1 HAMP#1
6-74 aa · 69 aa · 15.6% of protein
Raw token
HAMP:6:0.00000048:74:69:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0220_RS17715
Histidine kinase, Classic
Clostridioides difficile NAP08 · GCF_000164175
ClassHKTypeClassicLength441 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000164175#HMPREF0220_RS17715Stable P2CS identifier used across views.
GenomeGCF_000164175Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
HAMPPAS_9HisKAHATPase_c
Protein length441 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage340 / 441 aa (77.1%)Merged over positioned domains only.
Domain description1 HAMP,1 PAS_9,1 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 aa441 aa
Domain-by-domain annotation4 items
2 PAS_9#2
96-195 aa · 100 aa · 22.7% of protein
Raw token
PAS_9:96:0.00000111:195:103:1023 HisKA#3
202-268 aa · 67 aa · 15.2% of protein
Raw token
HisKA:202:2.75e-18:268:67:644 HATPase_c#4
319-422 aa · 104 aa · 23.6% of protein
Raw token
HATPase_c:319:3.79e-30:422:104:109- Raw architecture: HAMP:6:0.00000048:74:69:69#PAS_9:96:0.00000111:195:103:102#HisKA:202:2.75e-18:268:67:64#HATPase_c:319:3.79e-30:422:104:109
- Domain description: 1 HAMP,1 PAS_9,1 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_000164175::NZ_GG770710.1::G00039
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span77472-79518Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0220_0939RefSeq proteinWP_003416114.1
Context group ID
GCF_000164175::NZ_GG770710.1::G00039Context members
HMPREF0220_RS17720HMPREF0220_RS17715
Partner locus tags
HMPREF0220_RS17720HMPREF0220_RS17715
Partner old locus tags
HMPREF0220_0938HMPREF0220_0939
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003416114.1Primary protein accession used for annex mappings.
UniProt accessionD5Q207Primary UniProt accession resolved in the annex database.
UniProt IDD5Q207_CLODIDisplay identifier provided by UniProt.
GO / PubMed6 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF0220_RS17715Primary locus identifier stored in the genes table.
Old locus tagHMPREF0220_0939Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770710.1Sequence record reported by the local genomic context database.
Genomic interval78 193-79 518 nt1 326 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span77 472-79 518 ntGCF_000164175::NZ_GG770710.1::G00039
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164175::NZ_GG770710.1::G00039Graphic 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_GG770710.1All displayed genes belong to this local TCS context.
Neighborhood span77 472-79 518 nt2 047 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
77 472 nt79 518 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0220_RS17720GCF_000164175#HMPREF0220_RS17720
RROmpR
77 472-78 164 nt · Forward (+)
HMPREF0220_RS17715GCF_000164175#HMPREF0220_RS17715
HKClassicCurrent focus
78 193-79 518 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164175#HMPREF0220_RS17715The current gene is the representative for this cluster.
PFAM architectureHAMP + PAS + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2061447
Simplified PFAM architecture for HKOC_2061447
PFAM domain coverage: 324 / 441 aa (73.5%)
1 aa441 aa
HAMPPASHisKAHATPase_c
- Simplified architecture: HAMP + PAS + HisKA + HATPase_c
- Raw architecture: HAMP[30-74] | PAS[87-193] | HisKA[202-267] | HATPase_c[317-422]
- Domain count: 4
- Matched identifier: HKOC_2061447
- Positioned domains: HAMP 30-74 ; PAS 87-193 ; HisKA 202-267 ; HATPase_c 317-422
Cluster members and taxonomy
Representative gene: GCF_000164175#HMPREF0220_RS17715
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 1 over 1 total members. Page 1 / 1.
GCF_000164175#HMPREF0220_RS17715 (representative) |
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 525 259 · GCF_000164175
AssemblyASM16417v1 · Scaffoldhaploid
Genome composition4 078 686 bp · 29,0% GCClostridioides difficile NAP08
Signal transduction countsGenes 97 · HK 48 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key