1 dCache_1#1
101-288 aa · 188 aa · 30.8% of protein
Raw token
dCache_1:101:0.00000523:288:196:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0373_RS08920
Histidine kinase, Classic
Eubacterium ramulus ATCC 29099 · GCF_000469345
ClassHKTypeClassicLength610 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000469345#HMPREF0373_RS08920Stable P2CS identifier used across views.
GenomeGCF_000469345Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Eubacteriaceae; Eubacterium
Domain signature
Compact overview inferred from the domain field
dCache_1HAMPHis_kinaseHATPase_c
Protein length610 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage449 / 610 aa (73.6%)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 aa610 aa
Domain-by-domain annotation4 items
2 HAMP#2
306-375 aa · 70 aa · 11.5% of protein
Raw token
HAMP:306:0.00000000000138:375:70:693 His_kinase#3
390-469 aa · 80 aa · 13.1% of protein
Raw token
His_kinase:390:1.17e-27:469:80:804 HATPase_c#4
486-596 aa · 111 aa · 18.2% of protein
Raw token
HATPase_c:486:0.00000000000791:596:111:109- Raw architecture: dCache_1:101:0.00000523:288:196:195#HAMP:306:0.00000000000138:375:70:69#His_kinase:390:1.17e-27:469:80:80#HATPase_c:486:0.00000000000791:596:111:109
- 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_000469345::NZ_KI271133.1::G00032
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span59546-62927Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0373_01080RefSeq proteinWP_021739366.1
Context group ID
GCF_000469345::NZ_KI271133.1::G00032Context members
HMPREF0373_RS08915HMPREF0373_RS08920
Partner locus tags
HMPREF0373_RS08915HMPREF0373_RS08920
Partner old locus tags
HMPREF0373_01079HMPREF0373_01080
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_021739366.1Primary protein accession used for annex mappings.
UniProt accessionU2Q0T3Primary UniProt accession resolved in the annex database.
UniProt IDU2Q0T3_EUBRADisplay identifier provided by UniProt.
GO / PubMed3 / 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 tagHMPREF0373_RS08920Primary locus identifier stored in the genes table.
Old locus tagHMPREF0373_01080Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KI271133.1Sequence record reported by the local genomic context database.
Genomic interval61 095-62 927 nt1 833 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span59 546-62 927 ntGCF_000469345::NZ_KI271133.1::G00032
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000469345::NZ_KI271133.1::G00032Graphic 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_KI271133.1All displayed genes belong to this local TCS context.
Neighborhood span59 546-62 927 nt3 382 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
59 546 nt62 927 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0373_RS08915GCF_000469345#HMPREF0373_RS08915
RRunclassified
59 546-61 120 nt · Reverse (-)
HMPREF0373_RS08920GCF_000469345#HMPREF0373_RS08920
HKClassicCurrent focus
61 095-62 927 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000469345#HMPREF0373_RS08920The current gene is the representative for this cluster.
PFAM architectureHAMP + His_kinase + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1004696
Simplified PFAM architecture for HKOC_1004696
PFAM domain coverage: 241 / 610 aa (39.5%)
1 aa610 aa
HAMPHis_kinaseHATPase_c
- Simplified architecture: HAMP + His_kinase + HATPase_c
- Raw architecture: HAMP[324-375] | His_kinase[390-468] | HATPase_c[488-597]
- Domain count: 3
- Matched identifier: HKOC_1004696
- Positioned domains: HAMP 324-375 ; His_kinase 390-468 ; HATPase_c 488-597
Cluster members and taxonomy
Representative gene: GCF_000469345#HMPREF0373_RS08920
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 256 908 · GCF_000469345
AssemblyASM46934v1 · Scaffoldhaploid
Genome composition3 447 136 bp · 42,5% GCEubacterium ramulus ATCC 29099
Signal transduction countsGenes 84 · HK 41 · RR 42CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyEubacteriaceaeGenusEubacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Eubacteriaceae7Eubacterium
Related genes
Preview from the same derived genome key