Gene detail

BG22_RS00535

Histidine kinase, Classic

Bifidobacterium sp. UTBIF-78 · GCF_006408945

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength500 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_006408945#BG22_RS00535Stable P2CS identifier used across views.

GenomeGCF_006408945Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

Selected clusterHKOC_1476825Run 6 · 1 sequences · id 100% · cov 80% · representative

External referencesWP_181163315.1 · MIST4 BG22_RS00535RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKA_3HATPase_c

Protein length500 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage181 / 500 aa (36.2%)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 aa500 aa

Domain-by-domain annotation2 items

1 HisKA_3#1

247-310 aa · 64 aa · 12.8% of protein

Raw tokenHisKA_3:247:7.08e-16:310:64:68

2 HATPase_c#2

357-473 aa · 117 aa · 23.4% of protein

Raw tokenHATPase_c:357:0.00000000401:473:121:109

Raw architecture: HisKA_3:247:7.08e-16:310:64:68#HATPase_c:357:0.00000000401:473:121:109
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_006408945::NZ_JFAO01000002.1::G00004

Group size22 locus tags listed below.

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

Context span133511-135789Genomic interval covered by the local TCS group.

Identifiers

Old locus tagBG22_00530RefSeq proteinWP_181163315.1

Context group IDGCF_006408945::NZ_JFAO01000002.1::G00004

Context members

BG22_RS00530BG22_RS00535

Partner locus tags

BG22_RS00530BG22_RS00535

Partner old locus tags

BG22_00525BG22_00530

Partner protein IDs

WP_140492092.1 WP_181163315.1

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_181163315.1.

Genomic coordinates

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

Current locus tagBG22_RS00535Primary locus identifier stored in the genes table.

Old locus tagBG22_00530Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JFAO01000002.1Sequence record reported by the local genomic context database.

Genomic interval134 287-135 789 nt1 503 nt · Reverse (-)

StrandReverse (-)Strand sign follows the local context database convention.

Local TCS group span133 511-135 789 ntGCF_006408945::NZ_JFAO01000002.1::G00004

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_006408945::NZ_JFAO01000002.1::G00004

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_JFAO01000002.1All displayed genes belong to this local TCS context.

Neighborhood span133 511-135 789 nt2 279 nt

Members21 current focus gene

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

133 511 nt135 789 nt

+-BG22_RS00530 BG22_RS00535

Neighborhood gene cards

2 genes in the current local neighborhood.

BG22_RS00530GCF_006408945#BG22_RS00530

RRNarL

133 511-134 290 nt · Reverse (-)

Old locus BG22_00525RefSeq WP_140492092.1

Open gene

BG22_RS00535GCF_006408945#BG22_RS00535

HKClassicCurrent focus

134 287-135 789 nt · Reverse (-)

Old locus BG22_00530RefSeq WP_181163315.1

Open current gene

Clusters

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

Available memberships1 cluster

HKOC_1476825HK

Run 61 sequencesid 100%cov 80%

PFAM HisKA_3

Current gene is the representative sequence.

Selected clusterHKOC_1476825Run 6 · HK · 1 sequences

Representative sequenceGCF_006408945#BG22_RS00535The 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_1476825

Simplified PFAM architecture for HKOC_1476825

PFAM domain coverage: 66 / 500 aa (13.2%)

1 aa500 aa

HisKA_3

Simplified architecture: HisKA_3
Raw architecture: HisKA_3[247-312]
Domain count: 1
Matched identifier: HKOC_1476825
Positioned domains: HisKA_3 247-312

Cluster members and taxonomy

Representative gene: GCF_006408945#BG22_RS00535

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 1 465 263 · GCF_006408945

AssemblyASM640894v1 · Contighaploid

Genome composition2 807 412 bp · 62,5% GCBifidobacterium sp. UTBIF-78

Signal transduction countsGenes 40 · HK 14 · RR 23CheA 0 · PP 3

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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