1 HAMP#1
56-126 aa · 71 aa · 19.3% of protein
Raw token
HAMP:56:9.57e-18:126:71:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CPZ58_RS00265
Histidine kinase, Classic
Bifidobacterium bifidum · GCF_004799295
ClassHKTypeClassicLength368 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004799295#CPZ58_RS00265Stable 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 length368 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage247 / 368 aa (67.1%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation3 items
2 HisKA#2
130-194 aa · 65 aa · 17.7% of protein
Raw token
HisKA:130:0.000000000000076:194:65:643 HATPase_c#3
239-349 aa · 111 aa · 30.2% of protein
Raw token
HATPase_c:239:4.54e-23:349:112:109- Raw architecture: HAMP:56:9.57e-18:126:71:69#HisKA:130:0.000000000000076:194:65:64#HATPase_c:239:4.54e-23:349:112:109
- 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::G00003
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span58573-60398Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCPZ58_00265RefSeq proteinWP_041775364.1
Context group ID
GCF_004799295::NZ_SSMS01000001.1::G00003Context members
CPZ58_RS00260CPZ58_RS00265
Partner locus tags
CPZ58_RS00260CPZ58_RS00265
Partner old locus tags
CPZ58_00260CPZ58_00265
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_041775364.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCPZ58_RS00265Primary locus identifier stored in the genes table.
Old locus tagCPZ58_00265Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SSMS01000001.1Sequence record reported by the local genomic context database.
Genomic interval59 292-60 398 nt1 107 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span58 573-60 398 ntGCF_004799295::NZ_SSMS01000001.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004799295::NZ_SSMS01000001.1::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_SSMS01000001.1All displayed genes belong to this local TCS context.
Neighborhood span58 573-60 398 nt1 826 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
58 573 nt60 398 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CPZ58_RS00260GCF_004799295#CPZ58_RS00260
RROmpR
58 573-59 292 nt · Forward (+)
CPZ58_RS00265GCF_004799295#CPZ58_RS00265
HKClassicCurrent focus
59 292-60 398 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164965#BBIF_RS03820Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2698073
Simplified PFAM architecture for HKOC_2698073
PFAM domain coverage: 231 / 368 aa (62.8%)
1 aa368 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[72-125] | HisKA[130-194] | HATPase_c[239-350]
- Domain count: 3
- Matched identifier: HKOC_2698073
- Positioned domains: HAMP 72-125 ; HisKA 130-194 ; HATPase_c 239-350
Cluster members and taxonomy
Representative gene: GCF_000164965#BBIF_RS03820
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