Gene detail

PIG53_RS05395

Histidine kinase, Classic

Bifidobacterium pseudocatenulatum · GCF_029340035

ClassHKTypeClassicLength265 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_029340035#PIG53_RS05395Stable P2CS identifier used across views.

GenomeGCF_029340035Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

Selected clusterHKOC_2902396Run 6 · 31 sequences · id 100% · cov 80%

External referencesMIST4 PIG53_RS05395MIST4

Domain signature

Compact overview inferred from the domain field

HisKAHATPase_c

Protein length265 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage167 / 265 aa (63.0%)Merged over positioned domains only.

Domain description1 HisKA,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 aa265 aa

Domain-by-domain annotation2 items

1 HisKA#1

45-110 aa · 66 aa · 24.9% of protein

Raw tokenHisKA:45:0.00000023:110:66:64

2 HATPase_c#2

163-263 aa · 101 aa · 38.1% of protein

Raw tokenHATPase_c:163:4.09e-29:263:101:109

Raw architecture: HisKA:45:0.00000023:110:66:64#HATPase_c:163:4.09e-29:263:101:109
Domain description: 1 HisKA,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_029340035::NZ_JARJNE010000003.1::G00015

Group size22 locus tags listed below.

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

Context span387838-389513Genomic interval covered by the local TCS group.

Context group IDGCF_029340035::NZ_JARJNE010000003.1::G00015

Context members

PIG53_RS05395PIG53_RS05400

Partner locus tags

PIG53_RS05395PIG53_RS05400

Partner old locus tags

PIG53_05380

Partner protein IDs

WP_004219669.1

External references

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

No external UniProt / GO / PubMed mapping is available for this gene.

Genomic coordinates

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

Current locus tagPIG53_RS05395Primary locus identifier stored in the genes table.

Old locus tagUnavailableNo previous locus tag available for this gene.

Contig / repliconNZ_JARJNE010000003.1Sequence record reported by the local genomic context database.

Genomic interval387 838-388 869 nt1 032 nt · Reverse (-)

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

Local TCS group span387 838-389 513 ntGCF_029340035::NZ_JARJNE010000003.1::G00015

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_029340035::NZ_JARJNE010000003.1::G00015

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_JARJNE010000003.1All displayed genes belong to this local TCS context.

Neighborhood span387 838-389 513 nt1 676 nt

Members21 current focus gene

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

387 838 nt389 513 nt

+-PIG53_RS05395 PIG53_RS05400

Neighborhood gene cards

2 genes in the current local neighborhood.

PIG53_RS05395GCF_029340035#PIG53_RS05395

HKClassicCurrent focus

387 838-388 869 nt · Reverse (-)

Open current gene

PIG53_RS05400GCF_029340035#PIG53_RS05400

RROmpR

388 866-389 513 nt · Reverse (-)

Old locus PIG53_05380RefSeq WP_004219669.1

Open gene

Clusters

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

Available memberships1 cluster

HKOC_2902396HK

Run 631 sequencesid 100%cov 80%

PFAM HisKA + HATPase_c

Representative GCF_000741685#BPSE_RS00035

Selected clusterHKOC_2902396Run 6 · HK · 31 sequences

Representative sequenceGCF_000741685#BPSE_RS00035Use this link to inspect the representative gene detail.

PFAM architectureHisKA + HATPase_c2 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for HKOC_2902396

Simplified PFAM architecture for HKOC_2902396

PFAM domain coverage: 172 / 279 aa (61.6%)

1 aa279 aa

HisKAHATPase_c

Simplified architecture: HisKA + HATPase_c
Raw architecture: HisKA[60-123] | HATPase_c[171-278]
Domain count: 2
Matched identifier: HKOC_2902396
Positioned domains: HisKA 60-123 ; HATPase_c 171-278

Cluster members and taxonomy

Representative gene: GCF_000741685#BPSE_RS00035

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 28 026 · GCF_029340035

AssemblyRC1_18990_UC · Contighaploid

Genome composition2 289 430 bp · 56,5% GCBifidobacterium pseudocatenulatum

Signal transduction countsGenes 30 · HK 13 · RR 16CheA 0 · PP 1

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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Preview from the same derived genome key