1 Response_reg#1
5-114 aa · 110 aa · 47.8% of protein
Raw token
Response_reg:5:9.8e-25:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ITJ13_RS00875
Response regulator OmpR family
Clostridioides difficile · GCF_015352195
ClassRRTypeOmpRLength230 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_015352195#ITJ13_RS00875Stable P2CS identifier used across views.
GenomeGCF_015352195Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
151-226 aa · 76 aa · 33.0% of protein
Raw token
Trans_reg_C:151:1.04e-23:226:77:77- Raw architecture: Response_reg:5:9.8e-25:114:111:111#Trans_reg_C:151:1.04e-23:226:77:77
- 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_015352195::NZ_JADKQS010000002.1::G00020
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span56061-57767Genomic interval covered by the local TCS group.
Identifiers
Old locus tagITJ13_00870RefSeq proteinWP_003429090.1
Context group ID
GCF_015352195::NZ_JADKQS010000002.1::G00020Context members
ITJ13_RS00875ITJ13_RS00880
Partner locus tags
ITJ13_RS00875ITJ13_RS00880
Partner old locus tags
ITJ13_00870ITJ13_00875
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003429090.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N5F5Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N5F5_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 tagITJ13_RS00875Primary locus identifier stored in the genes table.
Old locus tagITJ13_00870Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JADKQS010000002.1Sequence record reported by the local genomic context database.
Genomic interval56 061-56 753 nt693 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span56 061-57 767 ntGCF_015352195::NZ_JADKQS010000002.1::G00020
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015352195::NZ_JADKQS010000002.1::G00020Graphic 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_JADKQS010000002.1All displayed genes belong to this local TCS context.
Neighborhood span56 061-57 767 nt1 707 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
56 061 nt57 767 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
ITJ13_RS00875GCF_015352195#ITJ13_RS00875
RROmpRCurrent focus
56 061-56 753 nt · Forward (+)
ITJ13_RS00880GCF_015352195#ITJ13_RS00880
HKClassic
56 994-57 767 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0214850Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1199618
Simplified PFAM architecture for RROC_1199618
PFAM domain coverage: 185 / 230 aa (80.4%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[151-226]
- Domain count: 2
- Matched identifier: RROC_1199618
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 151-226 ; Trans_reg_C 151-226
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0214850
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_015352195
AssemblyASM1535219v1 · Scaffoldhaploid
Genome composition4 177 894 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 94 · HK 45 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key