1 Response_reg#1
5-114 aa · 110 aa · 47.8% of protein
Raw token
Response_reg:5:2.21e-33:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
S_RS05560
Response regulator OmpR family
Shigella flexneri 2a str. 2457T · GCF_000007405
ClassRRTypeOmpRLength230 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000007405#S_RS05560Stable P2CS identifier used across views.
GenomeGCF_000007405Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length230 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage183 / 230 aa (79.6%)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 aa230 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-225 aa · 73 aa · 31.7% of protein
Raw token
Trans_reg_C:153:3.61e-20:225:78:77- Raw architecture: Response_reg:5:2.21e-33:114:111:111#Trans_reg_C:153:3.61e-20:225:78:77
- 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_000007405::NC_004741.1::G00003
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span1049126-1049818Genomic interval covered by the local TCS group.
Identifiers
Old locus tagS1065%2CS_1065RefSeq proteinWP_001120136.1
Context group ID
GCF_000007405::NC_004741.1::G00003Context members
S_RS05560
Partner locus tags
S_RS05560
Partner old locus tags
S1065%2CS_1065
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_001120136.1Primary protein accession used for annex mappings.
UniProt accessionA0AB36PCR7Primary UniProt accession resolved in the annex database.
UniProt IDA0AB36PCR7_SHIFLDisplay 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 tagS_RS05560Primary locus identifier stored in the genes table.
Old locus tagS1065%2CS_1065Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004741.1Sequence record reported by the local genomic context database.
Genomic interval1 049 126-1 049 818 nt693 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 049 126-1 049 818 ntGCF_000007405::NC_004741.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000007405::NC_004741.1::G00003Graphic 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_004741.1All displayed genes belong to this local TCS context.
Neighborhood span1 049 126-1 049 818 nt693 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 049 126 nt1 049 818 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
S_RS05560GCF_000007405#S_RS05560
RROmpRCurrent focus
1 049 126-1 049 818 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1199632
Simplified PFAM architecture for RROC_1199632
PFAM domain coverage: 182 / 230 aa (79.1%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[153-225]
- Domain count: 2
- Matched identifier: RROC_1199632
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 153-225 ; Trans_reg_C 153-225
Cluster members and taxonomy
Representative gene: GCF_000006925#SF0998
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 198 215 · GCF_000007405
AssemblyASM740v1 · Complete Genomehaploid
Genome composition4 599 354 bp · 51,0% GCShigella flexneri 2a str. 2457T
Signal transduction countsGenes 52 · HK 24 · RR 28CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key