Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C891
  Reference Plasmid   NZ_CP072889.1
  Reference Plasmid Size   1186145
  Reference Plasmid GC Content   0.40
  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
M0188181 NJBPEEBK_00889 948114 4 Gut 0.05 protein_coding missense_variant MODERATE 253C>T Leu85Phe
M0188182 NJBPEEBK_00897 959313 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -3771G>A None
M0188183 NJBPEEBK_00917 976914 4 Gut 0.05 protein_coding missense_variant MODERATE 1267C>G Leu423Val






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
NJBPEEBK_00695 Arsenic (As) 80 3.2e-57 1 130 0.9701 0.9701 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
NJBPEEBK_00744 PHI:124066 prdB 74 2.5e-61 1 150 1.0000 0.9668 rodents nosocomial diarrhea proline reductase reduced virulence
NJBPEEBK_00745 PHI:124066 prdB 85.5 1.4e-34 1 83 1.0000 0.9668 rodents nosocomial diarrhea proline reductase reduced virulence
NJBPEEBK_00819 PHI:7637 CspA 81.5 2e-26 1 65 0.9848 0.9848 bony fishes listeriosis cold shock protein reduced virulence
NJBPEEBK_00999 PHI:8586 mntH1 87.5 9.7e-249 15 524 0.9497 0.9793 moths nosocomial infection divalent metal cation transporter unaffected pathogenicity
NJBPEEBK_01007 PHI:8586 mntH1 75.2 7.8e-219 3 523 0.9962 0.9793 moths nosocomial infection divalent metal cation transporter unaffected pathogenicity






        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
NJBPEEBK_00048 QXJ61305.1|GH73 100 0 1 656 1 1
NJBPEEBK_00128 QXJ61382.1|GH36 100 0 1 723 1 1
NJBPEEBK_00129 QXJ61383.1|GH13_31 100 0 1 541 1 1
NJBPEEBK_00131 QXJ61385.1|GH32 100 0 1 499 1 1
NJBPEEBK_00190 QXJ61437.1|GH1 100 0 1 474 1 1
NJBPEEBK_00193 QXJ61440.1|GH43_26 100 1.96e-252 1 323 1 1
NJBPEEBK_00227 QXJ61473.1|GH1 100 0 1 467 1 1
NJBPEEBK_00234 QXJ61479.1|GH1 100 0 1 466 1 1
NJBPEEBK_00266 QXJ61509.1|GH13_31 100 0 1 571 1 1
NJBPEEBK_00281 QXJ61522.1|GH1 100 0 1 483 1 0.9959
NJBPEEBK_00309 QXJ61548.1|GH39 100 0 1 809 1 1
NJBPEEBK_00311 QXJ61550.1|GH1 100 0 1 477 1 1
NJBPEEBK_00314 QXJ61553.1|GH78 100 0 1 874 1 1
NJBPEEBK_00356 QXJ61591.1|AA10 100 2.9e-141 1 192 1 1
NJBPEEBK_00361 QXJ61595.1|GT8 100 1.13e-213 1 288 1 1
NJBPEEBK_00367 QXJ61598.1|GT113 100 1.18e-246 1 336 1 1
NJBPEEBK_00373 QXJ61604.1|GT4 100 0 1 481 1 1
NJBPEEBK_00409 QXJ61637.1|GH1 100 0 1 469 1 1
NJBPEEBK_00432 QXJ61660.1|GH1 100 0 1 489 1 1
NJBPEEBK_00446 QXJ61672.1|GH2 100 0 1 1018 1 1
NJBPEEBK_00485 QXJ61708.1|CBM50 100 9.54e-150 1 286 1 1
