1 HisKA#1
327-392 aa · 66 aa · 8.4% of protein
Raw token
HisKA:327:2.46e-16:392:66:64P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS05555
Histidine kinase, Unorthodox
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassHKTypeUnorthodoxLength788 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000013585#SFV_RS05555Stable P2CS identifier used across views.
GenomeGCF_000013585Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HisKAHATPase_cResponse_regHpt
Protein length788 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage347 / 788 aa (44.0%)Merged over positioned domains only.
Domain description1 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 aa788 aa
Domain-by-domain annotation4 items
2 HATPase_c#2
441-547 aa · 107 aa · 13.6% of protein
Raw token
HATPase_c:441:2.59e-35:547:108:1093 Response_reg#3
569-674 aa · 106 aa · 13.5% of protein
Raw token
Response_reg:569:0.00000000000000348:674:106:1114 Hpt#4
711-778 aa · 68 aa · 8.6% of protein
Raw token
Hpt:711:0.00000000000478:778:68:84- Raw architecture: HisKA:327:2.46e-16:392:66:64#HATPase_c:441:2.59e-35:547:108:109#Response_reg:569:0.00000000000000348:674:106:111#Hpt:711:0.00000000000478:778:68:84
- Domain description: 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_000013585::NC_008258.1::G00005
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span1050022-1052388Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_1004RefSeq proteinWP_071818632.1
Context group ID
GCF_000013585::NC_008258.1::G00005Context members
SFV_RS05555
Partner locus tags
SFV_RS05555
Partner old locus tags
SFV_1004
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_071818632.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSFV_RS05555Primary locus identifier stored in the genes table.
Old locus tagSFV_1004Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval1 050 022-1 052 388 nt2 367 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 050 022-1 052 388 ntGCF_000013585::NC_008258.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::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_008258.1All displayed genes belong to this local TCS context.
Neighborhood span1 050 022-1 052 388 nt2 367 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 050 022 nt1 052 388 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SFV_RS05555GCF_000013585#SFV_RS05555
HKUnorthodoxCurrent focus
1 050 022-1 052 388 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000013585#SFV_RS05555The current gene is the representative for this cluster.
PFAM architectureTorS_sensor_domain + HisKA + HATPase_c + Response_reg + Hpt5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0578011
Simplified PFAM architecture for HKOC_0578011
PFAM domain coverage: 626 / 788 aa (79.4%)
1 aa788 aa
TorS_sensor_domainHisKAHATPase_cResponse_regHpt
- Simplified architecture: TorS_sensor_domain + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: TorS_sensor_domain[46-315] | HisKA[327-392] | HATPase_c[441-547] | Response_reg[569-676] | Hpt[711-785]
- Domain count: 5
- Matched identifier: HKOC_0578011
- Positioned domains: TorS_sensor_domain 46-315 ; HisKA 327-392 ; HATPase_c 441-547 ; Response_reg 569-676 ; Hpt 711-785
Cluster members and taxonomy
Representative gene: GCF_000013585#SFV_RS05555
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