1 KdpD#1
23-232 aa · 210 aa · 23.4% of protein
Raw token
KdpD:23:6.66e-135:232:210:210P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
PGP58_RS08435
Histidine kinase, Classic
Thomasclavelia ramosa · GCF_027661245
ClassHKTypeClassicLength896 aaTM0ValidatedNoCompleteYesContexttetrad
Gene IDGCF_027661245#PGP58_RS08435Stable P2CS identifier used across views.
GenomeGCF_027661245Bacteria; Bacillati; Bacillota; Erysipelotrichia; Erysipelotrichales; Coprobacillaceae; Thomasclavelia
Domain signature
Compact overview inferred from the domain field
KdpDHisKAHATPase_c
Protein length896 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage390 / 896 aa (43.5%)Merged over positioned domains only.
Domain description1 KdpD,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 aa896 aa
Domain-by-domain annotation3 items
2 HisKA#2
668-735 aa · 68 aa · 7.6% of protein
Raw token
HisKA:668:0.0000000000024:735:68:643 HATPase_c#3
780-891 aa · 112 aa · 12.5% of protein
Raw token
HATPase_c:780:4.76e-29:891:112:109- Raw architecture: KdpD:23:6.66e-135:232:210:210#HisKA:668:0.0000000000024:735:68:64#HATPase_c:780:4.76e-29:891:112:109
- Domain description: 1 KdpD,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 labeltetradGCF_027661245::NZ_JAQDLY010000011.1::G00003
Group size44 locus tags listed below.
HK / RR2 / 2Counts resolved for the local TCS neighborhood.
Context span77561-83135Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_027661245::NZ_JAQDLY010000011.1::G00003Context members
PGP58_RS08420PGP58_RS08425PGP58_RS08430PGP58_RS08435
Partner locus tags
PGP58_RS08420PGP58_RS08425PGP58_RS08430PGP58_RS08435
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_270372401.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagPGP58_RS08435Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_JAQDLY010000011.1Sequence record reported by the local genomic context database.
Genomic interval80 445-83 135 nt2 691 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span77 561-83 135 ntGCF_027661245::NZ_JAQDLY010000011.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_027661245::NZ_JAQDLY010000011.1::G00003Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labeltetradNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JAQDLY010000011.1All displayed genes belong to this local TCS context.
Neighborhood span77 561-83 135 nt5 575 nt
Members41 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
77 561 nt83 135 nt
Neighborhood gene cards
4 genes in the current local neighborhood.
PGP58_RS08420GCF_027661245#PGP58_RS08420
RROmpR
77 561-78 244 nt · Reverse (-)
PGP58_RS08425GCF_027661245#PGP58_RS08425
HKClassic
78 237-79 697 nt · Reverse (-)
PGP58_RS08430GCF_027661245#PGP58_RS08430
RROmpR
79 742-80 452 nt · Reverse (-)
PGP58_RS08435GCF_027661245#PGP58_RS08435
HKClassicCurrent focus
80 445-83 135 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_027661245#PGP58_RS08435The current gene is the representative for this cluster.
PFAM architectureKdpD + DUF4118 + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0414880
Simplified PFAM architecture for HKOC_0414880
PFAM domain coverage: 495 / 896 aa (55.2%)
1 aa896 aa
KdpDDUF4118HisKAHATPase_c
- Simplified architecture: KdpD + DUF4118 + HisKA + HATPase_c
- Raw architecture: KdpD[23-232] | DUF4118[399-504] | HisKA[668-735] | HATPase_c[780-890]
- Domain count: 4
- Matched identifier: HKOC_0414880
- Positioned domains: KdpD 23-232 ; DUF4118 399-504 ; HisKA 668-735 ; HATPase_c 780-890
Cluster members and taxonomy
Representative gene: GCF_027661245#PGP58_RS08435
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 547 · GCF_027661245
AssemblyASM2766124v1 · Scaffoldhaploid
Genome composition3 761 272 bp · 31,5% GCThomasclavelia ramosa
Signal transduction countsGenes 52 · HK 24 · RR 28CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassErysipelotrichiaOrderErysipelotrichalesFamilyCoprobacillaceaeGenusThomasclavelia
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Erysipelotrichia5Erysipelotrichales6Coprobacillaceae7Thomasclavelia
Related genes
Preview from the same derived genome key