1 SBP_bac_3#1
58-278 aa · 221 aa · 33.3% of protein
Raw token
SBP_bac_3:58:5.96e-41:278:230:224P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
cdgr_RS13730
Histidine kinase, Classic
Clostridioides difficile · GCF_001678145
ClassHKTypeClassicLength664 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001678145#cdgr_RS13730Stable P2CS identifier used across views.
GenomeGCF_001678145Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
SBP_bac_3HisKAHATPase_c
Protein length664 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage386 / 664 aa (58.1%)Merged over positioned domains only.
Domain description1 SBP_bac_3,1 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
446-508 aa · 63 aa · 9.5% of protein
Raw token
HisKA:446:0.0000000000000426:508:63:643 HATPase_c#3
557-658 aa · 102 aa · 15.4% of protein
Raw token
HATPase_c:557:1.82e-23:658:103:109- Raw architecture: SBP_bac_3:58:5.96e-41:278:230:224#HisKA:446:0.0000000000000426:508:63:64#HATPase_c:557:1.82e-23:658:103:109
- Domain description: 1 SBP_bac_3,1 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_001678145::NZ_LYDP01000032.1::G00041
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span18418-21734Genomic interval covered by the local TCS group.
Identifiers
Old locus tagcdgr_07770RefSeq proteinWP_011861320.1
Context group ID
GCF_001678145::NZ_LYDP01000032.1::G00041Context members
cdgr_RS13730cdgr_RS13735
Partner locus tags
cdgr_RS13730cdgr_RS13735
Partner old locus tags
cdgr_07770cdgr_07775
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_011861320.1Primary protein accession used for annex mappings.
UniProt accessionQ186U6Primary UniProt accession resolved in the annex database.
UniProt IDQ186U6_CLOD6Display identifier provided by UniProt.
GO / PubMed2 / 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 tagcdgr_RS13730Primary locus identifier stored in the genes table.
Old locus tagcdgr_07770Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_LYDP01000032.1Sequence record reported by the local genomic context database.
Genomic interval18 418-20 412 nt1 995 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span18 418-21 734 ntGCF_001678145::NZ_LYDP01000032.1::G00041
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001678145::NZ_LYDP01000032.1::G00041Graphic 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_LYDP01000032.1All displayed genes belong to this local TCS context.
Neighborhood span18 418-21 734 nt3 317 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
18 418 nt21 734 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
cdgr_RS13730GCF_001678145#cdgr_RS13730
HKClassicCurrent focus
18 418-20 412 nt · Forward (+)
cdgr_RS13735GCF_001678145#cdgr_RS13735
RRNtrC
20 412-21 734 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS09465Use this link to inspect the representative gene detail.
PFAM architectureSBP_bac_3 + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0860210
Simplified PFAM architecture for HKOC_0860210
PFAM domain coverage: 385 / 664 aa (58.0%)
1 aa664 aa
SBP_bac_3HisKAHATPase_c
- Simplified architecture: SBP_bac_3 + HisKA + HATPase_c
- Raw architecture: SBP_bac_3[60-277] | HisKA[448-509] | HATPase_c[555-659]
- Domain count: 3
- Matched identifier: HKOC_0860210
- Positioned domains: SBP_bac_3 60-277 ; HisKA 448-509 ; HATPase_c 555-659
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS09465
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001678145
AssemblyASM167814v1 · Contighaploid
Genome composition4 249 791 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 107 · HK 51 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key