P2CS-Web

Two-component systems, rebuilt for exploration

Archangium violaceum

Bacteria · Myxococcota · Myxococcia · Myxococcales · Archangiaceae · Archangium

TCS census

Genome-level counts from the current P2CS annotation tables

All genes438Total predicted proteins linked to this genome record.
HK270Histidine kinase predictions in the genes table.
RR161Response regulator predictions in the genes table.
CheA11CheA-like kinase predictions in the genes table.
PP7Phosphatase predictions in the genes table.

Genome overview

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

Genome IDGCF_016859125Stable genome identifier used across P2CS views.
Taxon ID83451NCBI taxonomic identifier linked to the imported genome catalog.
AssemblyASM1685912v1 · Complete GenomeNo RefSeq category available for this record.
Composition12,68 Mb · 68,5% GCGenome size and GC content when available in the catalog.
External recordsPRJNA224116 · SAMN17765430Archangium violaceum
Taxonomy snapshotBacteria · Myxococcota · Myxococcia · Myxococcales · Archangiaceae · ArchangiumBacteria; Pseudomonadati; Myxococcota; Myxococcia; Myxococcales; Archangiaceae; Archangium

genome_ANI

ANI and taxonomy consistency checks

Taxonomy checkInconclusive
Best-match statusbelow-threshold-mismatch
Best speciesArchangium lipolyticum
Best type assemblyGCA_024623785.1
Best type categorytype
Best ANI87.37%
Best qcov53,0%
Best scov53,3%
Declared assemblyGCA_000733295.1
Declared organismArchangium violaceum Cb vi76
Declared categorysuspected-type
Declared ANI87.09%

genome_checkM

Completeness and contamination estimates

Completeness98,8%
Contamination4,3%
Marker setMyxococcales

genome_genbank

Assembly and annotation metadata

Organism nameArchangium violaceum
Infraspecificstrain=SDU34
Version statuslatest
Release typeMajor
Genome representationFull
Sequence release2021-02-10
SubmitterShandong University
Groupbacteria
Ungapped size12 677 854
Replicons1
Scaffolds1
Contigs1
Annotation providerNCBI
Annotation nameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation date2021-02-03
Total genes10714
Protein-coding10308
Non-coding100

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
225 (225 genes)55 (110 genes)11 (33 genes)3 (12 genes)0 (0 gene)0 (0 gene)58 (58 genes)

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

Gene distribution

Total proteins: 438

Distribution chart type
HK270proteins in this genome

P2CS Predicted Histidine Kinases

P2CS Predicted Histidine Kinases (270 proteins across 3 families) · Phylogenetic Tree · Data Heatmap

Genome total 270Database 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 Kinases270

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

HK families3 entries
Classic199 · 73,7%Hybrid60 · 22,2%CheA11 · 4,1%

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.

RR161proteins in this genome

P2CS Predicted Response Regulators

P2CS Predicted Response Regulators (161 proteins across 14 families) · Phylogenetic Tree · Data Heatmap

Genome total 161Database 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 Regulators161

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

RR families14 entries
CheY63 · 39,1%unclassified27 · 16,8%NtrC19 · 11,8%OmpR11 · 6,8%CheB8 · 5,0%PleD8 · 5,0%PrrA7 · 4,3%NarL6 · 3,7%LytTR4 · 2,5%CyC-C2 · 1,2%FrzZ2 · 1,2%RpfG2 · 1,2%CheV1 · 0,6%VieB1 · 0,6%

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.

PP7proteins in this genome

P2CS Predicted PP / Hpt Proteins

P2CS Predicted PP / Hpt Proteins (7 proteins across 2 families) · Phylogenetic Tree · Data Heatmap

Genome total 7Database 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 Proteins7

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

PP families2 entries
HisKa6 · 85,7%HPt1 · 14,3%

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.

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.