P2CS-Web

Two-component systems, rebuilt for exploration

Haliovirga abyssi

Bacteria · Fusobacteriota · Fusobacteriia · Fusobacteriales · Haliovirgaceae · Haliovirga

TCS census

Genome-level counts from the current P2CS annotation tables

All genes81Total predicted proteins linked to this genome record.
HK39Histidine kinase predictions in the genes table.
RR41Response regulator predictions in the genes table.
CheA4CheA-like kinase predictions in the genes table.
PP1Phosphatase predictions in the genes table.

Genome overview

Curated genome metadata from the imported catalog and Cheops-linked sources

Genome IDGCF_030295325Stable genome identifier used across P2CS views.
Taxon ID2996794NCBI taxonomic identifier linked to the imported genome catalog.
AssemblyASM3029532v1 · Complete Genomereference genome
Composition2,73 Mb · 26,5% GCGenome size and GC content when available in the catalog.
External recordsPRJNA224116 · SAMD00562171Haliovirga abyssi
Taxonomy snapshotBacteria · Fusobacteriota · Fusobacteriia · Fusobacteriales · Haliovirgaceae · HaliovirgaBacteria; Fusobacteriati; Fusobacteriota; Fusobacteriia; Fusobacteriales; Haliovirgaceae; Haliovirga

genome_ANI

ANI and taxonomy consistency checks

Taxonomy checkOK
Best-match statuslow-coverage
Best speciesFusobacterium nucleatum
Best type assemblyGCA_964642115.1
Best type categorytype
Best ANI84.04%
Best qcov0,2%
Best scov0,3%
Declared assemblysame
CommentAssembly is the type-strain, no match is expected

genome_checkM

Completeness and contamination estimates

Completeness95,6%
Contamination3,4%
Marker setFusobacteriales

genome_genbank

Assembly and annotation metadata

Organism nameHaliovirga abyssi
Infraspecificstrain=IC12
Version statuslatest
Release typeMajor
Genome representationFull
Sequence release2023-05-11
SubmitterKyoto University
Type materialassembly from type material
Groupbacteria
Ungapped size2 725 473
Replicons2
Scaffolds2
Contigs2
Annotation providerKyoto University
Annotation nameAnnotation submitted by Kyoto University
Annotation date2023-05-10
Total genes2345
Protein-coding2290
Non-coding55

Genome circular map

Circos-like chromosome overview with gene and TCS coordinates

Genome annotation GFF not found for this genome.

TCS Organization

Click a count to filter the gene list below

OrphanPairTriadTetradPentadPentad+Not in context
41 (41 genes)16 (32 genes)0 (0 gene)0 (0 gene)0 (0 gene)0 (0 gene)8 (8 genes)

Not in context = predicted HK, RR, and PP genes missing from the TCS context database.

Gene distribution

Total proteins: 81

Distribution chart type
HK39proteins in this genome

P2CS Predicted Histidine Kinases

P2CS Predicted Histidine Kinases (39 proteins across 4 families) · Phylogenetic Tree · Data Heatmap

Genome total 39Database total 12 517 906Click counts to filter the genome gene list
Family distribution

Genome composition on the right, clickable family counts on the left, and a genome-vs-database radar plot.

Histidine Kinases39

Open only the HK proteins for this genome in the gene list below.

HK families4 entries
Classic25 · 64,1%Hybrid5 · 12,8%Unorthodox5 · 12,8%CheA4 · 10,3%

Family composition

Pie, bar, or treemap view for the current genome.

Genome vs database radar

Percent of each family in this genome compared with the whole P2CS database.

RR41proteins in this genome

P2CS Predicted Response Regulators

P2CS Predicted Response Regulators (41 proteins across 11 families) · Phylogenetic Tree · Data Heatmap

Genome total 41Database total 12 774 395Click counts to filter the genome gene list
Family distribution

Genome composition on the right, clickable family counts on the left, and a genome-vs-database radar plot.

Response Regulators41

Open only the RR proteins for this genome in the gene list below.

RR families11 entries
CheY17 · 41,5%OmpR7 · 17,1%NtrC4 · 9,8%unclassified4 · 9,8%CheB3 · 7,3%FrzZ1 · 2,4%LytTR1 · 2,4%NarL1 · 2,4%PleD1 · 2,4%RpfG1 · 2,4%RsbU1 · 2,4%

Family composition

Pie, bar, or treemap view for the current genome.

Genome vs database radar

Percent of each family in this genome compared with the whole P2CS database.

PP1proteins in this genome

P2CS Predicted PP / Hpt Proteins

P2CS Predicted PP / Hpt Proteins (1 proteins across 1 families) · Phylogenetic Tree · Data Heatmap

Genome total 1Database total 371 352Click counts to filter the genome gene list
Family distribution

Genome composition on the right, clickable family counts on the left, and a genome-vs-database radar plot.

PP / Hpt Proteins1

Open only the PP proteins for this genome in the gene list below.

PP families1 entries
HPt1 · 100%

Family composition

Pie, bar, or treemap view for the current genome.

Genome vs database radar

Percent of each family in this genome compared with the whole P2CS database.

P2CS shortcuts

Classic entry points plus a collapsible genome protein list at the end of the page

All genesHKRRCheAPPOrphanPairTriadPentad+
Genome proteins

Full genome protein list with the same filters, grouped contexts, and links to the browser or gene detail pages.

Open this section to load the genome protein list.

Selected gene

Inline mode is active

Choose a gene from the list above to display its details below the genome sheet.