1 KdpD#1
22-230 aa · 209 aa · 23.2% of protein
Raw token
KdpD:22:1.07e-133:230:209:210P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDR20291_RS09400
Histidine kinase, Classic
Clostridioides difficile R20291 · GCF_000027105
ClassHKTypeClassicLength900 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000027105#CDR20291_RS09400Stable P2CS identifier used across views.
GenomeGCF_000027105Bacteria; 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_3:533:0.00000535:656:129:1293 HisKA#3
676-743 aa · 68 aa · 7.6% of protein
Raw token
HisKA:676:0.00000000000584:743:68:644 HATPase_c#4
787-899 aa · 113 aa · 12.6% of protein
Raw token
HATPase_c:787:1.97e-30:899:113:109- Raw architecture: KdpD:22:1.07e-133:230:209:210#GAF_3:533:0.00000535:656:129:129#HisKA:676:0.00000000000584:743:68:64#HATPase_c:787:1.97e-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_000027105::NC_013316.1::G00031
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2019004-2022438Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDR20291_1723RefSeq proteinWP_009893308.1
Context group ID
GCF_000027105::NC_013316.1::G00031Context members
CDR20291_RS09400CDR20291_RS09405
Partner locus tags
CDR20291_RS09400CDR20291_RS09405
Partner old locus tags
CDR20291_1723CDR20291_1724
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009893308.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N3P1Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N3P1_CLODCDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCDR20291_RS09400Primary locus identifier stored in the genes table.
Old locus tagCDR20291_1723Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013316.1Sequence record reported by the local genomic context database.
Genomic interval2 019 004-2 021 706 nt2 703 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 019 004-2 022 438 ntGCF_000027105::NC_013316.1::G00031
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000027105::NC_013316.1::G00031Graphic 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 / repliconNC_013316.1All displayed genes belong to this local TCS context.
Neighborhood span2 019 004-2 022 438 nt3 435 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 019 004 nt2 022 438 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDR20291_RS09400GCF_000027105#CDR20291_RS09400
HKClassicCurrent focus
2 019 004-2 021 706 nt · Forward (+)
CDR20291_RS09405GCF_000027105#CDR20291_RS09405
RROmpR
2 021 740-2 022 438 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0209445Use this link to inspect the representative gene detail.
PFAM architectureKdpD + DUF4118 + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0405625
Simplified PFAM architecture for HKOC_0405625
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_0405625
- Positioned domains: KdpD 22-230 ; DUF4118 409-514 ; HisKA 676-743 ; HATPase_c 788-898
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0209445
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 645 463 · GCF_000027105
AssemblyASM2710v1 · Chromosomehaploid
Genome composition4 191 339 bp · 29,0% GCClostridioides difficile R20291
Signal transduction countsGenes 108 · HK 51 · RR 57CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key