1 PAS#1
156-266 aa · 111 aa · 14.3% of protein
Raw token
PAS:156:1.04e-19:266:112:113P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SSON_RS18550
Histidine kinase, Unorthodox
Shigella sonnei Ss046 · GCF_000092525
ClassHKTypeUnorthodoxLength778 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000092525#SSON_RS18550Stable P2CS identifier used across views.
GenomeGCF_000092525Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
PASHisKAHATPase_cResponse_regHpt
Protein length778 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage474 / 778 aa (60.9%)Merged over positioned domains only.
Domain description1 PAS,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 aa778 aa
Domain-by-domain annotation5 items
2 HisKA#2
283-345 aa · 63 aa · 8.1% of protein
Raw token
HisKA:283:9.93e-16:345:63:643 HATPase_c#3
394-506 aa · 113 aa · 14.5% of protein
Raw token
HATPase_c:394:8.17e-37:506:113:1094 Response_reg#4
528-640 aa · 113 aa · 14.5% of protein
Raw token
Response_reg:528:2.31e-28:640:114:1115 Hpt#5
686-759 aa · 74 aa · 9.5% of protein
Raw token
Hpt:686:0.00000000000758:759:78:84- Raw architecture: PAS:156:1.04e-19:266:112:113#HisKA:283:9.93e-16:345:63:64#HATPase_c:394:8.17e-37:506:113:109#Response_reg:528:2.31e-28:640:114:111#Hpt:686:0.00000000000758:759:78:84
- Domain description: 1 PAS,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_000092525::NC_007384.1::G00028
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span3529763-3532099Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSSO_3358%2CSSON_3358RefSeq proteinWP_000809792.1
Context group ID
GCF_000092525::NC_007384.1::G00028Context members
SSON_RS18550
Partner locus tags
SSON_RS18550
Partner old locus tags
SSO_3358%2CSSON_3358
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000809792.1Primary protein accession used for annex mappings.
UniProt accessionQ3YX31Primary UniProt accession resolved in the annex database.
UniProt IDQ3YX31_SHISSDisplay 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 tagSSON_RS18550Primary locus identifier stored in the genes table.
Old locus tagSSO_3358%2CSSON_3358Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_007384.1Sequence record reported by the local genomic context database.
Genomic interval3 529 763-3 532 099 nt2 337 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 529 763-3 532 099 ntGCF_000092525::NC_007384.1::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000092525::NC_007384.1::G00028Graphic 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_007384.1All displayed genes belong to this local TCS context.
Neighborhood span3 529 763-3 532 099 nt2 337 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 529 763 nt3 532 099 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SSON_RS18550GCF_000092525#SSON_RS18550
HKUnorthodoxCurrent focus
3 529 763-3 532 099 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000092525#SSON_RS18550The current gene is the representative for this cluster.
PFAM architectureHKR_ArcB_TM + PAS + HisKA + HATPase_c + Response_reg + Hpt6 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0598836
Simplified PFAM architecture for HKOC_0598836
PFAM domain coverage: 547 / 778 aa (70.3%)
1 aa778 aa
HKR_ArcB_TMPASHisKAHATPase_cResponse_regHpt
- Simplified architecture: HKR_ArcB_TM + PAS + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: HKR_ArcB_TM[15-88] | PAS[156-266] | HisKA[283-345] | HATPase_c[395-505] | Response_reg[528-640] | Hpt[686-760]
- Domain count: 6
- Matched identifier: HKOC_0598836
- Positioned domains: HKR_ArcB_TM 15-88 ; PAS 156-266 ; HisKA 283-345 ; HATPase_c 395-505 ; Response_reg 528-640 ; Hpt 686-760
Cluster members and taxonomy
Representative gene: GCF_000092525#SSON_RS18550
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 300 269 · GCF_000092525
AssemblyASM9252v1 · Complete Genomehaploid
Genome composition5 055 316 bp · 51,0% GCShigella sonnei Ss046
Signal transduction countsGenes 60 · HK 29 · RR 31CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key