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
BER38_RS03980
Response regulator OmpR family
Clostridioides difficile · GCF_001972105
ClassRRTypeOmpRLength229 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001972105#BER38_RS03980Stable P2CS identifier used across views.
GenomeGCF_001972105Bacteria; 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_001972105::NZ_MTVZ01000001.1::G00012
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span751936-753542Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER38_000775RefSeq proteinWP_009895666.1
Context group ID
GCF_001972105::NZ_MTVZ01000001.1::G00012Context members
BER38_RS03980BER38_RS03985
Partner locus tags
BER38_RS03980BER38_RS03985
Partner old locus tags
BER38_000775BER38_000776
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 tagBER38_RS03980Primary locus identifier stored in the genes table.
Old locus tagBER38_000775Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVZ01000001.1Sequence record reported by the local genomic context database.
Genomic interval751 936-752 625 nt690 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span751 936-753 542 ntGCF_001972105::NZ_MTVZ01000001.1::G00012
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972105::NZ_MTVZ01000001.1::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_MTVZ01000001.1All displayed genes belong to this local TCS context.
Neighborhood span751 936-753 542 nt1 607 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
751 936 nt753 542 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER38_RS03980GCF_001972105#BER38_RS03980
RROmpRCurrent focus
751 936-752 625 nt · Forward (+)
BER38_RS03985GCF_001972105#BER38_RS03985
HKClassic
752 625-753 542 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_001972105
AssemblyASM197210v1 · Contighaploid
Genome composition4 200 115 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 97 · HK 47 · RR 50CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key