1 Response_reg#1
5-114 aa · 110 aa · 48.7% of protein
Raw token
Response_reg:5:1.52e-23:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
J4F52_RS04195
Response regulator OmpR family
Clostridioides difficile · GCF_025532225
ClassRRTypeOmpRLength226 aaTM0ValidatedNoCompleteYesContexttriad
Gene IDGCF_025532225#J4F52_RS04195Stable P2CS identifier used across views.
GenomeGCF_025532225Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length226 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage184 / 226 aa (81.4%)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 aa226 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
150-223 aa · 74 aa · 32.7% of protein
Raw token
Trans_reg_C:150:2.26e-22:223:75:77- Raw architecture: Response_reg:5:1.52e-23:114:111:111#Trans_reg_C:150:2.26e-22:223:75:77
- 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 labeltriadGCF_025532225::NZ_JAGDLZ010000007.1::G00015
Group size33 locus tags listed below.
HK / RR1 / 2Counts resolved for the local TCS neighborhood.
Context span309411-312905Genomic interval covered by the local TCS group.
Identifiers
Old locus tagJ4F52_04115RefSeq proteinWP_003432361.1
Context group ID
GCF_025532225::NZ_JAGDLZ010000007.1::G00015Context members
J4F52_RS04185J4F52_RS04190J4F52_RS04195
Partner locus tags
J4F52_RS04185J4F52_RS04190J4F52_RS04195
Partner old locus tags
J4F52_04105J4F52_04110J4F52_04115
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003432361.1Primary protein accession used for annex mappings.
UniProt accessionQ180B0Primary UniProt accession resolved in the annex database.
UniProt IDQ180B0_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 tagJ4F52_RS04195Primary locus identifier stored in the genes table.
Old locus tagJ4F52_04115Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAGDLZ010000007.1Sequence record reported by the local genomic context database.
Genomic interval312 225-312 905 nt681 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span309 411-312 905 ntGCF_025532225::NZ_JAGDLZ010000007.1::G00015
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_025532225::NZ_JAGDLZ010000007.1::G00015Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labeltriadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JAGDLZ010000007.1All displayed genes belong to this local TCS context.
Neighborhood span309 411-312 905 nt3 495 nt
Members31 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
309 411 nt312 905 nt
Neighborhood gene cards
3 genes in the current local neighborhood.
J4F52_RS04185GCF_025532225#J4F52_RS04185
RROmpR
309 411-310 088 nt · Forward (+)
J4F52_RS04190GCF_025532225#J4F52_RS04190
HKClassic
310 160-312 175 nt · Forward (+)
J4F52_RS04195GCF_025532225#J4F52_RS04195
RROmpRCurrent focus
312 225-312 905 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS17365Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1407979
Simplified PFAM architecture for RROC_1407979
PFAM domain coverage: 183 / 226 aa (81.0%)
1 aa226 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[150-223]
- Domain count: 2
- Matched identifier: RROC_1407979
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 150-223 ; Trans_reg_C 150-223
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS17365
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_025532225
AssemblyASM2553222v1 · Scaffoldhaploid
Genome composition4 231 528 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 108 · HK 52 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key