1 PAS#1
11-99 aa · 89 aa · 25.5% of protein
Raw token
PAS:11:0.000000682:99:92:113P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS20035
Histidine kinase, Classic
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassHKTypeClassicLength349 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000013585#SFV_RS20035Stable 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 length349 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage261 / 349 aa (74.8%)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 aa349 aa
Domain-by-domain annotation3 items
2 HisKA#2
131-186 aa · 56 aa · 16.0% of protein
Raw token
HisKA:131:0.000000000000602:186:56:643 HATPase_c#3
234-349 aa · 116 aa · 33.2% of protein
Raw token
HATPase_c:234:4.56e-24:349:120:109- Raw architecture: PAS:11:0.000000682:99:92:113#HisKA:131:0.000000000000602:186:56:64#HATPase_c:234:4.56e-24:349:120:109
- 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::G00030
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3713865-3716335Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_3632RefSeq proteinWP_000190577.1
Context group ID
GCF_000013585::NC_008258.1::G00030Context members
SFV_RS20035SFV_RS20040
Partner locus tags
SFV_RS20035SFV_RS20040
Partner old locus tags
SFV_3632SFV_3633
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000190577.1Primary protein accession used for annex mappings.
UniProt accessionA0A8E0KW06Primary UniProt accession resolved in the annex database.
UniProt IDA0A8E0KW06_ECOLXDisplay identifier provided by UniProt.
GO / PubMed5 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSFV_RS20035Primary locus identifier stored in the genes table.
Old locus tagSFV_3632Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval3 713 865-3 714 914 nt1 050 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span3 713 865-3 716 335 ntGCF_000013585::NC_008258.1::G00030
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::G00030Graphic 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 span3 713 865-3 716 335 nt2 471 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 713 865 nt3 716 335 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SFV_RS20035GCF_000013585#SFV_RS20035
HKClassicCurrent focus
3 713 865-3 714 914 nt · Forward (+)
SFV_RS20040GCF_000013585#SFV_RS20040
RRNtrC
3 714 926-3 716 335 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architecturePAS + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2800892
Simplified PFAM architecture for HKOC_2800892
PFAM domain coverage: 260 / 349 aa (74.5%)
1 aa349 aa
PASHisKAHATPase_c
- Simplified architecture: PAS + HisKA + HATPase_c
- Raw architecture: PAS[11-99] | HisKA[131-186] | HATPase_c[234-348]
- Domain count: 3
- Matched identifier: HKOC_2800892
- Positioned domains: PAS 11-99 ; HisKA 131-186 ; HATPase_c 234-348
Cluster members and taxonomy
Representative gene: GCF_000005845#b3869
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