1 dCache_1#1
39-260 aa · 222 aa · 38.7% of protein
Raw token
dCache_1:39:0.000000000000208:260:232:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SUBVAR_RS06155
Histidine kinase, Classic
Subdoligranulum variabile DSM 15176 · GCF_000157955
ClassHKTypeClassicLength574 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000157955#SUBVAR_RS06155Stable P2CS identifier used across views.
GenomeGCF_000157955Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Oscillospiraceae; Subdoligranulum
Domain signature
Compact overview inferred from the domain field
dCache_1HAMPHis_kinaseHATPase_c
Protein length574 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage476 / 574 aa (82.9%)Merged over positioned domains only.
Domain description1 dCache_1,1 HAMP,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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa574 aa
Domain-by-domain annotation4 items
2 HAMP#2
279-348 aa · 70 aa · 12.2% of protein
Raw token
HAMP:279:0.0000000000219:348:71:693 His_kinase#3
363-442 aa · 80 aa · 13.9% of protein
Raw token
His_kinase:363:2.83e-38:442:80:804 HATPase_c#4
460-563 aa · 104 aa · 18.1% of protein
Raw token
HATPase_c:460:0.0000000000000539:563:110:109- Raw architecture: dCache_1:39:0.000000000000208:260:232:195#HAMP:279:0.0000000000219:348:71:69#His_kinase:363:2.83e-38:442:80:80#HATPase_c:460:0.0000000000000539:563:110:109
- Domain description: 1 dCache_1,1 HAMP,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_000157955::NZ_GG704769.1::G00025
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1326651-1329637Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSUBVAR_05350RefSeq proteinWP_007046743.1
Context group ID
GCF_000157955::NZ_GG704769.1::G00025Context members
SUBVAR_RS06155SUBVAR_RS06160
Partner locus tags
SUBVAR_RS06155SUBVAR_RS06160
Partner old locus tags
SUBVAR_05350SUBVAR_05351
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007046743.1Primary protein accession used for annex mappings.
UniProt accessionD1PLY3Primary UniProt accession resolved in the annex database.
UniProt IDD1PLY3_9FIRMDisplay identifier provided by UniProt.
GO / PubMed2 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSUBVAR_RS06155Primary locus identifier stored in the genes table.
Old locus tagSUBVAR_05350Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG704769.1Sequence record reported by the local genomic context database.
Genomic interval1 326 651-1 328 375 nt1 725 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 326 651-1 329 637 ntGCF_000157955::NZ_GG704769.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000157955::NZ_GG704769.1::G00025Graphic view
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_GG704769.1All displayed genes belong to this local TCS context.
Neighborhood span1 326 651-1 329 637 nt2 987 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 326 651 nt1 329 637 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SUBVAR_RS06155GCF_000157955#SUBVAR_RS06155
HKClassicCurrent focus
1 326 651-1 328 375 nt · Reverse (-)
SUBVAR_RS06160GCF_000157955#SUBVAR_RS06160
RRunclassified
1 328 372-1 329 637 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000157955#SUBVAR_RS06155The current gene is the representative for this cluster.
PFAM architecturedCache_1 + His_kinase + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1192849
Simplified PFAM architecture for HKOC_1192849
PFAM domain coverage: 401 / 574 aa (69.9%)
1 aa574 aa
dCache_1His_kinaseHATPase_c
- Simplified architecture: dCache_1 + His_kinase + HATPase_c
- Raw architecture: dCache_1[41-259] | His_kinase[363-442] | HATPase_c[460-561]
- Domain count: 3
- Matched identifier: HKOC_1192849
- Positioned domains: dCache_1 41-259 ; His_kinase 363-442 ; HATPase_c 460-561
Cluster members and taxonomy
Representative gene: GCF_000157955#SUBVAR_RS06155
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 411 471 · GCF_000157955
AssemblyASM15795v1 · Scaffoldhaploid
Genome composition3 245 471 bp · 58,0% GCSubdoligranulum variabile DSM 15176
Signal transduction countsGenes 59 · HK 27 · RR 32CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyOscillospiraceaeGenusSubdoligranulum
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Oscillospiraceae7Subdoligranulum
Related genes
Preview from the same derived genome key