1 Response_reg#1
6-115 aa · 110 aa · 46.2% of protein
Raw token
Response_reg:6:5.92e-34:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER28_RS13300
Response regulator OmpR family
Clostridioides difficile · GCF_001971835
ClassRRTypeOmpRLength238 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001971835#BER28_RS13300Stable 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 length238 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 238 aa (78.2%)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 aa238 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
160-235 aa · 76 aa · 31.9% of protein
Raw token
Trans_reg_C:160:2.1e-29:235:77:77- Raw architecture: Response_reg:6:5.92e-34:115:111:111#Trans_reg_C:160:2.1e-29:235:77:77
- 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_001971835::NZ_MTVP01000004.1::G00041
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2658444-2661468Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER28_002613RefSeq proteinWP_009893664.1
Context group ID
GCF_001971835::NZ_MTVP01000004.1::G00041Context members
BER28_RS13295BER28_RS13300
Partner locus tags
BER28_RS13295BER28_RS13300
Partner old locus tags
BER28_002612BER28_002613
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009893664.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N4H4Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N4H4_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_RS13300Primary locus identifier stored in the genes table.
Old locus tagBER28_002613Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVP01000004.1Sequence record reported by the local genomic context database.
Genomic interval2 660 752-2 661 468 nt717 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 658 444-2 661 468 ntGCF_001971835::NZ_MTVP01000004.1::G00041
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001971835::NZ_MTVP01000004.1::G00041Graphic 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 span2 658 444-2 661 468 nt3 025 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 658 444 nt2 661 468 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER28_RS13295GCF_001971835#BER28_RS13295
HKClassic
2 658 444-2 660 780 nt · Reverse (-)
BER28_RS13300GCF_001971835#BER28_RS13300
RROmpRCurrent focus
2 660 752-2 661 468 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0212975Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0932196
Simplified PFAM architecture for RROC_0932196
PFAM domain coverage: 183 / 238 aa (76.9%)
1 aa238 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[6-114] | Trans_reg_C[161-234]
- Domain count: 2
- Matched identifier: RROC_0932196
- Positioned domains: Response_reg 6-114 ; Response_reg 6-114 ; Trans_reg_C 161-234 ; Trans_reg_C 161-234
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0212975
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