1 HAMP#1
190-259 aa · 70 aa · 11.9% of protein
Raw token
HAMP:190:8.01e-16:259:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CPZ58_RS00670
Histidine kinase, Classic
Bifidobacterium bifidum · GCF_004799295
ClassHKTypeClassicLength587 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004799295#CPZ58_RS00670Stable P2CS identifier used across views.
GenomeGCF_004799295Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length587 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage288 / 587 aa (49.1%)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 aa587 aa
Domain-by-domain annotation3 items
2 HisKA#2
270-339 aa · 70 aa · 11.9% of protein
Raw token
HisKA:270:6.72e-16:339:70:643 HATPase_c#3
402-549 aa · 148 aa · 25.2% of protein
Raw token
HATPase_c:402:3.75e-20:549:148:109- Raw architecture: HAMP:190:8.01e-16:259:70:69#HisKA:270:6.72e-16:339:70:64#HATPase_c:402:3.75e-20:549:148:109
- 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_004799295::NZ_SSMS01000001.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span160297-162994Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCPZ58_00670RefSeq proteinWP_226800878.1
Context group ID
GCF_004799295::NZ_SSMS01000001.1::G00006Context members
CPZ58_RS00670CPZ58_RS00675
Partner locus tags
CPZ58_RS00670CPZ58_RS00675
Partner old locus tags
CPZ58_00670CPZ58_00675
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_226800878.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCPZ58_RS00670Primary locus identifier stored in the genes table.
Old locus tagCPZ58_00670Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SSMS01000001.1Sequence record reported by the local genomic context database.
Genomic interval160 297-162 060 nt1 764 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span160 297-162 994 ntGCF_004799295::NZ_SSMS01000001.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004799295::NZ_SSMS01000001.1::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_SSMS01000001.1All displayed genes belong to this local TCS context.
Neighborhood span160 297-162 994 nt2 698 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
160 297 nt162 994 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CPZ58_RS00670GCF_004799295#CPZ58_RS00670
HKClassicCurrent focus
160 297-162 060 nt · Reverse (-)
CPZ58_RS00675GCF_004799295#CPZ58_RS00675
RROmpR
162 257-162 994 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001595435#APS66_RS02215Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1126404
Simplified PFAM architecture for HKOC_1126404
PFAM domain coverage: 270 / 587 aa (46.0%)
1 aa587 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[206-259] | HisKA[271-339] | HATPase_c[402-548]
- Domain count: 3
- Matched identifier: HKOC_1126404
- Positioned domains: HAMP 206-259 ; HisKA 271-339 ; HATPase_c 402-548
Cluster members and taxonomy
Representative gene: GCF_001595435#APS66_RS02215
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 681 · GCF_004799295
AssemblyASM479929v1 · Contighaploid
Genome composition2 265 060 bp · 62,5% GCBifidobacterium bifidum
Signal transduction countsGenes 30 · HK 13 · RR 16CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key