1 Response_reg#1
7-112 aa · 106 aa · 23.0% of protein
Raw token
Response_reg:7:2.8e-35:112:106:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SSON_RS12670
Response regulator, unclassified
Shigella sonnei Ss046 · GCF_000092525
ClassRRTypePrrALength461 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000092525#SSON_RS12670Stable P2CS identifier used across views.
GenomeGCF_000092525Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
Response_regAAAHTH_8
Protein length461 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage295 / 461 aa (64.0%)Merged over positioned domains only.
Domain description1 Response_reg,1 AAA,1 HTH_8Summary 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 aa461 aa
Domain-by-domain annotation3 items
2 AAA#2
169-319 aa · 151 aa · 32.8% of protein
Raw token
AAA:169:0.00000000348:319:165:1303 HTH_8#3
417-454 aa · 38 aa · 8.2% of protein
Raw token
HTH_8:417:0.000000000000141:454:38:40- Raw architecture: Response_reg:7:2.8e-35:112:106:111#AAA:169:0.00000000348:319:165:130#HTH_8:417:0.000000000000141:454:38:40
- Domain description: 1 Response_reg,1 AAA,1 HTH_8
- 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_000092525::NC_007384.1::G00020
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2395016-2398224Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSSO_2279%2CSSON_2279RefSeq proteinWP_000125280.1
Context group ID
GCF_000092525::NC_007384.1::G00020Context members
SSON_RS12665SSON_RS12670
Partner locus tags
SSON_RS12665SSON_RS12670
Partner old locus tags
SSO_2278%2CSSON_2278SSO_2279%2CSSON_2279
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000125280.1Primary protein accession used for annex mappings.
UniProt accessionQ3YZY6Primary UniProt accession resolved in the annex database.
UniProt IDQ3YZY6_SHISSDisplay 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 tagSSON_RS12670Primary locus identifier stored in the genes table.
Old locus tagSSO_2279%2CSSON_2279Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_007384.1Sequence record reported by the local genomic context database.
Genomic interval2 396 839-2 398 224 nt1 386 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 395 016-2 398 224 ntGCF_000092525::NC_007384.1::G00020
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000092525::NC_007384.1::G00020Graphic 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_007384.1All displayed genes belong to this local TCS context.
Neighborhood span2 395 016-2 398 224 nt3 209 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 395 016 nt2 398 224 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SSON_RS12665GCF_000092525#SSON_RS12665
HKClassic
2 395 016-2 396 842 nt · Forward (+)
SSON_RS12670GCF_000092525#SSON_RS12670
RRPrrACurrent focus
2 396 839-2 398 224 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000092525#SSON_RS12670The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0236096
Simplified PFAM architecture for RROC_0236096
PFAM domain coverage: 393 / 461 aa (85.2%)
1 aa461 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[7-115] | Sigma54_activat[145-311] | AAA_lid_14[317-393] | HTH_8[415-454]
- Domain count: 4
- Matched identifier: RROC_0236096
- Positioned domains: Response_reg 7-115 ; Response_reg 7-115 ; Sigma54_activat 145-311 ; Sigma54_activat 145-311 ; AAA_lid_14 317-393 ; AAA_lid_14 317-393 ; HTH_8 415-454 ; HTH_8 415-454
Cluster members and taxonomy
Representative gene: GCF_000092525#SSON_RS12670
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 300 269 · GCF_000092525
AssemblyASM9252v1 · Complete Genomehaploid
Genome composition5 055 316 bp · 51,0% GCShigella sonnei Ss046
Signal transduction countsGenes 60 · HK 29 · RR 31CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key