1 HAMP#1
161-238 aa · 78 aa · 16.5% of protein
Raw token
HAMP:161:0.0000000139:238:78:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDIF29637_RS02730
Histidine kinase, Classic
Clostridioides difficile · GCF_003482325
ClassHKTypeClassicLength474 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_003482325#CDIF29637_RS02730Stable P2CS identifier used across views.
GenomeGCF_003482325Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length474 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage251 / 474 aa (53.0%)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
250-315 aa · 66 aa · 13.9% of protein
Raw token
HisKA:250:0.00000000206:315:66:643 HATPase_c#3
365-471 aa · 107 aa · 22.6% of protein
Raw token
HATPase_c:365:2.74e-26:471:107:109- Raw architecture: HAMP:161:0.0000000139:238:78:69#HisKA:250:0.00000000206:315:66:64#HATPase_c:365:2.74e-26:471:107:109
- 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_003482325::NZ_CP016106.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span501184-503319Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDIF29637_00543RefSeq proteinWP_003434751.1
Context group ID
GCF_003482325::NZ_CP016106.1::G00005Context members
CDIF29637_RS02725CDIF29637_RS02730
Partner locus tags
CDIF29637_RS02725CDIF29637_RS02730
Partner old locus tags
CDIF29637_00542CDIF29637_00543
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003434751.1Primary protein accession used for annex mappings.
UniProt accessionQ188S3Primary UniProt accession resolved in the annex database.
UniProt IDQ188S3_CLOD6Display identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCDIF29637_RS02730Primary locus identifier stored in the genes table.
Old locus tagCDIF29637_00543Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP016106.1Sequence record reported by the local genomic context database.
Genomic interval501 895-503 319 nt1 425 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span501 184-503 319 ntGCF_003482325::NZ_CP016106.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003482325::NZ_CP016106.1::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_CP016106.1All displayed genes belong to this local TCS context.
Neighborhood span501 184-503 319 nt2 136 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
501 184 nt503 319 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDIF29637_RS02725GCF_003482325#CDIF29637_RS02725
RROmpR
501 184-501 876 nt · Forward (+)
CDIF29637_RS02730GCF_003482325#CDIF29637_RS02730
HKClassicCurrent focus
501 895-503 319 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS02960Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1674086
Simplified PFAM architecture for HKOC_1674086
PFAM domain coverage: 223 / 474 aa (47.0%)
1 aa474 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[188-238] | HisKA[251-315] | HATPase_c[365-471]
- Domain count: 3
- Matched identifier: HKOC_1674086
- Positioned domains: HAMP 188-238 ; HisKA 251-315 ; HATPase_c 365-471
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS02960
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_003482325
AssemblyASM348232v1 · Complete Genomehaploid
Genome composition4 114 585 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 96 · HK 46 · RR 50CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key