1 HAMP#1
232-301 aa · 70 aa · 11.4% of protein
Raw token
HAMP:232:0.00000000000000239:301:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GBB04_RS09000
Histidine kinase, Classic
Bifidobacterium dentium · GCF_009160735
ClassHKTypeClassicLength615 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_009160735#GBB04_RS09000Stable P2CS identifier used across views.
GenomeGCF_009160735Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length615 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage288 / 615 aa (46.8%)Merged over positioned domains only.
Domain description1 HAMP,1 HisKA,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 aa615 aa
Domain-by-domain annotation3 items
2 HisKA#2
312-381 aa · 70 aa · 11.4% of protein
Raw token
HisKA:312:7.28e-17:381:70:643 HATPase_c#3
445-592 aa · 148 aa · 24.1% of protein
Raw token
HATPase_c:445:3.57e-21:592:148:109- Raw architecture: HAMP:232:0.00000000000000239:301:70:69#HisKA:312:7.28e-17:381:70:64#HATPase_c:445:3.57e-21:592:148:109
- Domain description: 1 HAMP,1 HisKA,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_009160735::NZ_WDPD01000010.1::G00004
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span136190-138782Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGBB04_09000RefSeq proteinWP_034519446.1
Context group ID
GCF_009160735::NZ_WDPD01000010.1::G00004Context members
GBB04_RS09000GBB04_RS09005
Partner locus tags
GBB04_RS09000GBB04_RS09005
Partner old locus tags
GBB04_09000GBB04_09005
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_034519446.1Primary protein accession used for annex mappings.
UniProt accessionA0A6N2RQZ2Primary UniProt accession resolved in the annex database.
UniProt IDA0A6N2RQZ2_9BIFIDisplay identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagGBB04_RS09000Primary locus identifier stored in the genes table.
Old locus tagGBB04_09000Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_WDPD01000010.1Sequence record reported by the local genomic context database.
Genomic interval136 190-138 037 nt1 848 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span136 190-138 782 ntGCF_009160735::NZ_WDPD01000010.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_009160735::NZ_WDPD01000010.1::G00004Graphic 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_WDPD01000010.1All displayed genes belong to this local TCS context.
Neighborhood span136 190-138 782 nt2 593 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
136 190 nt138 782 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GBB04_RS09000GCF_009160735#GBB04_RS09000
HKClassicCurrent focus
136 190-138 037 nt · Reverse (-)
GBB04_RS09005GCF_009160735#GBB04_RS09005
RROmpR
138 051-138 782 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000513015#HMPREF1494_RS03090Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0988884
Simplified PFAM architecture for HKOC_0988884
PFAM domain coverage: 268 / 615 aa (43.6%)
1 aa615 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[250-301] | HisKA[313-381] | HATPase_c[445-591]
- Domain count: 3
- Matched identifier: HKOC_0988884
- Positioned domains: HAMP 250-301 ; HisKA 313-381 ; HATPase_c 445-591
Cluster members and taxonomy
Representative gene: GCF_000513015#HMPREF1494_RS03090
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 689 · GCF_009160735
AssemblyASM916073v1 · Scaffoldhaploid
Genome composition2 868 671 bp · 58,0% GCBifidobacterium dentium
Signal transduction countsGenes 37 · HK 15 · RR 19CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key