1 HAMP#1
181-246 aa · 66 aa · 7.1% of protein
Raw token
HAMP:181:0.0000000000866:246:66:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Y_RS04200
Histidine kinase, Unorthodox
Yersinia pestis KIM10+ · GCF_000006645
ClassHKTypeUnorthodoxLength933 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000006645#Y_RS04200Stable P2CS identifier used across views.
GenomeGCF_000006645Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Yersinia
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_cResponse_regHpt
Protein length933 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage443 / 933 aa (47.5%)Merged over positioned domains only.
Domain description1 HAMP,1 HisKA,1 HATPase_c,1 Response_reg,1 HptSummary 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 aa933 aa
Domain-by-domain annotation5 items
2 HisKA#2
292-355 aa · 64 aa · 6.9% of protein
Raw token
HisKA:292:9.73e-17:355:64:643 HATPase_c#3
403-518 aa · 116 aa · 12.4% of protein
Raw token
HATPase_c:403:7.19e-29:518:116:1094 Response_reg#4
670-781 aa · 112 aa · 12.0% of protein
Raw token
Response_reg:670:1.13e-29:781:112:1115 Hpt#5
841-925 aa · 85 aa · 9.1% of protein
Raw token
Hpt:841:0.00000000000109:925:85:84- Raw architecture: HAMP:181:0.0000000000866:246:66:69#HisKA:292:9.73e-17:355:64:64#HATPase_c:403:7.19e-29:518:116:109#Response_reg:670:1.13e-29:781:112:111#Hpt:841:0.00000000000109:925:85:84
- Domain description: 1 HAMP,1 HisKA,1 HATPase_c,1 Response_reg,1 Hpt
- 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::G00005
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span904363-907164Genomic interval covered by the local TCS group.
Identifiers
Old locus tagy0808RefSeq proteinWP_002228321.1
Context group ID
GCF_000006645::NC_004088.1::G00005Context members
Y_RS04200
Partner locus tags
Y_RS04200
Partner old locus tags
y0808
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_002228321.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H2YEJ9Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H2YEJ9_YERPNDisplay identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagY_RS04200Primary locus identifier stored in the genes table.
Old locus tagy0808Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004088.1Sequence record reported by the local genomic context database.
Genomic interval904 363-907 164 nt2 802 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span904 363-907 164 ntGCF_000006645::NC_004088.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006645::NC_004088.1::G00005Graphic 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 span904 363-907 164 nt2 802 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
904 363 nt907 164 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
Y_RS04200GCF_000006645#Y_RS04200
HKUnorthodoxCurrent focus
904 363-907 164 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000006645#Y_RS04200The current gene is the representative for this cluster.
PFAM architecturesCache_4 + HAMP + HisKA + HATPase_c + Response_reg + Hpt6 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0348729
Simplified PFAM architecture for HKOC_0348729
PFAM domain coverage: 573 / 933 aa (61.4%)
1 aa933 aa
sCache_4HAMPHisKAHATPase_cResponse_regHpt
- Simplified architecture: sCache_4 + HAMP + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: sCache_4[31-176] | HAMP[197-247] | HisKA[292-355] | HATPase_c[403-518] | Response_reg[670-781] | Hpt[841-924]
- Domain count: 6
- Matched identifier: HKOC_0348729
- Positioned domains: sCache_4 31-176 ; HAMP 197-247 ; HisKA 292-355 ; HATPase_c 403-518 ; Response_reg 670-781 ; Hpt 841-924
Cluster members and taxonomy
Representative gene: GCF_000006645#Y_RS04200
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