1 HAMP#1
224-293 aa · 70 aa · 11.5% of protein
Raw token
HAMP:224:0.00000000000000196:293:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
PGV18_RS01880
Histidine kinase, Classic
Bifidobacterium pseudocatenulatum · GCF_027675485
ClassHKTypeClassicLength609 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_027675485#PGV18_RS01880Stable P2CS identifier used across views.
GenomeGCF_027675485Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length609 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage288 / 609 aa (47.3%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa609 aa
Domain-by-domain annotation3 items
2 HisKA#2
304-373 aa · 70 aa · 11.5% of protein
Raw token
HisKA:304:1.42e-16:373:70:643 HATPase_c#3
437-584 aa · 148 aa · 24.3% of protein
Raw token
HATPase_c:437:9.72e-20:584:148:109- Raw architecture: HAMP:224:0.00000000000000196:293:70:69#HisKA:304:1.42e-16:373:70:64#HATPase_c:437:9.72e-20:584:148:109
- 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_027675485::NZ_JAQEPY010000001.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span429919-432491Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_027675485::NZ_JAQEPY010000001.1::G00005Context members
PGV18_RS01880PGV18_RS01885
Partner locus tags
PGV18_RS01880PGV18_RS01885
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_270199818.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagPGV18_RS01880Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_JAQEPY010000001.1Sequence record reported by the local genomic context database.
Genomic interval429 919-431 748 nt1 830 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span429 919-432 491 ntGCF_027675485::NZ_JAQEPY010000001.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_027675485::NZ_JAQEPY010000001.1::G00005Graphic 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_JAQEPY010000001.1All displayed genes belong to this local TCS context.
Neighborhood span429 919-432 491 nt2 573 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
429 919 nt432 491 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
PGV18_RS01880GCF_027675485#PGV18_RS01880
HKClassicCurrent focus
429 919-431 748 nt · Reverse (-)
PGV18_RS01885GCF_027675485#PGV18_RS01885
RROmpR
431 760-432 491 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_027675485#PGV18_RS01880The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1011278
Simplified PFAM architecture for HKOC_1011278
PFAM domain coverage: 268 / 609 aa (44.0%)
1 aa609 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[242-293] | HisKA[305-373] | HATPase_c[437-583]
- Domain count: 3
- Matched identifier: HKOC_1011278
- Positioned domains: HAMP 242-293 ; HisKA 305-373 ; HATPase_c 437-583
Cluster members and taxonomy
Representative gene: GCF_027675485#PGV18_RS01880
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 28 026 · GCF_027675485
AssemblyASM2767548v1 · Scaffoldhaploid
Genome composition2 226 474 bp · 56,5% GCBifidobacterium pseudocatenulatum
Signal transduction countsGenes 27 · HK 11 · RR 14CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key