1 Response_reg#1
3-112 aa · 110 aa · 48.0% of protein
Raw token
Response_reg:3:7.24e-32:112:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER39_RS03590
Response regulator OmpR family
Clostridioides difficile · GCF_001971905
ClassRRTypeOmpRLength229 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001971905#BER39_RS03590Stable P2CS identifier used across views.
GenomeGCF_001971905Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length229 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 229 aa (81.7%)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 aa229 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
150-226 aa · 77 aa · 33.6% of protein
Raw token
Trans_reg_C:150:3.28e-29:226:77:77- Raw architecture: Response_reg:3:7.24e-32:112:111:111#Trans_reg_C:150:3.28e-29:226:77:77
- 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_001971905::NZ_MTVV01000003.1::G00012
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span549934-551540Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER39_000696RefSeq proteinWP_009895666.1
Context group ID
GCF_001971905::NZ_MTVV01000003.1::G00012Context members
BER39_RS03590BER39_RS03595
Partner locus tags
BER39_RS03590BER39_RS03595
Partner old locus tags
BER39_000696BER39_000697
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009895666.1Primary protein accession used for annex mappings.
UniProt accessionQ189I8Primary UniProt accession resolved in the annex database.
UniProt IDQ189I8_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 tagBER39_RS03590Primary locus identifier stored in the genes table.
Old locus tagBER39_000696Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVV01000003.1Sequence record reported by the local genomic context database.
Genomic interval549 934-550 623 nt690 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span549 934-551 540 ntGCF_001971905::NZ_MTVV01000003.1::G00012
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001971905::NZ_MTVV01000003.1::G00012Graphic 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_MTVV01000003.1All displayed genes belong to this local TCS context.
Neighborhood span549 934-551 540 nt1 607 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
549 934 nt551 540 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER39_RS03590GCF_001971905#BER39_RS03590
RROmpRCurrent focus
549 934-550 623 nt · Forward (+)
BER39_RS03595GCF_001971905#BER39_RS03595
HKClassic
550 623-551 540 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS03780Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1246159
Simplified PFAM architecture for RROC_1246159
PFAM domain coverage: 184 / 229 aa (80.3%)
1 aa229 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[3-112] | Trans_reg_C[153-226]
- Domain count: 2
- Matched identifier: RROC_1246159
- Positioned domains: Response_reg 3-112 ; Response_reg 3-112 ; Trans_reg_C 153-226 ; Trans_reg_C 153-226
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS03780
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001971905
AssemblyASM197190v1 · Contighaploid
Genome composition4 103 183 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 98 · HK 47 · RR 51CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key