1 KdpD#1
2-180 aa · 179 aa · 21.1% of protein
Raw token
KdpD:2:2.06e-111:180:179:210P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
E1153_RS06405
Histidine kinase, Classic
Clostridioides difficile · GCF_900688555
ClassHKTypeClassicLength850 aaTM0ValidatedNoCompleteYesContexthexad
Gene IDGCF_900688555#E1153_RS06405Stable P2CS identifier used across views.
GenomeGCF_900688555Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
KdpDGAF_3HisKAHATPase_c
Protein length850 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage484 / 850 aa (56.9%)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 aa850 aa
Domain-by-domain annotation4 items
2 GAF_3#2
483-606 aa · 124 aa · 14.6% of protein
Raw token
GAF_3:483:0.0000057:606:129:1293 HisKA#3
626-693 aa · 68 aa · 8.0% of protein
Raw token
HisKA:626:0.00000000000661:693:68:644 HATPase_c#4
737-849 aa · 113 aa · 13.3% of protein
Raw token
HATPase_c:737:2.75e-30:849:113:109- Raw architecture: KdpD:2:2.06e-111:180:179:210#GAF_3:483:0.0000057:606:129:129#HisKA:626:0.00000000000661:693:68:64#HATPase_c:737:2.75e-30:849:113:109
- 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 labelhexadGCF_900688555::NZ_CAADAX010000003.1::G00017
Group size66 locus tags listed below.
HK / RR3 / 3Counts resolved for the local TCS neighborhood.
Context span123966-130815Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSAMEA1402364_01287RefSeq proteinWP_235666859.1
Context group ID
GCF_900688555::NZ_CAADAX010000003.1::G00017Context members
E1153_RS06405E1153_RS06410E1153_RS06415E1153_RS06420E1153_RS06425E1153_RS06430
Partner locus tags
E1153_RS06405E1153_RS06410E1153_RS06415E1153_RS06420E1153_RS06425E1153_RS06430
Partner old locus tags
SAMEA1402364_01287SAMEA1402364_01288SAMEA1402364_01289SAMEA1402364_01290SAMEA1402364_01291SAMEA1402364_01292
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_235666859.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagE1153_RS06405Primary locus identifier stored in the genes table.
Old locus tagSAMEA1402364_01287Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CAADAX010000003.1Sequence record reported by the local genomic context database.
Genomic interval123 966-126 518 nt2 553 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span123 966-130 815 ntGCF_900688555::NZ_CAADAX010000003.1::G00017
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_900688555::NZ_CAADAX010000003.1::G00017Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelhexadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_CAADAX010000003.1All displayed genes belong to this local TCS context.
Neighborhood span123 966-130 815 nt6 850 nt
Members61 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
123 966 nt130 815 nt
Neighborhood gene cards
6 genes in the current local neighborhood.
E1153_RS06405GCF_900688555#E1153_RS06405
HKClassicCurrent focus
123 966-126 518 nt · Forward (+)
E1153_RS06410GCF_900688555#E1153_RS06410
RROmpR
126 552-127 250 nt · Forward (+)
E1153_RS06415GCF_900688555#E1153_RS06415
HKClassic
127 359-128 207 nt · Forward (+)
E1153_RS06420GCF_900688555#E1153_RS06420
RROmpR
128 241-128 939 nt · Forward (+)
E1153_RS06425GCF_900688555#E1153_RS06425
HKClassic
129 118-130 083 nt · Forward (+)
E1153_RS06430GCF_900688555#E1153_RS06430
RROmpR
130 117-130 815 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_900688555#E1153_RS06405The current gene is the representative for this cluster.
PFAM architectureKdpD + DUF4118 + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0490346
Simplified PFAM architecture for HKOC_0490346
PFAM domain coverage: 464 / 850 aa (54.6%)
1 aa850 aa
KdpDDUF4118HisKAHATPase_c
- Simplified architecture: KdpD + DUF4118 + HisKA + HATPase_c
- Raw architecture: KdpD[2-180] | DUF4118[359-464] | HisKA[626-693] | HATPase_c[738-848]
- Domain count: 4
- Matched identifier: HKOC_0490346
- Positioned domains: KdpD 2-180 ; DUF4118 359-464 ; HisKA 626-693 ; HATPase_c 738-848
Cluster members and taxonomy
Representative gene: GCF_900688555#E1153_RS06405
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_900688555
Assembly7614_7#46 · Scaffoldhaploid
Genome composition4 416 792 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 113 · HK 52 · RR 60CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key