1 HAMP#1
209-278 aa · 70 aa · 12.4% of protein
Raw token
HAMP:209:1.54e-16:278:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DNR84_RS03040
Histidine kinase, Classic
Bifidobacterium longum subsp. longum · GCF_004324325
ClassHKTypeClassicLength565 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004324325#DNR84_RS03040Stable P2CS identifier used across views.
GenomeGCF_004324325Bacteria; 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:290:0.0000000000000587:356:67:643 HATPase_c#3
403-513 aa · 111 aa · 19.6% of protein
Raw token
HATPase_c:403:7.84e-30:513:111:109- Raw architecture: HAMP:209:1.54e-16:278:70:69#HisKA:290:0.0000000000000587:356:67:64#HATPase_c:403:7.84e-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_004324325::NZ_QKOJ01000003.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span138144-140560Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDNR84_03040RefSeq proteinWP_131187256.1
Context group ID
GCF_004324325::NZ_QKOJ01000003.1::G00006Context members
DNR84_RS03040DNR84_RS03045
Partner locus tags
DNR84_RS03040DNR84_RS03045
Partner old locus tags
DNR84_03040DNR84_03045
Partner protein IDs
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_131187256.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagDNR84_RS03040Primary locus identifier stored in the genes table.
Old locus tagDNR84_03040Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_QKOJ01000003.1Sequence record reported by the local genomic context database.
Genomic interval138 144-139 841 nt1 698 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span138 144-140 560 ntGCF_004324325::NZ_QKOJ01000003.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004324325::NZ_QKOJ01000003.1::G00006Graphic 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_QKOJ01000003.1All displayed genes belong to this local TCS context.
Neighborhood span138 144-140 560 nt2 417 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
138 144 nt140 560 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
DNR84_RS03040GCF_004324325#DNR84_RS03040
HKClassicCurrent focus
138 144-139 841 nt · Reverse (-)
DNR84_RS03045GCF_004324325#DNR84_RS03045
RROmpR
139 838-140 560 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_004324325#DNR84_RS03040The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1235805
Simplified PFAM architecture for HKOC_1235805
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_1235805
- Positioned domains: HAMP 226-278 ; HisKA 290-356 ; HATPase_c 403-512
Cluster members and taxonomy
Representative gene: GCF_004324325#DNR84_RS03040
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 679 · GCF_004324325
AssemblyASM432432v1 · Contighaploid
Genome composition2 493 030 bp · 60,0% GCBifidobacterium longum subsp. longum
Signal transduction countsGenes 24 · HK 10 · RR 12CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key