1 KdpD#1
22-230 aa · 209 aa · 23.2% of protein
Raw token
KdpD:22:1.62e-133:230:209:210P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
C4E42_RS09835
Histidine kinase, Classic
Clostridioides difficile · GCF_002946535
ClassHKTypeClassicLength900 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002946535#C4E42_RS09835Stable P2CS identifier used across views.
GenomeGCF_002946535Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
KdpDGAF_3HisKAHATPase_c
Protein length900 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage514 / 900 aa (57.1%)Merged over positioned domains only.
Domain description1 KdpD,1 GAF_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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa900 aa
Domain-by-domain annotation4 items
2 GAF_3#2
533-656 aa · 124 aa · 13.8% of protein
Raw token
GAF_3:533:0.000000213:656:129:1293 HisKA#3
676-743 aa · 68 aa · 7.6% of protein
Raw token
HisKA:676:0.0000000000054:743:68:644 HATPase_c#4
787-899 aa · 113 aa · 12.6% of protein
Raw token
HATPase_c:787:2.18e-30:899:113:109- Raw architecture: KdpD:22:1.62e-133:230:209:210#GAF_3:533:0.000000213:656:129:129#HisKA:676:0.0000000000054:743:68:64#HATPase_c:787:2.18e-30:899:113:109
- Domain description: 1 KdpD,1 GAF_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_002946535::NZ_CP026615.2::G00028
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2159768-2163202Genomic interval covered by the local TCS group.
Identifiers
Old locus tagC4E42_03805RefSeq proteinWP_003423900.1
Context group ID
GCF_002946535::NZ_CP026615.2::G00028Context members
C4E42_RS09830C4E42_RS09835
Partner locus tags
C4E42_RS09830C4E42_RS09835
Partner old locus tags
C4E42_03800C4E42_03805
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003423900.1Primary protein accession used for annex mappings.
UniProt accessionD5Q4N8Primary UniProt accession resolved in the annex database.
UniProt IDD5Q4N8_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 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 tagC4E42_RS09835Primary locus identifier stored in the genes table.
Old locus tagC4E42_03805Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP026615.2Sequence record reported by the local genomic context database.
Genomic interval2 160 500-2 163 202 nt2 703 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 159 768-2 163 202 ntGCF_002946535::NZ_CP026615.2::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002946535::NZ_CP026615.2::G00028Graphic 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_CP026615.2All displayed genes belong to this local TCS context.
Neighborhood span2 159 768-2 163 202 nt3 435 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 159 768 nt2 163 202 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
C4E42_RS09830GCF_002946535#C4E42_RS09830
RROmpR
2 159 768-2 160 466 nt · Reverse (-)
C4E42_RS09835GCF_002946535#C4E42_RS09835
HKClassicCurrent focus
2 160 500-2 163 202 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0209080Use this link to inspect the representative gene detail.
PFAM architectureKdpD + DUF4118 + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0405642
Simplified PFAM architecture for HKOC_0405642
PFAM domain coverage: 494 / 900 aa (54.9%)
1 aa900 aa
KdpDDUF4118HisKAHATPase_c
- Simplified architecture: KdpD + DUF4118 + HisKA + HATPase_c
- Raw architecture: KdpD[22-230] | DUF4118[409-514] | HisKA[676-743] | HATPase_c[788-898]
- Domain count: 4
- Matched identifier: HKOC_0405642
- Positioned domains: KdpD 22-230 ; DUF4118 409-514 ; HisKA 676-743 ; HATPase_c 788-898
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0209080
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_002946535
AssemblyASM294653v2 · Complete Genomehaploid
Genome composition4 093 147 bp · 29,0% GCClostridioides difficile
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