Gene detail

FYJ31_RS07565

Histidine kinase, Classic

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

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength448 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_009696495#FYJ31_RS07565Stable P2CS identifier used across views.

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

Selected clusterHKOC_1991590Run 6 · 8 sequences · id 100% · cov 80% · representative

External referencesWP_038426924.1 · MIST4 FYJ31_RS07565RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKA_3HATPase_c

Protein length448 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage151 / 448 aa (33.7%)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 aa448 aa

Domain-by-domain annotation2 items

1 HisKA_3#1

228-292 aa · 65 aa · 14.5% of protein

Raw tokenHisKA_3:228:0.0000000000136:292:65:68

2 HATPase_c#2

358-443 aa · 86 aa · 19.2% of protein

Raw tokenHATPase_c:358:0.0000436:443:96:109

Raw architecture: HisKA_3:228:0.0000000000136:292:65:68#HATPase_c:358:0.0000436:443:96:109
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::G00018

Group size22 locus tags listed below.

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

Context span59311-61399Genomic interval covered by the local TCS group.

Identifiers

Old locus tagFYJ31_07700RefSeq proteinWP_038426924.1

Context group IDGCF_009696495::NZ_VULV01000009.1::G00018

Context members

FYJ31_RS07565FYJ31_RS07570

Partner locus tags

FYJ31_RS07565FYJ31_RS07570

Partner old locus tags

FYJ31_07700FYJ31_07705

Partner protein IDs

WP_038426924.1 WP_025263208.1

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_038426924.1.

Genomic coordinates

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

Current locus tagFYJ31_RS07565Primary locus identifier stored in the genes table.

Old locus tagFYJ31_07700Legacy locus tag recovered from the local context mapping.

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

Genomic interval59 311-60 657 nt1 347 nt · Forward (+)

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

Local TCS group span59 311-61 399 ntGCF_009696495::NZ_VULV01000009.1::G00018

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::G00018

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 span59 311-61 399 nt2 089 nt

Members21 current focus gene

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

59 311 nt61 399 nt

+-FYJ31_RS07565 FYJ31_RS07570

Neighborhood gene cards

2 genes in the current local neighborhood.

FYJ31_RS07565GCF_009696495#FYJ31_RS07565

HKClassicCurrent focus

59 311-60 657 nt · Forward (+)

Old locus FYJ31_07700RefSeq WP_038426924.1

Open current gene

FYJ31_RS07570GCF_009696495#FYJ31_RS07570

RRNarL

60 671-61 399 nt · Forward (+)

Old locus FYJ31_07705RefSeq WP_025263208.1

Open gene

Clusters

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

Available memberships1 cluster

HKOC_1991590HK

Run 68 sequencesid 100%cov 80%

PFAM HisKA_3

Current gene is the representative sequence.

Selected clusterHKOC_1991590Run 6 · HK · 8 sequences

Representative sequenceGCF_009696495#FYJ31_RS07565The 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_1991590

Simplified PFAM architecture for HKOC_1991590

PFAM domain coverage: 68 / 448 aa (15.2%)

1 aa448 aa

HisKA_3

Simplified architecture: HisKA_3
Raw architecture: HisKA_3[228-295]
Domain count: 1
Matched identifier: HKOC_1991590
Positioned domains: HisKA_3 228-295

Cluster members and taxonomy

Representative gene: GCF_009696495#FYJ31_RS07565

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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