1 Response_reg#1
5-114 aa · 110 aa · 46.2% of protein
Raw token
Response_reg:5:7.77e-34:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER37_RS12040
Response regulator OmpR family
Clostridioides difficile · GCF_001972195
ClassRRTypeOmpRLength238 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001972195#BER37_RS12040Stable P2CS identifier used across views.
GenomeGCF_001972195Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
157-233 aa · 77 aa · 32.4% of protein
Raw token
Trans_reg_C:157:1.95e-30:233:77:77- Raw architecture: Response_reg:5:7.77e-34:114:111:111#Trans_reg_C:157:1.95e-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_001972195::NZ_MTWI01000002.1::G00039
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span62458-64735Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER37_002375RefSeq proteinWP_003430693.1
Context group ID
GCF_001972195::NZ_MTWI01000002.1::G00039Context members
BER37_RS12040BER37_RS12045
Partner locus tags
BER37_RS12040BER37_RS12045
Partner old locus tags
BER37_002375BER37_002376
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003430693.1Primary protein accession used for annex mappings.
UniProt accessionA0A9P3TWF8Primary UniProt accession resolved in the annex database.
UniProt IDA0A9P3TWF8_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBER37_RS12040Primary locus identifier stored in the genes table.
Old locus tagBER37_002375Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTWI01000002.1Sequence record reported by the local genomic context database.
Genomic interval62 458-63 174 nt717 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span62 458-64 735 ntGCF_001972195::NZ_MTWI01000002.1::G00039
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972195::NZ_MTWI01000002.1::G00039Graphic 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_MTWI01000002.1All displayed genes belong to this local TCS context.
Neighborhood span62 458-64 735 nt2 278 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
62 458 nt64 735 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER37_RS12040GCF_001972195#BER37_RS12040
RROmpRCurrent focus
62 458-63 174 nt · Forward (+)
BER37_RS12045GCF_001972195#BER37_RS12045
HKClassic
63 143-64 735 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000210395#CDM68_RS11880Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0932871
Simplified PFAM architecture for RROC_0932871
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_0932871
- 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_000210395#CDM68_RS11880
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001972195
AssemblyASM197219v1 · Contighaploid
Genome composition4 278 990 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 100 · HK 48 · RR 52CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key