1 Response_reg#1
4-112 aa · 109 aa · 48.9% of protein
Raw token
Response_reg:4:1.73e-30:112:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ITJ18_RS05985
Response regulator OmpR family
Clostridioides difficile · GCF_015352355
ClassRRTypeOmpRLength223 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_015352355#ITJ18_RS05985Stable P2CS identifier used across views.
GenomeGCF_015352355Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length223 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage184 / 223 aa (82.5%)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 aa223 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
145-219 aa · 75 aa · 33.6% of protein
Raw token
Trans_reg_C:145:3.76e-28:219:75:77- Raw architecture: Response_reg:4:1.73e-30:112:110:111#Trans_reg_C:145:3.76e-28:219:75:77
- 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_015352355::NZ_JADKRA010000019.1::G00020
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span13566-15147Genomic interval covered by the local TCS group.
Identifiers
Old locus tagITJ18_05990RefSeq proteinWP_009889923.1
Context group ID
GCF_015352355::NZ_JADKRA010000019.1::G00020Context members
ITJ18_RS05985ITJ18_RS05990
Partner locus tags
ITJ18_RS05985ITJ18_RS05990
Partner old locus tags
ITJ18_05990ITJ18_05995
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009889923.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N3Y7Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N3Y7_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 tagITJ18_RS05985Primary locus identifier stored in the genes table.
Old locus tagITJ18_05990Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JADKRA010000019.1Sequence record reported by the local genomic context database.
Genomic interval13 566-14 237 nt672 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span13 566-15 147 ntGCF_015352355::NZ_JADKRA010000019.1::G00020
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015352355::NZ_JADKRA010000019.1::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_JADKRA010000019.1All displayed genes belong to this local TCS context.
Neighborhood span13 566-15 147 nt1 582 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
13 566 nt15 147 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
ITJ18_RS05985GCF_015352355#ITJ18_RS05985
RROmpRCurrent focus
13 566-14 237 nt · Forward (+)
ITJ18_RS05990GCF_015352355#ITJ18_RS05990
HKClassic
14 239-15 147 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0209890Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1586788
Simplified PFAM architecture for RROC_1586788
PFAM domain coverage: 183 / 223 aa (82.1%)
1 aa223 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[145-218]
- Domain count: 2
- Matched identifier: RROC_1586788
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 145-218 ; Trans_reg_C 145-218
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0209890
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_015352355
AssemblyASM1535235v1 · Scaffoldhaploid
Genome composition4 181 959 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 107 · HK 50 · RR 57CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key