1 Response_reg#1
5-114 aa · 110 aa · 46.2% of protein
Raw token
Response_reg:5:1.06e-33:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
PSM40_RS04835
Response regulator OmpR family
Clostridioides difficile · GCF_028597135
ClassRRTypeOmpRLength238 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_028597135#PSM40_RS04835Stable 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 length238 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 238 aa (78.6%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa238 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
157-233 aa · 77 aa · 32.4% of protein
Raw token
Trans_reg_C:157:1.34e-30:233:77:77- Raw architecture: Response_reg:5:1.06e-33:114:111:111#Trans_reg_C:157:1.34e-30:233:77:77
- 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 labelpairedGCF_028597135::NZ_JAQRJK010000003.1::G00033
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span129497-131774Genomic interval covered by the local TCS group.
Identifiers
Old locus tagPSM40_04835RefSeq proteinWP_003423137.1
Context group ID
GCF_028597135::NZ_JAQRJK010000003.1::G00033Context members
PSM40_RS04835PSM40_RS04840
Partner locus tags
PSM40_RS04835PSM40_RS04840
Partner old locus tags
PSM40_04835PSM40_04840
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003423137.1Primary protein accession used for annex mappings.
UniProt accessionD5Q2Z2Primary UniProt accession resolved in the annex database.
UniProt IDD5Q2Z2_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_RS04835Primary locus identifier stored in the genes table.
Old locus tagPSM40_04835Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAQRJK010000003.1Sequence record reported by the local genomic context database.
Genomic interval129 497-130 213 nt717 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span129 497-131 774 ntGCF_028597135::NZ_JAQRJK010000003.1::G00033
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_028597135::NZ_JAQRJK010000003.1::G00033Graphic 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 / repliconNZ_JAQRJK010000003.1All displayed genes belong to this local TCS context.
Neighborhood span129 497-131 774 nt2 278 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
129 497 nt131 774 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
PSM40_RS04835GCF_028597135#PSM40_RS04835
RROmpRCurrent focus
129 497-130 213 nt · Forward (+)
PSM40_RS04840GCF_028597135#PSM40_RS04840
HKClassic
130 182-131 774 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0211325Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0932524
Simplified PFAM architecture for RROC_0932524
PFAM domain coverage: 186 / 238 aa (78.2%)
1 aa238 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-114] | Trans_reg_C[157-232]
- Domain count: 2
- Matched identifier: RROC_0932524
- Positioned domains: Response_reg 5-114 ; Response_reg 5-114 ; Trans_reg_C 157-232 ; Trans_reg_C 157-232
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0211325
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