1 Response_reg#1
5-114 aa · 110 aa · 47.8% of protein
Raw token
Response_reg:5:9.51e-25:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
V439_RS12390
Response regulator OmpR family
Clostridioides difficile · GCF_002352505
ClassRRTypeOmpRLength230 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002352505#V439_RS12390Stable P2CS identifier used across views.
GenomeGCF_002352505Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length230 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 230 aa (80.4%)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 aa230 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
152-226 aa · 75 aa · 32.6% of protein
Raw token
Trans_reg_C:152:2.79e-22:226:76:77- Raw architecture: Response_reg:5:9.51e-25:114:111:111#Trans_reg_C:152:2.79e-22:226:76:77
- 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_002352505::NZ_JCKF01000061.1::G00034
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3939-5645Genomic interval covered by the local TCS group.
Identifiers
Old locus tagV439_12235RefSeq proteinWP_003422602.1
Context group ID
GCF_002352505::NZ_JCKF01000061.1::G00034Context members
V439_RS12390V439_RS12395
Partner locus tags
V439_RS12390V439_RS12395
Partner old locus tags
V439_12235V439_12240
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003422602.1Primary protein accession used for annex mappings.
UniProt accessionD5Q8G5Primary UniProt accession resolved in the annex database.
UniProt IDD5Q8G5_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 tagV439_RS12390Primary locus identifier stored in the genes table.
Old locus tagV439_12235Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JCKF01000061.1Sequence record reported by the local genomic context database.
Genomic interval3 939-4 631 nt693 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span3 939-5 645 ntGCF_002352505::NZ_JCKF01000061.1::G00034
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002352505::NZ_JCKF01000061.1::G00034Graphic 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_JCKF01000061.1All displayed genes belong to this local TCS context.
Neighborhood span3 939-5 645 nt1 707 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 939 nt5 645 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
V439_RS12390GCF_002352505#V439_RS12390
RROmpRCurrent focus
3 939-4 631 nt · Forward (+)
V439_RS12395GCF_002352505#V439_RS12395
HKClassic
4 872-5 645 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0214485Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1200141
Simplified PFAM architecture for RROC_1200141
PFAM domain coverage: 183 / 230 aa (79.6%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[153-226]
- Domain count: 2
- Matched identifier: RROC_1200141
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 153-226 ; Trans_reg_C 153-226
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0214485
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_002352505
AssemblyK40_RF17.1 · Contighaploid
Genome composition3 938 559 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