1 Response_reg#1
4-112 aa · 109 aa · 47.4% of protein
Raw token
Response_reg:4:2.71e-32:112:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
E5F39_RS02655
Response regulator OmpR family
Clostridioides difficile · GCF_004684515
ClassRRTypeOmpRLength230 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004684515#E5F39_RS02655Stable P2CS identifier used across views.
GenomeGCF_004684515Bacteria; 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 coverage186 / 230 aa (80.9%)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
150-226 aa · 77 aa · 33.5% of protein
Raw token
Trans_reg_C:150:4.01e-30:226:77:77- Raw architecture: Response_reg:4:2.71e-32:112:110:111#Trans_reg_C:150:4.01e-30:226:77:77
- 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_004684515::NZ_SRKF01000030.1::G00022
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span54932-56556Genomic interval covered by the local TCS group.
Identifiers
Old locus tagE5F39_02655RefSeq proteinWP_009888625.1
Context group ID
GCF_004684515::NZ_SRKF01000030.1::G00022Context members
E5F39_RS02650E5F39_RS02655
Partner locus tags
E5F39_RS02650E5F39_RS02655
Partner old locus tags
E5F39_02650E5F39_02655
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009888625.1Primary protein accession used for annex mappings.
UniProt accessionQ18A17Primary UniProt accession resolved in the annex database.
UniProt IDQ18A17_CLOD6Display 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 tagE5F39_RS02655Primary locus identifier stored in the genes table.
Old locus tagE5F39_02655Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SRKF01000030.1Sequence record reported by the local genomic context database.
Genomic interval55 864-56 556 nt693 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span54 932-56 556 ntGCF_004684515::NZ_SRKF01000030.1::G00022
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004684515::NZ_SRKF01000030.1::G00022Graphic 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_SRKF01000030.1All displayed genes belong to this local TCS context.
Neighborhood span54 932-56 556 nt1 625 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
54 932 nt56 556 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
E5F39_RS02650GCF_004684515#E5F39_RS02650
HKClassic
54 932-55 867 nt · Reverse (-)
E5F39_RS02655GCF_004684515#E5F39_RS02655
RROmpRCurrent focus
55 864-56 556 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0204270Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1199615
Simplified PFAM architecture for RROC_1199615
PFAM domain coverage: 186 / 230 aa (80.9%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[150-226]
- Domain count: 2
- Matched identifier: RROC_1199615
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 150-226 ; Trans_reg_C 150-226
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0204270
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_004684515
AssemblyASM468451v1 · Contighaploid
Genome composition4 354 623 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 103 · HK 49 · RR 53CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key