1 Response_reg#1
3-111 aa · 109 aa · 48.9% of protein
Raw token
Response_reg:3:5.11e-35:111:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER28_RS09090
Response regulator OmpR family
Clostridioides difficile · GCF_001971835
ClassRRTypeOmpRLength223 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001971835#BER28_RS09090Stable P2CS identifier used across views.
GenomeGCF_001971835Bacteria; 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 coverage184 / 223 aa (82.5%)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
146-220 aa · 75 aa · 33.6% of protein
Raw token
Trans_reg_C:146:5.98e-24:220:76:77- Raw architecture: Response_reg:3:5.11e-35:111:110:111#Trans_reg_C:146:5.98e-24:220:76:77
- 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_001971835::NZ_MTVP01000004.1::G00028
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1734195-1736088Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER28_001781RefSeq proteinWP_009889581.1
Context group ID
GCF_001971835::NZ_MTVP01000004.1::G00028Context members
BER28_RS09090BER28_RS09095
Partner locus tags
BER28_RS09090BER28_RS09095
Partner old locus tags
BER28_001781BER28_001782
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009889581.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N3D2Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N3D2_CLODCDisplay 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 tagBER28_RS09090Primary locus identifier stored in the genes table.
Old locus tagBER28_001781Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVP01000004.1Sequence record reported by the local genomic context database.
Genomic interval1 734 195-1 734 866 nt672 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 734 195-1 736 088 ntGCF_001971835::NZ_MTVP01000004.1::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001971835::NZ_MTVP01000004.1::G00028Graphic 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_MTVP01000004.1All displayed genes belong to this local TCS context.
Neighborhood span1 734 195-1 736 088 nt1 894 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 734 195 nt1 736 088 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER28_RS09090GCF_001971835#BER28_RS09090
RROmpRCurrent focus
1 734 195-1 734 866 nt · Forward (+)
BER28_RS09095GCF_001971835#BER28_RS09095
HKClassic
1 734 856-1 736 088 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0208730Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1586787
Simplified PFAM architecture for RROC_1586787
PFAM domain coverage: 184 / 223 aa (82.5%)
1 aa223 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[3-111] | Trans_reg_C[146-220]
- Domain count: 2
- Matched identifier: RROC_1586787
- Positioned domains: Response_reg 3-111 ; Response_reg 3-111 ; Trans_reg_C 146-220 ; Trans_reg_C 146-220
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0208730
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001971835
AssemblyASM197183v1 · Contighaploid
Genome composition4 189 946 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 106 · HK 50 · 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