1 Response_reg#1
4-112 aa · 109 aa · 47.4% of protein
Raw token
Response_reg:4:2.6e-32:112:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SIK40_RS03020
Response regulator OmpR family
Clostridioides difficile · GCF_033840485
ClassRRTypeOmpRLength230 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_033840485#SIK40_RS03020Stable P2CS identifier used across views.
GenomeGCF_033840485Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length230 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 230 aa (80.9%)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 aa230 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
150-226 aa · 77 aa · 33.5% of protein
Raw token
Trans_reg_C:150:8.44e-30:226:77:77- Raw architecture: Response_reg:4:2.6e-32:112:110:111#Trans_reg_C:150:8.44e-30:226:77:77
- 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_033840485::NZ_JAWXRN010000029.1::G00019
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span7325-8949Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSIK40_03020RefSeq proteinWP_016728725.1
Context group ID
GCF_033840485::NZ_JAWXRN010000029.1::G00019Context members
SIK40_RS03020SIK40_RS03025
Partner locus tags
SIK40_RS03020SIK40_RS03025
Partner old locus tags
SIK40_03020SIK40_03025
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_016728725.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSIK40_RS03020Primary locus identifier stored in the genes table.
Old locus tagSIK40_03020Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAWXRN010000029.1Sequence record reported by the local genomic context database.
Genomic interval7 325-8 017 nt693 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span7 325-8 949 ntGCF_033840485::NZ_JAWXRN010000029.1::G00019
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_033840485::NZ_JAWXRN010000029.1::G00019Graphic 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_JAWXRN010000029.1All displayed genes belong to this local TCS context.
Neighborhood span7 325-8 949 nt1 625 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
7 325 nt8 949 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
SIK40_RS03020GCF_033840485#SIK40_RS03020
RROmpRCurrent focus
7 325-8 017 nt · Forward (+)
SIK40_RS03025GCF_033840485#SIK40_RS03025
HKClassic
8 014-8 949 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000242355#MUI_RS0104840Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1200873
Simplified PFAM architecture for RROC_1200873
PFAM domain coverage: 186 / 230 aa (80.9%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[150-226]
- Domain count: 2
- Matched identifier: RROC_1200873
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 150-226 ; Trans_reg_C 150-226
Cluster members and taxonomy
Representative gene: GCF_000242355#MUI_RS0104840
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_033840485
AssemblyASM3384048v1 · Contighaploid
Genome composition3 931 618 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 91 · HK 39 · RR 49CheA 1 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key