1 HAMP#1
167-236 aa · 70 aa · 15.0% of protein
Raw token
HAMP:167:5.71e-16:236:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SBO_RS04980
Histidine kinase, Classic
Shigella boydii Sb227 · GCF_000012025
ClassHKTypeClassicLength467 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000012025#SBO_RS04980Stable P2CS identifier used across views.
GenomeGCF_000012025Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length467 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage248 / 467 aa (53.1%)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 aa467 aa
Domain-by-domain annotation3 items
2 HisKA#2
240-304 aa · 65 aa · 13.9% of protein
Raw token
HisKA:240:0.000000000000012:304:65:643 HATPase_c#3
349-461 aa · 113 aa · 24.2% of protein
Raw token
HATPase_c:349:1.25e-29:461:113:109- Raw architecture: HAMP:167:5.71e-16:236:70:69#HisKA:240:0.000000000000012:304:65:64#HATPase_c:349:1.25e-29:461:113:109
- 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_000012025::NC_007613.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span933245-935367Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSBO_0904RefSeq proteinWP_000675146.1
Context group ID
GCF_000012025::NC_007613.1::G00005Context members
SBO_RS04980SBO_RS04985
Partner locus tags
SBO_RS04980SBO_RS04985
Partner old locus tags
SBO_0904SBO_0905
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000675146.1Primary protein accession used for annex mappings.
UniProt accessionA0A370VAZ4Primary UniProt accession resolved in the annex database.
UniProt IDA0A370VAZ4_9ESCHDisplay 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 tagSBO_RS04980Primary locus identifier stored in the genes table.
Old locus tagSBO_0904Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_007613.1Sequence record reported by the local genomic context database.
Genomic interval933 245-934 648 nt1 404 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span933 245-935 367 ntGCF_000012025::NC_007613.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000012025::NC_007613.1::G00005Graphic 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_007613.1All displayed genes belong to this local TCS context.
Neighborhood span933 245-935 367 nt2 123 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
933 245 nt935 367 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SBO_RS04980GCF_000012025#SBO_RS04980
HKClassicCurrent focus
933 245-934 648 nt · Forward (+)
SBO_RS04985GCF_000012025#SBO_RS04985
RROmpR
934 645-935 367 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000010765#ECO111_RS14620Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1747632
Simplified PFAM architecture for HKOC_1747632
PFAM domain coverage: 229 / 467 aa (49.0%)
1 aa467 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[184-235] | HisKA[240-304] | HATPase_c[349-460]
- Domain count: 3
- Matched identifier: HKOC_1747632
- Positioned domains: HAMP 184-235 ; HisKA 240-304 ; HATPase_c 349-460
Cluster members and taxonomy
Representative gene: GCF_000010765#ECO111_RS14620
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 300 268 · GCF_000012025
AssemblyASM1202v1 · Complete Genomehaploid
Genome composition4 646 520 bp · 51,0% GCShigella boydii Sb227
Signal transduction countsGenes 55 · HK 26 · RR 29CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key