Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1395
  Reference Plasmid   NZ_MZ603802.1
  Reference Plasmid Size   33480
  Reference Plasmid GC Content   0.34
  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
M0208883 CABKKAGJ_00025 18680 3 Gut 0.75 protein_coding synonymous_variant LOW 870T>C Ile290Ile
M0208884 CABKKAGJ_00025 18929 3 Gut 0.75 protein_coding synonymous_variant LOW 621A>G Gln207Gln
M0208885 CABKKAGJ_00025 19268 3 Gut 0.75 protein_coding synonymous_variant LOW 282C>T Val94Val
M0208886 CABKKAGJ_00025 19442 3 Gut 0.75 protein_coding synonymous_variant LOW 108A>G Ala36Ala
M0208887 CABKKAGJ_00025 19490 3 Gut 0.75 protein_coding synonymous_variant LOW 60A>C Leu20Leu
M0208888 CABKKAGJ_00015 19588 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -4912T>A None
M0208889 CABKKAGJ_00015 19589 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -4913T>A None
M0208890 CABKKAGJ_00015 19633 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -4957C>G 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






        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
CABKKAGJ_00032 ARO:3005021 99.7 1.77e-260 37 393 0.9084 1.0000 lincosamide antibiotic Cfr 23S ribosomal RNA methyltransferase antibiotic target alteration
CABKKAGJ_00033 ARO:3004470 100 0 1 531 0.9852 0.9797 tetracycline antibiotic Miscellaneous ABC-F subfamily ATP-binding cassette ribosomal protection proteins antibiotic target protection
CABKKAGJ_00035 ARO:3002704 99.2 0 1 475 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) 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






        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
CABKKAGJ_00009 ACY79551.1|GH23 100 5.62e-273 1 369 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
CABKKAGJ_00001 3.A.7.14.1 93.6 1.4e-123 1 270 1.0000 1.5410 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
CABKKAGJ_00003 3.A.7.14.1 98.8 3.9e-168 1 323 1.0000 1.7596 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
CABKKAGJ_00004 3.A.7.14.1 92.9 3.4e-153 5 314 0.9873 1.6940 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
CABKKAGJ_00005 3.A.7.14.1 86.9 7e-151 1 306 0.9967 1.6721 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
CABKKAGJ_00006 3.A.7.14.1 98.9 7.09999999999997e-311 1 551 1.0000 3.0109 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
CABKKAGJ_00007 3.A.7.14.1 96.5 2.7e-68 1 143 1.0000 0.7814 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
CABKKAGJ_00008 3.A.7.14.1 95.1 4.6e-89 1 183 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
CABKKAGJ_00009 3.A.7.14.1 99.5 3.1e-214 1 369 1.0000 2.0164 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
CABKKAGJ_00010 3.A.7.14.1 98 3.3e-242 1 450 1.0000 2.4590 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
CABKKAGJ_00011 3.A.7.14.1 98.9 0 1 653 1.0000 3.5683 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
CABKKAGJ_00012 3.A.7.14.1 98.4 3.6e-105 1 190 1.0000 1.0383 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
CABKKAGJ_00015 3.A.7.14.1 97.2 0 1 654 1.0000 3.5738 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