Gene detail

D1N85_RS05460

Histidine kinase, Classic

Clostridioides difficile · GCF_007000615

Open genome Open selected cluster RefSeq

ClassHKTypeClassicLength271 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_007000615#D1N85_RS05460Stable P2CS identifier used across views.

GenomeGCF_007000615Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides

Selected clusterHKOC_0878348Run 6 · 1724 sequences · id 100% · cov 80%

External referencesWP_236875752.1 · MIST4 D1N85_RS05460RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HisKA_2HATPase_c

Protein length271 aaLength used to scale native and Biotite-like views.

Annotated domains22 with usable coordinates.

Domain coverage173 / 271 aa (63.8%)Merged over positioned domains only.

Domain description1 HisKA_2,1 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 aa271 aa

Domain-by-domain annotation2 items

1 HisKA_2#1

78-152 aa · 75 aa · 27.7% of protein

Raw tokenHisKA_2:78:3.02e-16:152:76:76

2 HATPase_c#2

172-269 aa · 98 aa · 36.2% of protein

Raw tokenHATPase_c:172:0.0000000941:269:114:109

Raw architecture: HisKA_2:78:3.02e-16:152:76:76#HATPase_c:172:0.0000000941:269:114:109
Domain description: 1 HisKA_2,1 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 labelorphanGCF_007000615::NZ_QWUB01000073.1::G00054

Group size11 locus tag listed below.

HK / RR1 / 0Counts resolved for the local TCS neighborhood.

Context span1-818Genomic interval covered by the local TCS group.

Identifiers

Old locus tagD1N85_05460RefSeq proteinWP_236875752.1

Context group IDGCF_007000615::NZ_QWUB01000073.1::G00054

Context members

D1N85_RS05460

Partner locus tags

D1N85_RS05460

Partner old locus tags

D1N85_05460

Partner protein IDs

WP_236875752.1

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_236875752.1.

Genomic coordinates

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

Current locus tagD1N85_RS05460Primary locus identifier stored in the genes table.

Old locus tagD1N85_05460Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_QWUB01000073.1Sequence record reported by the local genomic context database.

Genomic interval1-818 nt818 nt · Forward (+)

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

Local TCS group span1-818 ntGCF_007000615::NZ_QWUB01000073.1::G00054

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_007000615::NZ_QWUB01000073.1::G00054

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 labelorphanNeighborhood members are ordered by genomic coordinates.

Contig / repliconNZ_QWUB01000073.1All displayed genes belong to this local TCS context.

Neighborhood span1-818 nt818 nt

Members11 current focus gene

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

1 nt818 nt

+-D1N85_RS05460

Neighborhood gene cards

1 gene in the current local neighborhood.

D1N85_RS05460GCF_007000615#D1N85_RS05460

HKClassicCurrent focus

1-818 nt · Forward (+)

Old locus D1N85_05460RefSeq WP_236875752.1

Open current gene

Clusters

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

Available memberships1 cluster

HKOC_0878348HK

Run 61724 sequencesid 100%cov 80%

PFAM Response_reg + ANTAR + GAF_PdtaS + HisKA_2 + HATPase_c

Representative GCF_041537345#ACD536_RS00630

Selected clusterHKOC_0878348Run 6 · HK · 1724 sequences

Representative sequenceGCF_041537345#ACD536_RS00630Use this link to inspect the representative gene detail.

PFAM architectureResponse_reg + ANTAR + GAF_PdtaS + HisKA_2 + HATPase_c5 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for HKOC_0878348

Simplified PFAM architecture for HKOC_0878348

PFAM domain coverage: 466 / 658 aa (70.8%)

1 aa658 aa

Response_regANTARGAF_PdtaSHisKA_2HATPase_c

Simplified architecture: Response_reg + ANTAR + GAF_PdtaS + HisKA_2 + HATPase_c
Raw architecture: Response_reg[5-115] | ANTAR[134-186] | GAF_PdtaS[195-330] | HisKA_2[465-536] | HATPase_c[562-655]
Domain count: 5
Matched identifier: HKOC_0878348
Positioned domains: Response_reg 5-115 ; ANTAR 134-186 ; GAF_PdtaS 195-330 ; HisKA_2 465-536 ; HATPase_c 562-655

Cluster members and taxonomy

Representative gene: GCF_041537345#ACD536_RS00630

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 1 496 · GCF_007000615

AssemblyASM700061v1 · Contighaploid

Genome composition4 069 384 bp · 29,5% GCClostridioides difficile

Signal transduction countsGenes 101 · HK 45 · RR 52CheA 1 · PP 4

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides

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

Related genes

Preview from the same derived genome key