1 Response_reg#1
9-120 aa · 112 aa · 51.9% of protein
Raw token
Response_reg:9:1.07e-35:120:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS06885
Response regulator NarL family
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassRRTypeNarLLength216 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000013585#SFV_RS06885Stable P2CS identifier used across views.
GenomeGCF_000013585Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length216 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage167 / 216 aa (77.3%)Merged over positioned domains only.
Domain description1 Response_reg,1 HTH_LUXRSummary 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 aa216 aa
Domain-by-domain annotation2 items
2 HTH_LUXR#2
156-210 aa · 55 aa · 25.5% of protein
Raw token
HTH_LUXR:156:9.97e-23:210:55:58- Raw architecture: Response_reg:9:1.07e-35:120:112:111#HTH_LUXR:156:9.97e-23:210:55:58
- Domain description: 1 Response_reg,1 HTH_LUXR
- 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::G00008
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1285685-1288124Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_1237RefSeq proteinWP_000070491.1
Context group ID
GCF_000013585::NC_008258.1::G00008Context members
SFV_RS06885SFV_RS06890
Partner locus tags
SFV_RS06885SFV_RS06890
Partner old locus tags
SFV_1237SFV_1238
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000070491.1Primary protein accession used for annex mappings.
UniProt accessionD3H2K7Primary UniProt accession resolved in the annex database.
UniProt IDD3H2K7_ECO44Display identifier provided by UniProt.
GO / PubMed5 / 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_RS06885Primary locus identifier stored in the genes table.
Old locus tagSFV_1237Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval1 285 685-1 286 335 nt651 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 285 685-1 288 124 ntGCF_000013585::NC_008258.1::G00008
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::G00008Graphic 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 span1 285 685-1 288 124 nt2 440 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 285 685 nt1 288 124 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SFV_RS06885GCF_000013585#SFV_RS06885
RRNarLCurrent focus
1 285 685-1 286 335 nt · Reverse (-)
SFV_RS06890GCF_000013585#SFV_RS06890
HKClassic
1 286 328-1 288 124 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1878761
Simplified PFAM architecture for RROC_1878761
PFAM domain coverage: 167 / 216 aa (77.3%)
1 aa216 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[9-120] | GerE[155-209]
- Domain count: 2
- Matched identifier: RROC_1878761
- Positioned domains: Response_reg 9-120 ; Response_reg 9-120 ; GerE 155-209 ; GerE 155-209
Cluster members and taxonomy
Representative gene: GCF_000005845#b1221
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