG000924 Enterobactin 80.5 3.9e-141 1 318 0.9969 1 Nutritional/Metabolic factor ferrienterobactin ABC transporter periplasmic binding protein prediction
KAAGILIN_00077 VFG048438 Ent 79 2.3e-180 1 391 1.0 1 Nutritional/Metabolic factor isochorismate synthase prediction
KAAGILIN_00078 VFG048425 Ent 82.2 1.1e-257 3 531 0.9869 0.9888 Nutritional/Metabolic factor enterobactin synthase subunit E prediction
KAAGILIN_00079 VFG048418 Ent 91.5 3.7e-151 1 283 1.0 1 Nutritional/Metabolic factor 2,3-dihydro-2,3-dihydroxybenzoate synthetase, isochroismatase prediction
KAAGILIN_00080 VFG048401 Ent 86.9 4.3e-119 1 251 1.0 1 Nutritional/Metabolic factor 2,3-dihydroxybenzoate-2,3-dehydrogenase 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
KAAGILIN_00052 ARO:3003380 70.3 6.57e-94 1 192 0.9948 0.9948 fluoroquinolone antibiotic resistance-nodulation-cell division (RND) antibiotic efflux pump antibiotic target alteration
KAAGILIN_00054 ARO:3000823 80.5 3.36e-67 1 113 1.0000 0.9113 fluoroquinolone antibiotic resistance-nodulation-cell division (RND) antibiotic efflux pump antibiotic efflux






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
KAAGILIN_00025 PHI:7948 lpxO 87 7.8e-163 1 300 1.0000 1.0000 moths pneumonia fe2+/alpha-ketoglutaratedependent dioxygenase reduced virulence
KAAGILIN_00037 PHI:10047 fumB 85.2 5.6e-284 1 548 0.9982 1.0000 rodents salmonellosis fumarate hydratase class I reduced virulence
KAAGILIN_00053 PHI:7476 RomA (VK055_1984) 83 9.2e-51 190 295 0.3081 0.8030 rodents pneumonia metallo-beta-lactamase superfamily protein unaffected pathogenicity
KAAGILIN_00054 PHI:7475 ramA (VK055_1983) 86.7 1e-54 1 113 1.0000 1.0000 rodents pneumonia bacterial regulatory helix-turn-helix, AraC family protein unaffected pathogenicity
KAAGILIN_00067 PHI:7538 FepA (VK055_1934) 85.3 0 1 735 1.0000 1.0000 rodents pneumonia TonB-dependent siderophore receptor family protein unaffected pathogenicity
KAAGILIN_00072 PHI:7541 FepC (VK055_1930) 86.3 1.1e-131 1 263 0.9925 0.9962 rodents pneumonia ferric vibriobactin ABC transporter, ATP-binding protein reduced virulence
KAAGILIN_00073 PHI:123642 fepG 86.5 8.9e-152 5 330 0.9879 0.9879 rodents neonatal meningitis regulatory protein reduced virulence
KAAGILIN_00074 PHI:7483 FepD (VK055_1928) 84.1 7.9e-148 1 333 0.9940 0.9940 rodents pneumonia ferric enterobactin transport system permease unaffected pathogenicity
KAAGILIN_00075 PHI:7481 entS (VK055_1927) 83.4 4.4e-188 1 410 0.9762 0.9856 rodents pneumonia enterobactin exporter unaffected pathogenicity
KAAGILIN_00076 PHI:123644 fepB 80.5 1.4e-141 1 318 0.9969 1.0000 rodents neonatal meningitis regulatory protein reduced virulence
KAAGILIN_00077 PHI:7487 EntC (VK055_1925) 79 8.3e-181 1 391 1.0000 1.0000 rodents pneumonia isochorismate synthase unaffected pathogenicity
KAAGILIN_00078 PHI:7486 entE (VK055_1924) 82 1.5e-257 3 531 0.9869 0.9888 rodents pneumonia (2,3-dihydroxybenzoyl)adenylate synthase unaffected pathogenicity
KAAGILIN_00079 PHI:6565 entB 91.1 1.1e-150 1 282 0.9965 0.9965 rodents pneumonia enterobactin and salmochelin unaffected pathogenicity
KAAGILIN_00080 PHI:7485 EntA (VK055_1922) 86.1 3.7e-118 1 251 1.0000 0.9617 rodents pneumonia 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase unaffected pathogenicity
KAAGILIN_00081 PHI:6270 ybdB 88.3 4.6e-70 1 137 1.0000 1.0000 rodents urinary tract infection proofreading thioesterase lethal
KAAGILIN_00085 PHI:7577 cstA 93.4 0 1 701 1.0000 1.0000 nematodes salmonellosis peptide-utilizing carbon starvation protein reduced virulence
KAAGILIN_00093 PHI:11383 ahpC 98.4 6.4e-107 1 187 1.0000 1.0000 moths salmonellosis peroxiredoxin 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
KAAGILIN_00017 QIU92162.1|GH105 99.2 3.35e-268 1 357 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
KAAGILIN_00031 2.A.3.1.4 92.5 5.5e-240 1 466 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.3 The Amino Acid-Polyamine-Organocation (APC) Family
KAAGILIN_00044 2.A.3.1.1 85.9 2.7e-223 1 462 0.9978 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.3 The Amino Acid-Polyamine-Organocation (APC) Family
KAAGILIN_00045 1.A.23.4.5 82.3 5.5e-191 1 411 0.9928 0.9928 1 Channels/Pores 1.A α-Type Channels 1.A.23 The Small Conductance Mechanosensitive Ion Channel (MscS) Family
KAAGILIN_00048 9.B.8.3.4 76 9e-155 1 341 0.9942 0.9827 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.8 The DUF2157 (DUF2157) Family
KAAGILIN_00067 1.B.14.1.22 80.3 0 1 735 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.14 The Outer Membrane Receptor (OMR) Family
KAAGILIN_00072 3.A.1.14.2 87.1 3.9e-134 1 263 0.9925 0.9705 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
KAAGILIN_00073 3.A.1.14.2 86.5 2e-151 5 330 0.9879 1.2030 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
KAAGILIN_00074 3.A.1.14.2 85 1.8e-147 1 334 0.9970 1.2325 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
KAAGILIN_00075 2.A.1.38.1 83.2 3.7e-187 1 410 0.9762 0.9856 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
KAAGILIN_00076 3.A.1.14.2 80.5 1.8e-141 1 318 0.9969 1.1734 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
KAAGILIN_00083 9.B.156.1.3 93.5 1.6e-71 1 154 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.156 The Putative 4-10 TMS Permease (4-10P) Family
KAAGILIN_00085 2.A.114.1.1 94 0 1 701 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.114 The Putative Peptide Transporter Carbon Starvation CstA (CstA) Family