1 Response_reg#1
5-112 aa · 108 aa · 48.0% of protein
Raw token
Response_reg:5:7.65e-26:112:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
PSM40_RS09630
Response regulator OmpR family
Clostridioides difficile · GCF_028597135
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContexttriad
Gene IDGCF_028597135#PSM40_RS09630Stable P2CS identifier used across views.
GenomeGCF_028597135Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length225 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 225 aa (82.2%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-223 aa · 77 aa · 34.2% of protein
Raw token
Trans_reg_C:147:7.45e-30:223:77:77- Raw architecture: Response_reg:5:7.65e-26:112:109:111#Trans_reg_C:147:7.45e-30:223:77:77
- 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 labeltriadGCF_028597135::NZ_JAQRJK010000007.1::G00045
Group size33 locus tags listed below.
HK / RR1 / 2Counts resolved for the local TCS neighborhood.
Context span574-4068Genomic interval covered by the local TCS group.
Identifiers
Old locus tagPSM40_09630RefSeq proteinWP_003417201.1
Context group ID
GCF_028597135::NZ_JAQRJK010000007.1::G00045Context members
PSM40_RS09630PSM40_RS09635PSM40_RS09640
Partner locus tags
PSM40_RS09630PSM40_RS09635PSM40_RS09640
Partner old locus tags
PSM40_09630PSM40_09635PSM40_09640
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003417201.1Primary protein accession used for annex mappings.
UniProt accessionD5Q7L5Primary UniProt accession resolved in the annex database.
UniProt IDD5Q7L5_CLODIDisplay 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 tagPSM40_RS09630Primary locus identifier stored in the genes table.
Old locus tagPSM40_09630Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAQRJK010000007.1Sequence record reported by the local genomic context database.
Genomic interval574-1 251 nt678 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span574-4 068 ntGCF_028597135::NZ_JAQRJK010000007.1::G00045
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_028597135::NZ_JAQRJK010000007.1::G00045Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labeltriadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JAQRJK010000007.1All displayed genes belong to this local TCS context.
Neighborhood span574-4 068 nt3 495 nt
Members31 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
574 nt4 068 nt
Neighborhood gene cards
3 genes in the current local neighborhood.
PSM40_RS09630GCF_028597135#PSM40_RS09630
RROmpRCurrent focus
574-1 251 nt · Forward (+)
PSM40_RS09635GCF_028597135#PSM40_RS09635
HKClassic
1 323-3 338 nt · Forward (+)
PSM40_RS09640GCF_028597135#PSM40_RS09640
RROmpR
3 388-4 068 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_012276925#GSQ42_RS10155Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1216755
Simplified PFAM architecture for RROC_1216755
PFAM domain coverage: 185 / 230 aa (80.4%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[10-117] | Trans_reg_C[152-228]
- Domain count: 2
- Matched identifier: RROC_1216755
- Positioned domains: Response_reg 10-117 ; Trans_reg_C 152-228
Cluster members and taxonomy
Representative gene: GCF_012276925#GSQ42_RS10155
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_028597135
AssemblyASM2859713v1 · Contighaploid
Genome composition3 933 385 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 97 · HK 48 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key