1 HAMP#1
267-335 aa · 69 aa · 10.4% of protein
Raw token
HAMP:267:0.00000000000000107:335:69:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0175_RS05560
Histidine kinase, Classic
Bifidobacterium longum subsp. longum ATCC 55813 · GCF_000003135
ClassHKTypeClassicLength663 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000003135#HMPREF0175_RS05560Stable P2CS identifier used across views.
GenomeGCF_000003135Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length663 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage287 / 663 aa (43.3%)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
347-416 aa · 70 aa · 10.6% of protein
Raw token
HisKA:347:2.64e-17:416:70:643 HATPase_c#3
480-627 aa · 148 aa · 22.3% of protein
Raw token
HATPase_c:480:3.62e-21:627:148:109- Raw architecture: HAMP:267:0.00000000000000107:335:69:69#HisKA:347:2.64e-17:416:70:64#HATPase_c:480:3.62e-21:627:148:109
- 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_000003135::NZ_GG666850.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span365325-368078Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0175_1156RefSeq proteinWP_032746891.1
Context group ID
GCF_000003135::NZ_GG666850.1::G00007Context members
HMPREF0175_RS05565HMPREF0175_RS05560
Partner locus tags
HMPREF0175_RS05565HMPREF0175_RS05560
Partner old locus tags
HMPREF0175_1155HMPREF0175_1156
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_032746891.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF0175_RS05560Primary locus identifier stored in the genes table.
Old locus tagHMPREF0175_1156Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG666850.1Sequence record reported by the local genomic context database.
Genomic interval366 087-368 078 nt1 992 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span365 325-368 078 ntGCF_000003135::NZ_GG666850.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000003135::NZ_GG666850.1::G00007Graphic 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_GG666850.1All displayed genes belong to this local TCS context.
Neighborhood span365 325-368 078 nt2 754 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
365 325 nt368 078 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0175_RS05565GCF_000003135#HMPREF0175_RS05565
RROmpR
365 325-366 056 nt · Forward (+)
HMPREF0175_RS05560GCF_000003135#HMPREF0175_RS05560
HKClassicCurrent focus
366 087-368 078 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS05560The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0864147
Simplified PFAM architecture for HKOC_0864147
PFAM domain coverage: 268 / 663 aa (40.4%)
1 aa663 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[284-335] | HisKA[348-416] | HATPase_c[480-626]
- Domain count: 3
- Matched identifier: HKOC_0864147
- Positioned domains: HAMP 284-335 ; HisKA 348-416 ; HATPase_c 480-626
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS05560
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 1 over 1 total members. Page 1 / 1.
GCF_000003135#HMPREF0175_RS05560 (representative) |
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 548 480 · GCF_000003135
AssemblyASM313v1 · Scaffoldhaploid
Genome composition2 396 359 bp · 60,5% GCBifidobacterium longum subsp. longum ATCC 55813
Signal transduction countsGenes 20 · HK 10 · RR 10CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key