1 Response_reg#1
6-116 aa · 111 aa · 23.7% of protein
Raw token
Response_reg:6:7.43e-39:116:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SF3938
Response regulator NtrC family
Shigella flexneri 2a str. 301 · GCF_000006925
ClassRRTypeNtrCLength469 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006925#SF3938Stable P2CS identifier used across views.
GenomeGCF_000006925Bacteria; 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_5:163:0.0000000282:281:128:1353 HTH_8#3
427-466 aa · 40 aa · 8.5% of protein
Raw token
HTH_8:427:0.0000000000000178:466:40:40- Raw architecture: Response_reg:6:7.43e-39:116:111:111#AAA_5:163:0.0000000282:281:128:135#HTH_8:427:0.0000000000000178:466:40:40
- 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_000006925::NC_004337.2::G00029
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span4066557-4069027Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000006925::NC_004337.2::G00029Context members
SF3938SF3939
Partner locus tags
SF3938SF3939
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for NP_709666.2.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSF3938Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNC_004337.2Sequence record reported by the local genomic context database.
Genomic interval4 066 557-4 067 966 nt1 410 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span4 066 557-4 069 027 ntGCF_000006925::NC_004337.2::G00029
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006925::NC_004337.2::G00029Graphic 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_004337.2All displayed genes belong to this local TCS context.
Neighborhood span4 066 557-4 069 027 nt2 471 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
4 066 557 nt4 069 027 nt
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0209495
Simplified PFAM architecture for RROC_0209495
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_0209495
- 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_000006925#SF3938
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 198 214 · GCF_000006925
AssemblyASM692v2 · Complete Genomereference genome · haploid
Genome composition4 828 820 bp · 50,5% GCShigella flexneri 2a str. 301
Signal transduction countsGenes 54 · HK 25 · RR 29CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key