Gene detail

SJY24_RS03175

Histidine kinase, Classic

Bacillus sp. R86525 · GCF_042466195

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength589 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_042466195#SJY24_RS03175Stable P2CS identifier used across views.

GenomeGCF_042466195Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus

Selected clusterHKOC_1119155Run 6 · 1 sequences · id 100% · cov 80% · representative

External referencesWP_377863718.1 · MIST4 SJY24_RS03175RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

GAFHis_kinaseHATPase_c

Protein length589 aaLength used to scale native and Biotite-like views.

Annotated domains33 with usable coordinates.

Domain coverage307 / 589 aa (52.1%)Merged over positioned domains only.

Domain description1 GAF,1 His_kinase,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 aa589 aa

Domain-by-domain annotation3 items

1 GAF#1

237-360 aa · 124 aa · 21.1% of protein

Raw tokenGAF:237:0.000000304:360:132:133

2 His_kinase#2

375-453 aa · 79 aa · 13.4% of protein

Raw tokenHis_kinase:375:9e-30:453:80:80

3 HATPase_c#3

473-576 aa · 104 aa · 17.7% of protein

Raw tokenHATPase_c:473:0.00000000000118:576:108:109

Raw architecture: GAF:237:0.000000304:360:132:133#His_kinase:375:9e-30:453:80:80#HATPase_c:473:0.00000000000118:576:108:109
Domain description: 1 GAF,1 His_kinase,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_042466195::NZ_JAXHPX010000007.1::G00003

Group size22 locus tags listed below.

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

Context span148540-151027Genomic interval covered by the local TCS group.

Identifiers

RefSeq proteinWP_377863718.1

Context group IDGCF_042466195::NZ_JAXHPX010000007.1::G00003

Context members

SJY24_RS03175SJY24_RS03180

Partner locus tags

SJY24_RS03175SJY24_RS03180

Partner protein IDs

WP_377863718.1 WP_377863719.1

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_377863718.1.

Genomic coordinates

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

Current locus tagSJY24_RS03175Primary locus identifier stored in the genes table.

Old locus tagUnavailableNo previous locus tag available for this gene.

Contig / repliconNZ_JAXHPX010000007.1Sequence record reported by the local genomic context database.

Genomic interval148 540-150 309 nt1 770 nt · Forward (+)

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

Local TCS group span148 540-151 027 ntGCF_042466195::NZ_JAXHPX010000007.1::G00003

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_042466195::NZ_JAXHPX010000007.1::G00003

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_JAXHPX010000007.1All displayed genes belong to this local TCS context.

Neighborhood span148 540-151 027 nt2 488 nt

Members21 current focus gene

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

148 540 nt151 027 nt

+-SJY24_RS03175 SJY24_RS03180

Neighborhood gene cards

2 genes in the current local neighborhood.

SJY24_RS03175GCF_042466195#SJY24_RS03175

HKClassicCurrent focus

148 540-150 309 nt · Forward (+)

RefSeq WP_377863718.1

Open current gene

SJY24_RS03180GCF_042466195#SJY24_RS03180

RRLytTR

150 287-151 027 nt · Forward (+)

RefSeq WP_377863719.1

Open gene

Clusters

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

Available memberships1 cluster

HKOC_1119155HK

Run 61 sequencesid 100%cov 80%

PFAM 5TM-5TMR_LYT + GAF + His_kinase + HATPase_c

Current gene is the representative sequence.

Selected clusterHKOC_1119155Run 6 · HK · 1 sequences

Representative sequenceGCF_042466195#SJY24_RS03175The current gene is the representative for this cluster.

PFAM architecture5TM-5TMR_LYT + GAF + His_kinase + HATPase_c4 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for HKOC_1119155

Simplified PFAM architecture for HKOC_1119155

PFAM domain coverage: 484 / 589 aa (82.2%)

1 aa589 aa

5TM-5TMR_LYTGAFHis_kinaseHATPase_c

Simplified architecture: 5TM-5TMR_LYT + GAF + His_kinase + HATPase_c
Raw architecture: 5TM-5TMR_LYT[26-204] | GAF[237-359] | His_kinase[375-453] | HATPase_c[473-575]
Domain count: 4
Matched identifier: HKOC_1119155
Positioned domains: 5TM-5TMR_LYT 26-204 ; GAF 237-359 ; His_kinase 375-453 ; HATPase_c 473-575

Cluster members and taxonomy

Representative gene: GCF_042466195#SJY24_RS03175

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 3 101 709 · GCF_042466195

AssemblyASM4246619v1 · Contighaploid

Genome composition6 240 339 bp · 35,5% GCBacillus sp. R86525

Signal transduction countsGenes 132 · HK 71 · RR 61CheA 1 · PP 0

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassBacilliOrderBacillalesFamilyBacillaceaeGenusBacillus

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Bacilli5Bacillales6Bacillaceae7Bacillus

Open genome Search genes in genome Search HK genes NCBI assembly files

Related genes

Preview from the same derived genome key