1 Response_reg#1
4-113 aa · 110 aa · 48.9% of protein
Raw token
Response_reg:4:6.84e-39:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SBO_RS03065
Response regulator OmpR family
Shigella boydii Sb227 · GCF_000012025
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000012025#SBO_RS03065Stable P2CS identifier used across views.
GenomeGCF_000012025Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length225 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 225 aa (82.7%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_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 aa225 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
148-223 aa · 76 aa · 33.8% of protein
Raw token
Trans_reg_C:148:6.47e-26:223:76:77- Raw architecture: Response_reg:4:6.84e-39:113:111:111#Trans_reg_C:148:6.47e-26:223:76:77
- Domain description: 1 Response_reg,1 Trans_reg_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::G00004
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span571962-575320Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSBO_0556RefSeq proteinWP_000186097.1
Context group ID
GCF_000012025::NC_007613.1::G00004Context members
SBO_RS03065SBO_RS03070
Partner locus tags
SBO_RS03065SBO_RS03070
Partner old locus tags
SBO_0556SBO_0557
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000186097.1Primary protein accession used for annex mappings.
UniProt accessionI6EQZ4Primary UniProt accession resolved in the annex database.
UniProt IDI6EQZ4_SHIBODisplay identifier provided by UniProt.
GO / PubMed6 / 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_RS03065Primary locus identifier stored in the genes table.
Old locus tagSBO_0556Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_007613.1Sequence record reported by the local genomic context database.
Genomic interval571 962-572 639 nt678 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span571 962-575 320 ntGCF_000012025::NC_007613.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000012025::NC_007613.1::G00004Graphic 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 span571 962-575 320 nt3 359 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
571 962 nt575 320 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SBO_RS03065GCF_000012025#SBO_RS03065
RROmpRCurrent focus
571 962-572 639 nt · Reverse (-)
SBO_RS03070GCF_000012025#SBO_RS03070
HKClassic
572 636-575 320 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000012025#SBO_RS03065The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1462666
Simplified PFAM architecture for RROC_1462666
PFAM domain coverage: 185 / 225 aa (82.2%)
1 aa225 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[148-223]
- Domain count: 2
- Matched identifier: RROC_1462666
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 148-223 ; Trans_reg_C 148-223
Cluster members and taxonomy
Representative gene: GCF_000012025#SBO_RS03065
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