1 Response_reg#1
6-116 aa · 111 aa · 23.7% of protein
Raw token
Response_reg:6:7.84e-39:116:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SSON_RS22385
Response regulator NtrC family
Shigella sonnei Ss046 · GCF_000092525
ClassRRTypeNtrCLength469 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000092525#SSON_RS22385Stable P2CS identifier used across views.
GenomeGCF_000092525Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
Response_regAAA_5HTH_8
Protein length469 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage270 / 469 aa (57.6%)Merged over positioned domains only.
Domain description1 Response_reg,1 AAA_5,1 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 aa469 aa
Domain-by-domain annotation3 items
2 AAA_5#2
163-281 aa · 119 aa · 25.4% of protein
Raw token
AAA_5:163:0.0000000627:281:128:1353 HTH_8#3
427-466 aa · 40 aa · 8.5% of protein
Raw token
HTH_8:427:0.0000000000000171:466:40:40- Raw architecture: Response_reg:6:7.84e-39:116:111:111#AAA_5:163:0.0000000627:281:128:135#HTH_8:427:0.0000000000000171:466:40:40
- Domain description: 1 Response_reg,1 AAA_5,1 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::G00031
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span4270770-4273240Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSSO_4040%2CSSON_4040RefSeq proteinWP_001188776.1
Context group ID
GCF_000092525::NC_007384.1::G00031Context members
SSON_RS22385SSON_RS22390
Partner locus tags
SSON_RS22385SSON_RS22390
Partner old locus tags
SSO_4040%2CSSON_4040SSO_4041%2CSSON_4041
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_001188776.1Primary protein accession used for annex mappings.
UniProt accessionA0AAP9MNR0Primary UniProt accession resolved in the annex database.
UniProt IDA0AAP9MNR0_ECOLXDisplay 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 tagSSON_RS22385Primary locus identifier stored in the genes table.
Old locus tagSSO_4040%2CSSON_4040Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_007384.1Sequence record reported by the local genomic context database.
Genomic interval4 270 770-4 272 179 nt1 410 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span4 270 770-4 273 240 ntGCF_000092525::NC_007384.1::G00031
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000092525::NC_007384.1::G00031Graphic 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 span4 270 770-4 273 240 nt2 471 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
4 270 770 nt4 273 240 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SSON_RS22385GCF_000092525#SSON_RS22385
RRNtrCCurrent focus
4 270 770-4 272 179 nt · Reverse (-)
SSON_RS22390GCF_000092525#SSON_RS22390
HKClassic
4 272 191-4 273 240 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000010385#ECSE_RS21565Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0209503
Simplified PFAM architecture for RROC_0209503
PFAM domain coverage: 401 / 469 aa (85.5%)
1 aa469 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[6-115] | Sigma54_activat[140-306] | AAA_lid_14[312-395] | HTH_8[427-466]
- Domain count: 4
- Matched identifier: RROC_0209503
- Positioned domains: Response_reg 6-115 ; Response_reg 6-115 ; Sigma54_activat 140-306 ; Sigma54_activat 140-306 ; AAA_lid_14 312-395 ; AAA_lid_14 312-395 ; HTH_8 427-466 ; HTH_8 427-466
Cluster members and taxonomy
Representative gene: GCF_000010385#ECSE_RS21565
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