1 PAS#1
98-194 aa · 97 aa · 22.5% of protein
Raw token
PAS:98:0.00000000000245:194:113:113P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS02040
Histidine kinase, Classic
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassHKTypeClassicLength431 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000013585#SFV_RS02040Stable P2CS identifier used across views.
GenomeGCF_000013585Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
PASHisKAHATPase_c
Protein length431 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage275 / 431 aa (63.8%)Merged over positioned domains only.
Domain description1 PAS,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 aa431 aa
Domain-by-domain annotation3 items
2 HisKA#2
203-268 aa · 66 aa · 15.3% of protein
Raw token
HisKA:203:6.35e-20:268:66:643 HATPase_c#3
313-424 aa · 112 aa · 26.0% of protein
Raw token
HATPase_c:313:1.24e-33:424:112:109- Raw architecture: PAS:98:0.00000000000245:194:113:113#HisKA:203:6.35e-20:268:66:64#HATPase_c:313:1.24e-33:424:112:109
- Domain description: 1 PAS,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_000013585::NC_008258.1::G00001
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span380748-382790Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_0365RefSeq proteinWP_000893611.1
Context group ID
GCF_000013585::NC_008258.1::G00001Context members
SFV_RS02035SFV_RS02040
Partner locus tags
SFV_RS02035SFV_RS02040
Partner old locus tags
SFV_0364SFV_0365
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000893611.1Primary protein accession used for annex mappings.
UniProt accessionQ0T7I8Primary UniProt accession resolved in the annex database.
UniProt IDQ0T7I8_SHIF8Display identifier provided by UniProt.
GO / PubMed7 / 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 tagSFV_RS02040Primary locus identifier stored in the genes table.
Old locus tagSFV_0365Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval381 495-382 790 nt1 296 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span380 748-382 790 ntGCF_000013585::NC_008258.1::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::G00001Graphic 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_008258.1All displayed genes belong to this local TCS context.
Neighborhood span380 748-382 790 nt2 043 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
380 748 nt382 790 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SFV_RS02035GCF_000013585#SFV_RS02035
RROmpR
380 748-381 437 nt · Forward (+)
SFV_RS02040GCF_000013585#SFV_RS02040
HKClassicCurrent focus
381 495-382 790 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architecturePhoR + PAS + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2161287
Simplified PFAM architecture for HKOC_2161287
PFAM domain coverage: 360 / 431 aa (83.5%)
1 aa431 aa
PhoRPASHisKAHATPase_c
- Simplified architecture: PhoR + PAS + HisKA + HATPase_c
- Raw architecture: PhoR[6-91] | PAS[99-194] | HisKA[203-268] | HATPase_c[313-424]
- Domain count: 4
- Matched identifier: HKOC_2161287
- Positioned domains: PhoR 6-91 ; PAS 99-194 ; HisKA 203-268 ; HATPase_c 313-424
Cluster members and taxonomy
Representative gene: GCF_000006925#SF0337
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 373 384 · GCF_000013585
AssemblyASM1358v1 · Complete Genomehaploid
Genome composition4 574 284 bp · 51,0% GCShigella flexneri 5 str. 8401
Signal transduction countsGenes 55 · HK 25 · RR 30CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key