1 PilJ#1
32-109 aa · 78 aa · 13.2% of protein
Raw token
PilJ:32:0.000000231:109:94:112P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Y_RS12120
Histidine kinase, Classic
Yersinia pestis KIM10+ · GCF_000006645
ClassHKTypeClassicLength593 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000006645#Y_RS12120Stable P2CS identifier used across views.
GenomeGCF_000006645Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Yersinia
Domain signature
Compact overview inferred from the domain field
PilJHAMPHisKA_3HATPase_c
Protein length593 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage298 / 593 aa (50.3%)Merged over positioned domains only.
Domain description1 PilJ,1 HAMP,1 HisKA_3,1 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 aa593 aa
Domain-by-domain annotation4 items
2 HAMP#2
154-221 aa · 68 aa · 11.5% of protein
Raw token
HAMP:154:0.00000000000000673:221:68:693 HisKA_3#3
392-455 aa · 64 aa · 10.8% of protein
Raw token
HisKA_3:392:0.00000000000000118:455:64:684 HATPase_c#4
498-585 aa · 88 aa · 14.8% of protein
Raw token
HATPase_c:498:1.08e-16:585:103:109- Raw architecture: PilJ:32:0.000000231:109:94:112#HAMP:154:0.00000000000000673:221:68:69#HisKA_3:392:0.00000000000000118:455:64:68#HATPase_c:498:1.08e-16:585:103:109
- Domain description: 1 PilJ,1 HAMP,1 HisKA_3,1 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 labelorphanGCF_000006645::NC_004088.1::G00021
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span2590772-2592553Genomic interval covered by the local TCS group.
Identifiers
Old locus tagy2351RefSeq proteinWP_002212035.1
Context group ID
GCF_000006645::NC_004088.1::G00021Context members
Y_RS12120
Partner locus tags
Y_RS12120
Partner old locus tags
y2351
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_002212035.1Primary protein accession used for annex mappings.
UniProt accessionA0A0E1NTU8Primary UniProt accession resolved in the annex database.
UniProt IDA0A0E1NTU8_YERPADisplay identifier provided by UniProt.
GO / PubMed4 / 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_RS12120Primary locus identifier stored in the genes table.
Old locus tagy2351Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004088.1Sequence record reported by the local genomic context database.
Genomic interval2 590 772-2 592 553 nt1 782 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 590 772-2 592 553 ntGCF_000006645::NC_004088.1::G00021
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006645::NC_004088.1::G00021Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNC_004088.1All displayed genes belong to this local TCS context.
Neighborhood span2 590 772-2 592 553 nt1 782 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 590 772 nt2 592 553 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
Y_RS12120GCF_000006645#Y_RS12120
HKClassicCurrent focus
2 590 772-2 592 553 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000006645#Y_RS12120The current gene is the representative for this cluster.
PFAM architecturePilJ + HAMP + HisKA_3 + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1092772
Simplified PFAM architecture for HKOC_1092772
PFAM domain coverage: 281 / 593 aa (47.4%)
1 aa593 aa
PilJHAMPHisKA_3HATPase_c
- Simplified architecture: PilJ + HAMP + HisKA_3 + HATPase_c
- Raw architecture: PilJ[32-110] | HAMP[171-221] | HisKA_3[392-455] | HATPase_c[499-585]
- Domain count: 4
- Matched identifier: HKOC_1092772
- Positioned domains: PilJ 32-110 ; HAMP 171-221 ; HisKA_3 392-455 ; HATPase_c 499-585
Cluster members and taxonomy
Representative gene: GCF_000006645#Y_RS12120
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