1 HAMP#1
171-241 aa · 71 aa · 13.4% of protein
Raw token
HAMP:171:0.0000000158:241:71:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
JS536_RS03010
Histidine kinase, Classic
Bifidobacterium sp. SO4 · GCF_018555355
ClassHKTypeClassicLength528 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_018555355#JS536_RS03010Stable P2CS identifier used across views.
GenomeGCF_018555355Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length528 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage272 / 528 aa (51.5%)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
245-311 aa · 67 aa · 12.7% of protein
Raw token
HisKA:245:0.000000000035:311:67:643 HATPase_c#3
393-526 aa · 134 aa · 25.4% of protein
Raw token
HATPase_c:393:0.00000000142:526:134:109- Raw architecture: HAMP:171:0.0000000158:241:71:69#HisKA:245:0.000000000035:311:67:64#HATPase_c:393:0.00000000142:526:134:109
- 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_018555355::NZ_JAFEJP010000003.1::G00016
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span13680-15934Genomic interval covered by the local TCS group.
Identifiers
Old locus tagJS536_03005RefSeq proteinWP_214355722.1
Context group ID
GCF_018555355::NZ_JAFEJP010000003.1::G00016Context members
JS536_RS03010JS536_RS03015
Partner locus tags
JS536_RS03010JS536_RS03015
Partner old locus tags
JS536_03005JS536_03010
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_214355722.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagJS536_RS03010Primary locus identifier stored in the genes table.
Old locus tagJS536_03005Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAFEJP010000003.1Sequence record reported by the local genomic context database.
Genomic interval13 680-15 266 nt1 587 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span13 680-15 934 ntGCF_018555355::NZ_JAFEJP010000003.1::G00016
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_018555355::NZ_JAFEJP010000003.1::G00016Graphic 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_JAFEJP010000003.1All displayed genes belong to this local TCS context.
Neighborhood span13 680-15 934 nt2 255 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
13 680 nt15 934 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
JS536_RS03010GCF_018555355#JS536_RS03010
HKClassicCurrent focus
13 680-15 266 nt · Reverse (-)
JS536_RS03015GCF_018555355#JS536_RS03015
RROmpR
15 263-15 934 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_018555355#JS536_RS03010The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1364807
Simplified PFAM architecture for HKOC_1364807
PFAM domain coverage: 242 / 528 aa (45.8%)
1 aa528 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[192-240] | HisKA[246-311] | HATPase_c[394-520]
- Domain count: 3
- Matched identifier: HKOC_1364807
- Positioned domains: HAMP 192-240 ; HisKA 246-311 ; HATPase_c 394-520
Cluster members and taxonomy
Representative gene: GCF_018555355#JS536_RS03010
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 2 809 030 · GCF_018555355
AssemblyASM1855535v1 · Contighaploid
Genome composition2 912 164 bp · 63,0% GCBifidobacterium sp. SO4
Signal transduction countsGenes 42 · HK 15 · RR 25CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key