1 HAMP#1
263-331 aa · 69 aa · 10.6% of protein
Raw token
HAMP:263:0.00000000000000103:331:69:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
LIP40_RS07495
Histidine kinase, Classic
Bifidobacterium breve · GCF_020538545
ClassHKTypeClassicLength652 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_020538545#LIP40_RS07495Stable P2CS identifier used across views.
GenomeGCF_020538545Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length652 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage287 / 652 aa (44.0%)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 aa652 aa
Domain-by-domain annotation3 items
2 HisKA#2
343-412 aa · 70 aa · 10.7% of protein
Raw token
HisKA:343:6.06e-18:412:70:643 HATPase_c#3
476-623 aa · 148 aa · 22.7% of protein
Raw token
HATPase_c:476:4.26e-21:623:148:109- Raw architecture: HAMP:263:0.00000000000000103:331:69:69#HisKA:343:6.06e-18:412:70:64#HATPase_c:476:4.26e-21:623:148:109
- 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_020538545::NZ_JAJBOO010000017.1::G00003
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span42961-45694Genomic interval covered by the local TCS group.
Identifiers
Old locus tagLIP40_07485RefSeq proteinWP_371316409.1
Context group ID
GCF_020538545::NZ_JAJBOO010000017.1::G00003Context members
LIP40_RS07490LIP40_RS07495
Partner locus tags
LIP40_RS07490LIP40_RS07495
Partner old locus tags
LIP40_07480LIP40_07485
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_371316409.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagLIP40_RS07495Primary locus identifier stored in the genes table.
Old locus tagLIP40_07485Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAJBOO010000017.1Sequence record reported by the local genomic context database.
Genomic interval43 736-45 694 nt1 959 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span42 961-45 694 ntGCF_020538545::NZ_JAJBOO010000017.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_020538545::NZ_JAJBOO010000017.1::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_JAJBOO010000017.1All displayed genes belong to this local TCS context.
Neighborhood span42 961-45 694 nt2 734 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
42 961 nt45 694 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
LIP40_RS07490GCF_020538545#LIP40_RS07490
RROmpR
42 961-43 692 nt · Forward (+)
LIP40_RS07495GCF_020538545#LIP40_RS07495
HKClassicCurrent focus
43 736-45 694 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_020538545#LIP40_RS07495The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0893115
Simplified PFAM architecture for HKOC_0893115
PFAM domain coverage: 268 / 652 aa (41.1%)
1 aa652 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[280-331] | HisKA[344-412] | HATPase_c[476-622]
- Domain count: 3
- Matched identifier: HKOC_0893115
- Positioned domains: HAMP 280-331 ; HisKA 344-412 ; HATPase_c 476-622
Cluster members and taxonomy
Representative gene: GCF_020538545#LIP40_RS07495
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 685 · GCF_020538545
AssemblyASM2053854v1 · Contighaploid
Genome composition2 374 232 bp · 58,5% GCBifidobacterium breve
Signal transduction countsGenes 22 · HK 8 · RR 13CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key