P2CS-Web

Two-component systems, rebuilt for exploration

Bifidobacterium longum subsp. longum

Bacteria · Actinomycetota · Actinomycetes · Bifidobacteriales · Bifidobacteriaceae · Bifidobacterium

TCS census

Genome-level counts from the current P2CS annotation tables

All genes22Total predicted proteins linked to this genome record.
HK9Histidine kinase predictions in the genes table.
RR12Response regulator predictions in the genes table.
CheA0CheA-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_004333215Stable genome identifier used across P2CS views.
Taxon ID1679NCBI taxonomic identifier linked to the imported genome catalog.
AssemblyASM433321v1 · ContigNo RefSeq category available for this record.
Composition2,38 Mb · 60,0% GCGenome size and GC content when available in the catalog.
External recordsPRJNA224116 · SAMN06368635Bifidobacterium longum subsp. longum
Taxonomy snapshotBacteria · Actinomycetota · Actinomycetes · Bifidobacteriales · Bifidobacteriaceae · BifidobacteriumBacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

genome_ANI

ANI and taxonomy consistency checks

Taxonomy checkOK
Best-match statussubspecies-match
Best speciesBifidobacterium longum
Best type assemblyGCA_000196555.1
Best type categorytype
Best ANI98.78%
Best qcov82,8%
Best scov82,8%
Declared assemblyGCA_000196555.1
Declared organismBifidobacterium longum subsp. longum JCM 1217
Declared categorytype
Declared ANI98.78%

genome_checkM

Completeness and contamination estimates

Completeness99,3%
Contamination0,3%
Marker setBifidobacterium longum

genome_genbank

Assembly and annotation metadata

Organism nameBifidobacterium longum subsp. longum
Infraspecificstrain=MCC10079
WGS masterSHSA00000000.1
Version statuslatest
Release typeMajor
Genome representationFull
Sequence release2019-03-08
SubmitterMorinaga Milk Industry
Groupbacteria
Ungapped size2 382 717
Replicons0
Scaffolds77
Contigs77
Annotation providerMorinaga Milk Industry
Annotation nameAnnotation submitted by Morinaga Milk Industry
Annotation date2019-03-08
Total genes2031
Protein-coding1977
Non-coding54
PubMed29311585

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
9 (9 genes)5 (10 genes)0 (0 gene)0 (0 gene)0 (0 gene)0 (0 gene)3 (3 genes)

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

Gene distribution

Total proteins: 22

Distribution chart type
HK9proteins in this genome

P2CS Predicted Histidine Kinases

P2CS Predicted Histidine Kinases (9 proteins across 1 families) · Phylogenetic Tree · Data Heatmap

Genome total 9Database 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 Kinases9

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

HK families1 entries
Classic9 · 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.

RR12proteins in this genome

P2CS Predicted Response Regulators

P2CS Predicted Response Regulators (12 proteins across 4 families) · Phylogenetic Tree · Data Heatmap

Genome total 12Database 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 Regulators12

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

RR families4 entries
NarL5 · 41,7%OmpR5 · 41,7%AmiR_NasR1 · 8,3%CheY1 · 8,3%

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.

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
HisKa1 · 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.