1 Response_reg#1
4-112 aa · 109 aa · 48.9% of protein
Raw token
Response_reg:4:1.72e-30:112:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
H3U28_RS04115
Response regulator OmpR family
Clostridioides difficile · GCF_025533075
ClassRRTypeOmpRLength223 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_025533075#H3U28_RS04115Stable P2CS identifier used across views.
GenomeGCF_025533075Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length223 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 223 aa (83.4%)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 aa223 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
143-219 aa · 77 aa · 34.5% of protein
Raw token
Trans_reg_C:143:2.77e-28:219:77:77- Raw architecture: Response_reg:4:1.72e-30:112:110:111#Trans_reg_C:143:2.77e-28:219:77:77
- 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_025533075::NZ_JACFVP010000003.1::G00030
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span138387-139968Genomic interval covered by the local TCS group.
Identifiers
Old locus tagH3U28_04105RefSeq proteinWP_009897090.1
Context group ID
GCF_025533075::NZ_JACFVP010000003.1::G00030Context members
H3U28_RS04115H3U28_RS04120
Partner locus tags
H3U28_RS04115H3U28_RS04120
Partner old locus tags
H3U28_04105H3U28_04110
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009897090.1Primary protein accession used for annex mappings.
UniProt accessionQ187R8Primary UniProt accession resolved in the annex database.
UniProt IDQ187R8_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 tagH3U28_RS04115Primary locus identifier stored in the genes table.
Old locus tagH3U28_04105Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JACFVP010000003.1Sequence record reported by the local genomic context database.
Genomic interval138 387-139 058 nt672 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span138 387-139 968 ntGCF_025533075::NZ_JACFVP010000003.1::G00030
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_025533075::NZ_JACFVP010000003.1::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_JACFVP010000003.1All displayed genes belong to this local TCS context.
Neighborhood span138 387-139 968 nt1 582 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
138 387 nt139 968 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
H3U28_RS04115GCF_025533075#H3U28_RS04115
RROmpRCurrent focus
138 387-139 058 nt · Forward (+)
H3U28_RS04120GCF_025533075#H3U28_RS04120
HKClassic
139 060-139 968 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS10600Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1586848
Simplified PFAM architecture for RROC_1586848
PFAM domain coverage: 185 / 223 aa (83.0%)
1 aa223 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[143-218]
- Domain count: 2
- Matched identifier: RROC_1586848
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 143-218 ; Trans_reg_C 143-218
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS10600
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_025533075
AssemblyASM2553307v1 · Scaffoldhaploid
Genome composition4 208 684 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 107 · HK 51 · RR 55CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key