1 Response_reg#1
4-113 aa · 110 aa · 48.9% of protein
Raw token
Response_reg:4:2.94e-40:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS03550
Response regulator OmpR family
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000013585#SFV_RS03550Stable P2CS identifier used across views.
GenomeGCF_000013585Bacteria; 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:148:8.27e-27:223:76:77- Raw architecture: Response_reg:4:2.94e-40:113:111:111#Trans_reg_C:148:8.27e-27:223:76:77
- 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 labelorphanGCF_000013585::NC_008258.1::G00004
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span676078-676755Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_0639RefSeq proteinWP_000186088.1
Context group ID
GCF_000013585::NC_008258.1::G00004Context members
SFV_RS03550
Partner locus tags
SFV_RS03550
Partner old locus tags
SFV_0639
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000186088.1Primary protein accession used for annex mappings.
UniProt accessionQ3Z4A9Primary UniProt accession resolved in the annex database.
UniProt IDQ3Z4A9_SHISSDisplay identifier provided by UniProt.
GO / PubMed6 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSFV_RS03550Primary locus identifier stored in the genes table.
Old locus tagSFV_0639Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval676 078-676 755 nt678 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span676 078-676 755 ntGCF_000013585::NC_008258.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::G00004Graphic 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 span676 078-676 755 nt678 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
676 078 nt676 755 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SFV_RS03550GCF_000013585#SFV_RS03550
RROmpRCurrent focus
676 078-676 755 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000013585#SFV_RS03550The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1462695
Simplified PFAM architecture for RROC_1462695
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_1462695
- 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_000013585#SFV_RS03550
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