1 HAMP#1
160-229 aa · 70 aa · 15.6% of protein
Raw token
HAMP:160:0.0000000000438:229:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS18770
Histidine kinase, Classic
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassHKTypeClassicLength450 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000013585#SFV_RS18770Stable P2CS identifier used across views.
GenomeGCF_000013585Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length450 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage236 / 450 aa (52.4%)Merged over positioned domains only.
Domain description1 HAMP,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 aa450 aa
Domain-by-domain annotation3 items
2 HisKA#2
234-293 aa · 60 aa · 13.3% of protein
Raw token
HisKA:234:0.00000000000328:293:63:643 HATPase_c#3
334-439 aa · 106 aa · 23.6% of protein
Raw token
HATPase_c:334:2.33e-27:439:109:109- Raw architecture: HAMP:160:0.0000000000438:229:70:69#HisKA:234:0.00000000000328:293:63:64#HATPase_c:334:2.33e-27:439:109:109
- Domain description: 1 HAMP,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::G00028
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3465717-3467785Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_3409RefSeq proteinWP_001253696.1
Context group ID
GCF_000013585::NC_008258.1::G00028Context members
SFV_RS18770SFV_RS18775
Partner locus tags
SFV_RS18770SFV_RS18775
Partner old locus tags
SFV_3409SFV_3410
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_001253696.1Primary protein accession used for annex mappings.
UniProt accessionA0A8E0KT74Primary UniProt accession resolved in the annex database.
UniProt IDA0A8E0KT74_ECOLXDisplay identifier provided by UniProt.
GO / PubMed3 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSFV_RS18770Primary locus identifier stored in the genes table.
Old locus tagSFV_3409Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval3 465 717-3 467 069 nt1 353 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 465 717-3 467 785 ntGCF_000013585::NC_008258.1::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::G00028Graphic 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 465 717-3 467 785 nt2 069 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 465 717 nt3 467 785 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SFV_RS18770GCF_000013585#SFV_RS18770
HKClassicCurrent focus
3 465 717-3 467 069 nt · Reverse (-)
SFV_RS18775GCF_000013585#SFV_RS18775
RROmpR
3 467 066-3 467 785 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_030346725#QT350_RS08200Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1957158
Simplified PFAM architecture for HKOC_1957158
PFAM domain coverage: 213 / 451 aa (47.2%)
1 aa451 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[177-226] | HisKA[234-290] | HATPase_c[334-439]
- Domain count: 3
- Matched identifier: HKOC_1957158
- Positioned domains: HAMP 177-226 ; HisKA 234-290 ; HATPase_c 334-439
Cluster members and taxonomy
Representative gene: GCF_030346725#QT350_RS08200
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