Gene detail

PIG53_RS02120

Histidine kinase, Classic

Bifidobacterium pseudocatenulatum · GCF_029340035

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength461 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_029340035#PIG53_RS02120Stable P2CS identifier used across views.

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

Selected clusterHKOC_1821357Run 6 · 26 sequences · id 100% · cov 80%

External referencesWP_022245292.1 · MIST4 PIG53_RS02120RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKAHATPase_c

Protein length461 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage179 / 461 aa (38.8%)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 aa461 aa

Domain-by-domain annotation2 items

1 HisKA#1

184-249 aa · 66 aa · 14.3% of protein

Raw tokenHisKA:184:0.00000000000313:249:66:64

2 HATPase_c#2

312-424 aa · 113 aa · 24.5% of protein

Raw tokenHATPase_c:312:4.87e-29:424:113:109

Raw architecture: HisKA:184:0.00000000000313:249:66:64#HATPase_c:312:4.87e-29:424:113:109
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_JARJNE010000002.1::G00005

Group size22 locus tags listed below.

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

Context span4447-6617Genomic interval covered by the local TCS group.

Identifiers

Old locus tagPIG53_02120RefSeq proteinWP_022245292.1

Context group IDGCF_029340035::NZ_JARJNE010000002.1::G00005

Context members

PIG53_RS02115PIG53_RS02120

Partner locus tags

PIG53_RS02115PIG53_RS02120

Partner old locus tags

PIG53_02115PIG53_02120

Partner protein IDs

WP_004220077.1 WP_022245292.1

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_022245292.1.

Genomic coordinates

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

Current locus tagPIG53_RS02120Primary locus identifier stored in the genes table.

Old locus tagPIG53_02120Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JARJNE010000002.1Sequence record reported by the local genomic context database.

Genomic interval5 232-6 617 nt1 386 nt · Reverse (-)

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

Local TCS group span4 447-6 617 ntGCF_029340035::NZ_JARJNE010000002.1::G00005

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_JARJNE010000002.1::G00005

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_JARJNE010000002.1All displayed genes belong to this local TCS context.

Neighborhood span4 447-6 617 nt2 171 nt

Members21 current focus gene

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

4 447 nt6 617 nt

+-PIG53_RS02115 PIG53_RS02120

Neighborhood gene cards

2 genes in the current local neighborhood.

PIG53_RS02115GCF_029340035#PIG53_RS02115

RROmpR

4 447-5 151 nt · Reverse (-)

Old locus PIG53_02115RefSeq WP_004220077.1

Open gene

PIG53_RS02120GCF_029340035#PIG53_RS02120

HKClassicCurrent focus

5 232-6 617 nt · Reverse (-)

Old locus PIG53_02120RefSeq WP_022245292.1

Open current gene

Clusters

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

Available memberships1 cluster

HKOC_1821357HK

Run 626 sequencesid 100%cov 80%

PFAM HisKA + HATPase_c

Representative GCF_000940535#BPSEU7765_RS01590

Selected clusterHKOC_1821357Run 6 · HK · 26 sequences

Representative sequenceGCF_000940535#BPSEU7765_RS01590Use 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_1821357

Simplified PFAM architecture for HKOC_1821357

PFAM domain coverage: 177 / 461 aa (38.4%)

1 aa461 aa

HisKAHATPase_c

Simplified architecture: HisKA + HATPase_c
Raw architecture: HisKA[184-249] | HATPase_c[313-423]
Domain count: 2
Matched identifier: HKOC_1821357
Positioned domains: HisKA 184-249 ; HATPase_c 313-423

Cluster members and taxonomy

Representative gene: GCF_000940535#BPSEU7765_RS01590

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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