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
CDIF27640_RS13365
Response regulator OmpR family
Clostridioides difficile · GCF_003313585
ClassRRTypeOmpRLength238 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_003313585#CDIF27640_RS13365Stable P2CS identifier used across views.
GenomeGCF_003313585Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
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_003313585::NZ_CP011848.1::G00041
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2805475-2808499Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDIF27640_02657RefSeq proteinWP_009893664.1
Context group ID
GCF_003313585::NZ_CP011848.1::G00041Context members
CDIF27640_RS13360CDIF27640_RS13365
Partner locus tags
CDIF27640_RS13360CDIF27640_RS13365
Partner old locus tags
CDIF27640_02656CDIF27640_02657
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 tagCDIF27640_RS13365Primary locus identifier stored in the genes table.
Old locus tagCDIF27640_02657Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP011848.1Sequence record reported by the local genomic context database.
Genomic interval2 807 783-2 808 499 nt717 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 805 475-2 808 499 ntGCF_003313585::NZ_CP011848.1::G00041
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003313585::NZ_CP011848.1::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_CP011848.1All displayed genes belong to this local TCS context.
Neighborhood span2 805 475-2 808 499 nt3 025 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 805 475 nt2 808 499 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDIF27640_RS13360GCF_003313585#CDIF27640_RS13360
HKClassic
2 805 475-2 807 811 nt · Reverse (-)
CDIF27640_RS13365GCF_003313585#CDIF27640_RS13365
RROmpRCurrent focus
2 807 783-2 808 499 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_003313585
AssemblyASM331358v1 · Complete Genomehaploid
Genome composition4 229 629 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