1 KdpD#1
23-231 aa · 209 aa · 23.0% of protein
Raw token
KdpD:23:7.9e-144:231:209:210P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Y_RS06650
Histidine kinase, Classic
Yersinia pestis KIM10+ · GCF_000006645
ClassHKTypeClassicLength908 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006645#Y_RS06650Stable P2CS identifier used across views.
GenomeGCF_000006645Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Yersinia
Domain signature
Compact overview inferred from the domain field
KdpDGAF_3HisKAHATPase_c
Protein length908 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage505 / 908 aa (55.6%)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 aa908 aa
Domain-by-domain annotation4 items
2 GAF_3#2
528-646 aa · 119 aa · 13.1% of protein
Raw token
GAF_3:528:0.0000000000000743:646:130:1293 HisKA#3
666-732 aa · 67 aa · 7.4% of protein
Raw token
HisKA:666:0.00000000000151:732:67:644 HATPase_c#4
777-886 aa · 110 aa · 12.1% of protein
Raw token
HATPase_c:777:1.72e-28:886:110:109- Raw architecture: KdpD:23:7.9e-144:231:209:210#GAF_3:528:0.0000000000000743:646:130:129#HisKA:666:0.00000000000151:732:67:64#HATPase_c:777:1.72e-28:886:110:109
- 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_000006645::NC_004088.1::G00008
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1407563-1411211Genomic interval covered by the local TCS group.
Identifiers
Old locus tagy1262RefSeq proteinWP_002209649.1
Context group ID
GCF_000006645::NC_004088.1::G00008Context members
Y_RS06645Y_RS06650
Partner locus tags
Y_RS06645Y_RS06650
Partner old locus tags
y1261y1262
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_002209649.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H2YHT4Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H2YHT4_YERPNDisplay 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 tagY_RS06650Primary locus identifier stored in the genes table.
Old locus tagy1262Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004088.1Sequence record reported by the local genomic context database.
Genomic interval1 408 485-1 411 211 nt2 727 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 407 563-1 411 211 ntGCF_000006645::NC_004088.1::G00008
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006645::NC_004088.1::G00008Graphic 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_004088.1All displayed genes belong to this local TCS context.
Neighborhood span1 407 563-1 411 211 nt3 649 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 407 563 nt1 411 211 nt
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000006645#Y_RS06650The current gene is the representative for this cluster.
PFAM architectureKdpD + DUF4118 + GAF_3 + HisKA + HATPase_c5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0393745
Simplified PFAM architecture for HKOC_0393745
PFAM domain coverage: 609 / 908 aa (67.1%)
1 aa908 aa
KdpDDUF4118GAF_3HisKAHATPase_c
- Simplified architecture: KdpD + DUF4118 + GAF_3 + HisKA + HATPase_c
- Raw architecture: KdpD[23-231] | DUF4118[404-509] | GAF_3[529-646] | HisKA[666-732] | HATPase_c[777-885]
- Domain count: 5
- Matched identifier: HKOC_0393745
- Positioned domains: KdpD 23-231 ; DUF4118 404-509 ; GAF_3 529-646 ; HisKA 666-732 ; HATPase_c 777-885
Cluster members and taxonomy
Representative gene: GCF_000006645#Y_RS06650
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 187 410 · GCF_000006645
AssemblyASM664v1 · Complete Genomehaploid
Genome composition4 701 745 bp · 47,5% GCYersinia pestis KIM10+
Signal transduction countsGenes 50 · HK 23 · RR 27CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyYersiniaceaeGenusYersinia
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Yersiniaceae7Yersinia
Related genes
Preview from the same derived genome key