1 Response_reg#1
3-112 aa · 110 aa · 51.2% of protein
Raw token
Response_reg:3:5.74e-33:112:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
V439_RS11080
Response regulator OmpR family
Clostridioides difficile · GCF_002352505
ClassRRTypeOmpRLength215 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002352505#V439_RS11080Stable 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 length215 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage182 / 215 aa (84.7%)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
139-210 aa · 72 aa · 33.5% of protein
Raw token
Trans_reg_C:139:1.21e-27:210:77:77- Raw architecture: Response_reg:3:5.74e-33:112:111:111#Trans_reg_C:139:1.21e-27:210:77:77
- 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_002352505::NZ_JCKF01000057.1::G00030
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span146-2180Genomic interval covered by the local TCS group.
Identifiers
Old locus tagV439_10915RefSeq proteinWP_003417836.1
Context group ID
GCF_002352505::NZ_JCKF01000057.1::G00030Context members
V439_RS11075V439_RS11080
Partner locus tags
V439_RS11075V439_RS11080
Partner old locus tags
V439_10910V439_10915
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003417836.1Primary protein accession used for annex mappings.
UniProt accessionD5Q0A1Primary UniProt accession resolved in the annex database.
UniProt IDD5Q0A1_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_RS11080Primary locus identifier stored in the genes table.
Old locus tagV439_10915Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JCKF01000057.1Sequence record reported by the local genomic context database.
Genomic interval1 533-2 180 nt648 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span146-2 180 ntGCF_002352505::NZ_JCKF01000057.1::G00030
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002352505::NZ_JCKF01000057.1::G00030Graphic 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_JCKF01000057.1All displayed genes belong to this local TCS context.
Neighborhood span146-2 180 nt2 035 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
146 nt2 180 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
V439_RS11075GCF_002352505#V439_RS11075
HKClassic
146-1 540 nt · Reverse (-)
V439_RS11080GCF_002352505#V439_RS11080
RROmpRCurrent focus
1 533-2 180 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0202460Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1906740
Simplified PFAM architecture for RROC_1906740
PFAM domain coverage: 179 / 215 aa (83.3%)
1 aa215 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[3-110] | Trans_reg_C[140-210]
- Domain count: 2
- Matched identifier: RROC_1906740
- Positioned domains: Response_reg 3-110 ; Response_reg 3-110 ; Trans_reg_C 140-210 ; Trans_reg_C 140-210
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0202460
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