Gene detail

FYJ31_RS07740

Histidine kinase, Classic

Bifidobacterium sp. WCA-178-WT-4B · GCF_009696495

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength392 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_009696495#FYJ31_RS07740Stable P2CS identifier used across views.

GenomeGCF_009696495Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

Selected clusterHKOC_2513405Run 6 · 1 sequences · id 100% · cov 80% · representative

External referencesWP_154536413.1 · MIST4 FYJ31_RS07740RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKA_3HATPase_c

Protein length392 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage144 / 392 aa (36.7%)Merged over positioned domains only.

Domain description1 HisKA_3,1 HATPase_cSummary string stored in the genes table.

Signal peptideUnavailableNo TMPRED prediction file matched this gene.

Transmembrane helicesUnavailableConfigure [protein_features] tmpred_root_dir to enable this annotation.

Complete domain annotations

Domain view

Native Biotite-like

Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.

1 aa392 aa

Domain-by-domain annotation2 items

1 HisKA_3#1

171-230 aa · 60 aa · 15.3% of protein

Raw tokenHisKA_3:171:0.00000000000645:230:62:68

2 HATPase_c#2

274-357 aa · 84 aa · 21.4% of protein

Raw tokenHATPase_c:274:0.000000469:357:99:109

Raw architecture: HisKA_3:171:0.00000000000645:230:62:68#HATPase_c:274:0.000000469:357:99:109
Domain description: 1 HisKA_3,1 HATPase_c
TM description: N/A
TMPRED source: No TMPRED file loaded
TMPRED segments: N/A
Complete: Yes

Context mapping

Resolved via p2cs_tcs_context.db when a locus tag match exists

Context labelpairedGCF_009696495::NZ_VULV01000009.1::G00020

Group size22 locus tags listed below.

HK / RR1 / 1Counts resolved for the local TCS neighborhood.

Context span99831-101698Genomic interval covered by the local TCS group.

Identifiers

Old locus tagFYJ31_07880RefSeq proteinWP_154536413.1

Context group IDGCF_009696495::NZ_VULV01000009.1::G00020

Context members

FYJ31_RS07740FYJ31_RS07745

Partner locus tags

FYJ31_RS07740FYJ31_RS07745

Partner old locus tags

FYJ31_07880FYJ31_07885

Partner protein IDs

WP_154536413.1 WP_154536414.1

External references

Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table

No UniProt / GO / PubMed mapping was found for WP_154536413.1.

Genomic coordinates

Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table

Current locus tagFYJ31_RS07740Primary locus identifier stored in the genes table.

Old locus tagFYJ31_07880Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_VULV01000009.1Sequence record reported by the local genomic context database.

Genomic interval99 831-101 009 nt1 179 nt · Forward (+)

StrandForward (+)Strand sign follows the local context database convention.

Local TCS group span99 831-101 698 ntGCF_009696495::NZ_VULV01000009.1::G00020

Quick actions

Open genome Search genes in genome

Local neighborhood

Graphical neighborhood resolved from the local TCS context group on the current contig

GCF_009696495::NZ_VULV01000009.1::G00020

Graphic view

Compact Biotite-like

Zoom

Full window Focus gene

Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.

Context labelpairedNeighborhood members are ordered by genomic coordinates.

Contig / repliconNZ_VULV01000009.1All displayed genes belong to this local TCS context.

Neighborhood span99 831-101 698 nt1 868 nt

Members21 current focus gene

Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.

99 831 nt101 698 nt

+-FYJ31_RS07740 FYJ31_RS07745

Neighborhood gene cards

2 genes in the current local neighborhood.

FYJ31_RS07740GCF_009696495#FYJ31_RS07740

HKClassicCurrent focus

99 831-101 009 nt · Forward (+)

Old locus FYJ31_07880RefSeq WP_154536413.1

Open current gene

FYJ31_RS07745GCF_009696495#FYJ31_RS07745

RRNarL

101 003-101 698 nt · Forward (+)

Old locus FYJ31_07885RefSeq WP_154536414.1

Open gene

Clusters

CD-HIT memberships and selected cluster details for the current gene class

Available memberships1 cluster

HKOC_2513405HK

Run 61 sequencesid 100%cov 80%

PFAM HisKA_3

Current gene is the representative sequence.

Selected clusterHKOC_2513405Run 6 · HK · 1 sequences

Representative sequenceGCF_009696495#FYJ31_RS07740The current gene is the representative for this cluster.

PFAM architectureHisKA_31 domain in the representative PFAM annotation.

Open in cluster search

PFAM architecture for HKOC_2513405

Simplified PFAM architecture for HKOC_2513405

PFAM domain coverage: 60 / 392 aa (15.3%)

1 aa392 aa

HisKA_3

Simplified architecture: HisKA_3
Raw architecture: HisKA_3[171-230]
Domain count: 1
Matched identifier: HKOC_2513405
Positioned domains: HisKA_3 171-230

Cluster members and taxonomy

Representative gene: GCF_009696495#FYJ31_RS07740

Sankey plot built from the taxonomy of all members in the selected cluster.

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 2 605 776 · GCF_009696495

AssemblyASM969649v1 · Contighaploid

Genome composition2 696 243 bp · 59,5% GCBifidobacterium sp. WCA-178-WT-4B

Signal transduction countsGenes 36 · HK 12 · RR 20CheA 0 · PP 4

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium

Lineage path7 lineage nodes

1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium

Open genome Search genes in genome Search HK genes NCBI assembly files

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