Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1150
  Reference Plasmid   NZ_CP122305.1
  Reference Plasmid Size   131504
  Reference Plasmid GC Content   0.35
  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
M0197965 IMPFPDDD_00133 123189 3 Gut 0.50 protein_coding missense_variant MODERATE 77G>T Gly26Val
M0197966 IMPFPDDD_00133 123227 3 Gut 0.50 protein_coding synonymous_variant LOW 39A>G Glu13Glu
M0197967 IMPFPDDD_00133 123233 3 Gut 0.50 protein_coding synonymous_variant LOW 33A>G Gln11Gln
M0197968 IMPFPDDD_00134 123303 3 Gut 0.50 protein_coding synonymous_variant LOW 237T>C Tyr79Tyr
M0197969 IMPFPDDD_00134 123306 3 Gut 0.50 protein_coding synonymous_variant LOW 234C>T Arg78Arg
M0197970 IMPFPDDD_00134 123447 3 Gut 0.50 protein_coding synonymous_variant LOW 93T>C Asn31Asn
M0197971 IMPFPDDD_00134 123528 3 Gut 0.50 protein_coding synonymous_variant LOW 12T>G Thr4Thr
M0197972 IMPFPDDD_00135 123583 3 Gut 0.50 protein_coding synonymous_variant LOW 183T>A Ile61Ile
M0197973 IMPFPDDD_00135 123603 3 Gut 0.50 protein_coding missense_variant MODERATE 163A>C Lys55Gln
M0197974 IMPFPDDD_00135 123655 3 Gut 0.50 protein_coding synonymous_variant LOW 111T>C Ile37Ile
M0197975 IMPFPDDD_00135 123694 3 Gut 0.50 protein_coding synonymous_variant LOW 72G>A Gly24Gly
M0197976 IMPFPDDD_00135 123700 3 Gut 0.50 protein_coding synonymous_variant LOW 66T>A Ile22Ile
M0197977 IMPFPDDD_00126 123768 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4711G>A None
M0197978 IMPFPDDD_00126 123795 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4738G>A None
M0197979 IMPFPDDD_00136 123929 4 Gut 0.67 protein_coding synonymous_variant LOW 831T>C Ser277Ser
M0197980 IMPFPDDD_00136 123968 4 Gut 0.67 protein_coding synonymous_variant LOW 792C>A Gly264Gly
M0197981 IMPFPDDD_00136 124081 4 Gut 0.67 protein_coding missense_variant MODERATE 679A>G Thr227Ala
M0197982 IMPFPDDD_00136 124220 4 Gut 0.67 protein_coding synonymous_variant LOW 540C>T Val180Val






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
IMPFPDDD_00007 VFG042989 PilA-type pili (PGS1, pilin gene clusters 1) 98.7 6.7e-124 1 223 1.0 1 Adherence putative housekeeping sortase prediction
IMPFPDDD_00008 VFG042988 PilA-type pili (PGS1, pilin gene clusters 1) 97.3 0 1 658 1.0 1 Adherence PilA 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
IMPFPDDD_00071 Copper (Cu) 97.7 0 1 710 1.0000 1.0000 experiment
IMPFPDDD_00072 Copper (Cu) 98.5 5.2e-31 1 67 0.9853 0.9853 experiment
IMPFPDDD_00073 Copper (Cu) 99.5 0 11 821 0.9878 1.0000 experiment
IMPFPDDD_00074 Copper (Cu) 100 2.8e-85 1 151 1.0000 1.0000 experiment
IMPFPDDD_00071 Copper (Cu) 100 0 1 710 1.0000 1.0000 prediction
IMPFPDDD_00072 Copper (Cu) 100 2.4e-29 1 68 1.0000 1.0000 prediction
IMPFPDDD_00073 Copper (Cu) 99.9 0 1 821 1.0000 1.0000 prediction
IMPFPDDD_00074 Copper (Cu) 100 6.5e-83 1 151 1.0000 1.0000 prediction
IMPFPDDD_00083 Copper (Cu), Cobalt (Co) 99.2 1.6e-309 1 527 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
IMPFPDDD_00101 ARO:3000375 98.8 4.8e-175 1 245 1.0000 0.9879 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration
IMPFPDDD_00102 ARO:3002647 100 1.07e-198 1 264 1.0000 1.0000 aminoglycoside antibiotic APH(3') antibiotic inactivation
IMPFPDDD_00107 ARO:3002628 99.6 2.98e-211 27 302 0.9139 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
IMPFPDDD_00112 ARO:3002836 99.6 4e-191 1 267 1.0000 1.0000 lincosamide antibiotic lincosamide nucleotidyltransferase (LNU) antibiotic inactivation
IMPFPDDD_00113 ARO:3003206 100 0 1 494 1.0000 1.0000 lincosamide antibiotic lsa-type ABC-F protein antibiotic target protection
IMPFPDDD_00119 ARO:3002626 100 9.66e-218 1 287 1.0000 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
IMPFPDDD_00138 ARO:3000375 98.8 4.8e-175 1 245 1.0000 0.9879 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration






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
IMPFPDDD_00022 QIV91206.1|GH73 100 2.49e-274 1 401 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
IMPFPDDD_00071 3.A.3.5.16 97.7 0 1 710 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
IMPFPDDD_00073 3.A.3.5.15 99.5 0 11 821 0.9878 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily