Gene detail

Q3W90_RS01130

Histidine kinase, Classic

Bifidobacterium sp. · GCF_031295905

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength404 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_031295905#Q3W90_RS01130Stable P2CS identifier used across views.

GenomeGCF_031295905Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium

Selected clusterHKOC_2411056Run 6 · 3 sequences · id 100% · cov 80% · representative

External referencesWP_309465690.1 · MIST4 Q3W90_RS01130RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKA_3HATPase_c

Protein length404 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage159 / 404 aa (39.4%)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 aa404 aa

Domain-by-domain annotation2 items

1 HisKA_3#1

188-252 aa · 65 aa · 16.1% of protein

Raw tokenHisKA_3:188:0.00000000000000296:252:65:68

2 HATPase_c#2

297-390 aa · 94 aa · 23.3% of protein

Raw tokenHATPase_c:297:0.000000186:390:102:109

Raw architecture: HisKA_3:188:0.00000000000000296:252:65:68#HATPase_c:297:0.000000186:390:102:109
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_031295905::NZ_JAUMNL010000006.1::G00004

Group size22 locus tags listed below.

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

Context span181639-183557Genomic interval covered by the local TCS group.

Identifiers

Old locus tagQ3W90_01130RefSeq proteinWP_309465690.1

Context group IDGCF_031295905::NZ_JAUMNL010000006.1::G00004

Context members

Q3W90_RS01130Q3W90_RS01135

Partner locus tags

Q3W90_RS01130Q3W90_RS01135

Partner old locus tags

Q3W90_01130Q3W90_01135

Partner protein IDs

WP_309465690.1 WP_011743396.1

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_309465690.1.

Genomic coordinates

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

Current locus tagQ3W90_RS01130Primary locus identifier stored in the genes table.

Old locus tagQ3W90_01130Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JAUMNL010000006.1Sequence record reported by the local genomic context database.

Genomic interval181 639-182 853 nt1 215 nt · Forward (+)

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

Local TCS group span181 639-183 557 ntGCF_031295905::NZ_JAUMNL010000006.1::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_031295905::NZ_JAUMNL010000006.1::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_JAUMNL010000006.1All displayed genes belong to this local TCS context.

Neighborhood span181 639-183 557 nt1 919 nt

Members21 current focus gene

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

181 639 nt183 557 nt

+-Q3W90_RS01130 Q3W90_RS01135

Neighborhood gene cards

2 genes in the current local neighborhood.

Q3W90_RS01130GCF_031295905#Q3W90_RS01130

HKClassicCurrent focus

181 639-182 853 nt · Forward (+)

Old locus Q3W90_01130RefSeq WP_309465690.1

Open current gene

Q3W90_RS01135GCF_031295905#Q3W90_RS01135

RRNarL

182 853-183 557 nt · Forward (+)

Old locus Q3W90_01135RefSeq WP_011743396.1

Open gene

Clusters

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

Available memberships1 cluster

HKOC_2411056HK

Run 63 sequencesid 100%cov 80%

PFAM HisKA_3

Current gene is the representative sequence.

Selected clusterHKOC_2411056Run 6 · HK · 3 sequences

Representative sequenceGCF_031295905#Q3W90_RS01130The 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_2411056

Simplified PFAM architecture for HKOC_2411056

PFAM domain coverage: 66 / 404 aa (16.3%)

1 aa404 aa

HisKA_3

Simplified architecture: HisKA_3
Raw architecture: HisKA_3[188-253]
Domain count: 1
Matched identifier: HKOC_2411056
Positioned domains: HisKA_3 188-253

Cluster members and taxonomy

Representative gene: GCF_031295905#Q3W90_RS01130

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 41 200 · GCF_031295905

AssemblyASM3129590v1 · Contighaploid

Genome composition2 248 906 bp · 59,5% GCBifidobacterium sp.

Signal transduction countsGenes 28 · HK 12 · RR 15CheA 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

Related genes

Preview from the same derived genome key