1 HAMP#1
209-278 aa · 70 aa · 12.4% of protein
Raw token
HAMP:209:1.56e-16:278:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF3231_RS01490
Histidine kinase, Classic
Bifidobacterium longum · GCF_001546275
ClassHKTypeClassicLength565 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001546275#HMPREF3231_RS01490Stable P2CS identifier used across views.
GenomeGCF_001546275Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length565 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage248 / 565 aa (43.9%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation3 items
2 HisKA#2
290-356 aa · 67 aa · 11.9% of protein
Raw token
HisKA:290:0.00000000000006:356:67:643 HATPase_c#3
403-513 aa · 111 aa · 19.6% of protein
Raw token
HATPase_c:403:4.27e-30:513:111:109- Raw architecture: HAMP:209:1.56e-16:278:70:69#HisKA:290:0.00000000000006:356:67:64#HATPase_c:403:4.27e-30:513:111:109
- 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_001546275::NZ_KQ955977.1::G00003
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span21347-23763Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF3231_00337RefSeq proteinWP_007053220.1
Context group ID
GCF_001546275::NZ_KQ955977.1::G00003Context members
HMPREF3231_RS01485HMPREF3231_RS01490
Partner locus tags
HMPREF3231_RS01485HMPREF3231_RS01490
Partner old locus tags
HMPREF3231_00336HMPREF3231_00337
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007053220.1Primary protein accession used for annex mappings.
UniProt accessionC5EDT5Primary UniProt accession resolved in the annex database.
UniProt IDC5EDT5_BIFLIDisplay 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 tagHMPREF3231_RS01490Primary locus identifier stored in the genes table.
Old locus tagHMPREF3231_00337Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KQ955977.1Sequence record reported by the local genomic context database.
Genomic interval22 066-23 763 nt1 698 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span21 347-23 763 ntGCF_001546275::NZ_KQ955977.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001546275::NZ_KQ955977.1::G00003Graphic 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_KQ955977.1All displayed genes belong to this local TCS context.
Neighborhood span21 347-23 763 nt2 417 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
21 347 nt23 763 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF3231_RS01485GCF_001546275#HMPREF3231_RS01485
RROmpR
21 347-22 069 nt · Forward (+)
HMPREF3231_RS01490GCF_001546275#HMPREF3231_RS01490
HKClassicCurrent focus
22 066-23 763 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS05435Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1233999
Simplified PFAM architecture for HKOC_1233999
PFAM domain coverage: 230 / 565 aa (40.7%)
1 aa565 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[226-278] | HisKA[290-356] | HATPase_c[403-512]
- Domain count: 3
- Matched identifier: HKOC_1233999
- Positioned domains: HAMP 226-278 ; HisKA 290-356 ; HATPase_c 403-512
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS05435
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_001546275
AssemblyASM154627v1 · Scaffoldhaploid
Genome composition2 372 082 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 19 · HK 10 · RR 9CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key