Gene detail

O4C36_RS00880

Histidine kinase, Classic

Bifidobacterium breve · GCF_027212815

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength429 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_027212815#O4C36_RS00880Stable P2CS identifier used across views.

GenomeGCF_027212815Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

Selected clusterHKOC_2183406Run 6 · 3 sequences · id 100% · cov 80%

External referencesWP_195214934.1 · MIST4 O4C36_RS00880RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKA_3HATPase_c

Protein length429 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage147 / 429 aa (34.3%)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 aa429 aa

Domain-by-domain annotation2 items

1 HisKA_3#1

210-271 aa · 62 aa · 14.5% of protein

Raw tokenHisKA_3:210:0.00000000000114:271:65:68

2 HATPase_c#2

330-414 aa · 85 aa · 19.8% of protein

Raw tokenHATPase_c:330:0.000000000355:414:98:109

Raw architecture: HisKA_3:210:0.00000000000114:271:65:68#HATPase_c:330:0.000000000355:414:98:109
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_027212815::NZ_JAPWFB010000001.1::G00002

Group size22 locus tags listed below.

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

Context span218180-220145Genomic interval covered by the local TCS group.

Identifiers

Old locus tagO4C36_00880RefSeq proteinWP_195214934.1

Context group IDGCF_027212815::NZ_JAPWFB010000001.1::G00002

Context members

O4C36_RS00875O4C36_RS00880

Partner locus tags

O4C36_RS00875O4C36_RS00880

Partner old locus tags

O4C36_00875O4C36_00880

Partner protein IDs

WP_003829522.1 WP_195214934.1

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_195214934.1.

Genomic coordinates

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

Current locus tagO4C36_RS00880Primary locus identifier stored in the genes table.

Old locus tagO4C36_00880Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JAPWFB010000001.1Sequence record reported by the local genomic context database.

Genomic interval218 856-220 145 nt1 290 nt · Reverse (-)

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

Local TCS group span218 180-220 145 ntGCF_027212815::NZ_JAPWFB010000001.1::G00002

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_027212815::NZ_JAPWFB010000001.1::G00002

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_JAPWFB010000001.1All displayed genes belong to this local TCS context.

Neighborhood span218 180-220 145 nt1 966 nt

Members21 current focus gene

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

218 180 nt220 145 nt

+-O4C36_RS00875 O4C36_RS00880

Neighborhood gene cards

2 genes in the current local neighborhood.

O4C36_RS00875GCF_027212815#O4C36_RS00875

RRNarL

218 180-218 863 nt · Reverse (-)

Old locus O4C36_00875RefSeq WP_003829522.1

Open gene

O4C36_RS00880GCF_027212815#O4C36_RS00880

HKClassicCurrent focus

218 856-220 145 nt · Reverse (-)

Old locus O4C36_00880RefSeq WP_195214934.1

Open current gene

Clusters

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

Available memberships1 cluster

HKOC_2183406HK

Run 63 sequencesid 100%cov 80%

PFAM HisKA_3 + HATPase_c

Representative GCF_015547895#I1924_RS00925

Selected clusterHKOC_2183406Run 6 · HK · 3 sequences

Representative sequenceGCF_015547895#I1924_RS00925Use this link to inspect the representative gene detail.

PFAM architectureHisKA_3 + HATPase_c2 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for HKOC_2183406

Simplified PFAM architecture for HKOC_2183406

PFAM domain coverage: 155 / 429 aa (36.1%)

1 aa429 aa

HisKA_3HATPase_c

Simplified architecture: HisKA_3 + HATPase_c
Raw architecture: HisKA_3[213-274] | HATPase_c[324-416]
Domain count: 2
Matched identifier: HKOC_2183406
Positioned domains: HisKA_3 213-274 ; HATPase_c 324-416

Cluster members and taxonomy

Representative gene: GCF_015547895#I1924_RS00925

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 1 685 · GCF_027212815

AssemblyASM2721281v1 · Contighaploid

Genome composition2 354 696 bp · 58,5% GCBifidobacterium breve

Signal transduction countsGenes 22 · HK 9 · RR 12CheA 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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