NJBPEEBK_00519 QXJ61739.1|GH4 100 0 1 442 1 1
NJBPEEBK_00567 QXJ60750.1|GT4 100 1.26e-302 1 416 1 1
NJBPEEBK_00568 QXJ60751.1|GT26 100 1.45e-172 1 241 1 1
NJBPEEBK_00572 QXJ60755.1|GT4 100 1.24e-253 1 346 1 1
NJBPEEBK_00594 UXJ98116.1|GH1 100 0 1 466 1 1
NJBPEEBK_00623 QXJ60799.1|GH1 100 0 1 461 1 1
NJBPEEBK_00666 QXJ60839.1|GH20 100 0 1 436 1 1
NJBPEEBK_00668 QXJ60841.1|GH38 100 0 1 890 1 1
NJBPEEBK_00669 QXJ60842.1|GH125 100 0 1 429 1 1
NJBPEEBK_00671 QXJ60844.1|GH92 100 0 1 713 1 1
NJBPEEBK_00786 QXJ60949.1|GH38 100 0 1 873 1 1
NJBPEEBK_00788 QXJ60951.1|GH1 100 0 1 456 1 1
NJBPEEBK_00790 QXJ60953.1|GH43_12 100 0 1 514 1 1
NJBPEEBK_00792 QXJ60955.1|GH78 100 0 1 941 1 1
NJBPEEBK_00793 QXJ60956.1|GH3 100 0 1 561 1 1
NJBPEEBK_00796 QXJ60959.1|GH2 100 0 1 797 1 1
NJBPEEBK_00816 QXJ60979.1|GH4 100 0 1 445 1 1
NJBPEEBK_00887 QXJ61047.1|GT2 100 2.47e-220 1 312 1 1
NJBPEEBK_00914 QXJ61071.1|CBM34|GH13_20 100 0 1 582 1 1
NJBPEEBK_00938 QXJ61095.1|GH3 100 0 1 765 1 1
NJBPEEBK_00940 QXJ61097.1|GH1 100 0 1 464 1 1
NJBPEEBK_00942 QXJ61099.1|GT51 100 0 1 855 1 1
NJBPEEBK_00955 QXJ61111.1|GT8 100 9.27e-211 1 284 1 1
NJBPEEBK_00956 QXJ61794.1|GT8 100 1.89e-218 2 296 0.9966 1
NJBPEEBK_00972 QXJ61126.1|GH36 100 0 1 744 1 1
NJBPEEBK_00974 QXJ61128.1|GH1 100 0 1 478 1 1
NJBPEEBK_01027 QXJ61174.1|CBM50|GH73 100 3.98000000000002e-310 1 528 1 1
NJBPEEBK_01040 QXJ61186.1|GH33 100 1.96e-294 1 388 1 1
NJBPEEBK_01056 QXJ61200.1|GH1 100 0 1 464 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
NJBPEEBK_00155 4.A.6.1.19 70.5 1.1e-91 2 259 0.9885 0.9281 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
NJBPEEBK_00323 1.S.1.1.1 74.2 1.4e-30 1 89 0.9570 0.9468 1 Channels/Pores 1.S Bacterial Micro/NanoCompartment Shell Protein Pores 1.S.1 The Bacterial Microcompartment Shell/Pore-forming Protein-1 (BMC-SP1) Family
NJBPEEBK_00342 1.S.1.1.1 74.2 5.5e-30 1 89 0.9468 0.9468 1 Channels/Pores 1.S Bacterial Micro/NanoCompartment Shell Protein Pores 1.S.1 The Bacterial Microcompartment Shell/Pore-forming Protein-1 (BMC-SP1) Family
NJBPEEBK_00513 4.A.5.1.2 75.4 2.3e-184 8 422 0.9811 0.9811 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.5 The PTS Galactitol (Gat) Family
NJBPEEBK_00934 2.A.3.7.7 73.1 1.7e-191 1 446 0.9429 0.9571 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.3 The Amino Acid-Polyamine-Organocation (APC) Family
NJBPEEBK_01041 2.A.47.4.7 73.9 2.1e-169 1 424 0.9953 0.9977 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.47 The Divalent Anion:Na+ Symporter (DASS) Family