1 HAMP#1
161-238 aa · 78 aa · 16.5% of protein
Raw token
HAMP:161:0.00000000721:238:78:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDIF102859_RS03300
Histidine kinase, Classic
Clostridioides difficile · GCF_003456975
ClassHKTypeClassicLength474 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_003456975#CDIF102859_RS03300Stable P2CS identifier used across views.
GenomeGCF_003456975Bacteria; 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 coverage248 / 474 aa (52.3%)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
253-315 aa · 63 aa · 13.3% of protein
Raw token
HisKA:253:0.0000000086:315:63:643 HATPase_c#3
365-471 aa · 107 aa · 22.6% of protein
Raw token
HATPase_c:365:5.92e-26:471:107:109- Raw architecture: HAMP:161:0.00000000721:238:78:69#HisKA:253:0.0000000086:315:63:64#HATPase_c:365:5.92e-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_003456975::NZ_CP020378.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span630683-632818Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDIF102859_00645RefSeq proteinWP_045146109.1
Context group ID
GCF_003456975::NZ_CP020378.1::G00005Context members
CDIF102859_RS03295CDIF102859_RS03300
Partner locus tags
CDIF102859_RS03295CDIF102859_RS03300
Partner old locus tags
CDIF102859_00644CDIF102859_00645
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_045146109.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCDIF102859_RS03300Primary locus identifier stored in the genes table.
Old locus tagCDIF102859_00645Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP020378.1Sequence record reported by the local genomic context database.
Genomic interval631 394-632 818 nt1 425 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span630 683-632 818 ntGCF_003456975::NZ_CP020378.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003456975::NZ_CP020378.1::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_CP020378.1All displayed genes belong to this local TCS context.
Neighborhood span630 683-632 818 nt2 136 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
630 683 nt632 818 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDIF102859_RS03295GCF_003456975#CDIF102859_RS03295
RROmpR
630 683-631 375 nt · Forward (+)
CDIF102859_RS03300GCF_003456975#CDIF102859_RS03300
HKClassicCurrent focus
631 394-632 818 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003456975#CDIF102859_RS03300The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1677510
Simplified PFAM architecture for HKOC_1677510
PFAM domain coverage: 221 / 474 aa (46.6%)
1 aa474 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[188-238] | HisKA[253-315] | HATPase_c[365-471]
- Domain count: 3
- Matched identifier: HKOC_1677510
- Positioned domains: HAMP 188-238 ; HisKA 253-315 ; HATPase_c 365-471
Cluster members and taxonomy
Representative gene: GCF_003456975#CDIF102859_RS03300
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_003456975
AssemblyASM345697v1 · Complete Genomehaploid
Genome composition4 247 015 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 96 · HK 43 · RR 51CheA 1 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key