1 Response_reg#1
5-112 aa · 108 aa · 48.0% of protein
Raw token
Response_reg:5:6.28e-26:112:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DA422_RS17155
Response regulator OmpR family
Clostridioides difficile · GCF_003597895
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_003597895#DA422_RS17155Stable P2CS identifier used across views.
GenomeGCF_003597895Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length225 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 225 aa (82.2%)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
147-223 aa · 77 aa · 34.2% of protein
Raw token
Trans_reg_C:147:1.15e-29:223:77:77- Raw architecture: Response_reg:5:6.28e-26:112:109:111#Trans_reg_C:147:1.15e-29:223:77:77
- 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 labelpentadGCF_003597895::NZ_CP028525.1::G00052
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span3678970-3684695Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDA422_17155RefSeq proteinWP_009891739.1
Context group ID
GCF_003597895::NZ_CP028525.1::G00052Context members
DA422_RS17135DA422_RS17140DA422_RS17145DA422_RS17150DA422_RS17155
Partner locus tags
DA422_RS17135DA422_RS17140DA422_RS17145DA422_RS17150DA422_RS17155
Partner old locus tags
DA422_17135DA422_17140DA422_17145DA422_17150DA422_17155
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009891739.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N6D2Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N6D2_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 tagDA422_RS17155Primary locus identifier stored in the genes table.
Old locus tagDA422_17155Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP028525.1Sequence record reported by the local genomic context database.
Genomic interval3 684 018-3 684 695 nt678 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 678 970-3 684 695 ntGCF_003597895::NZ_CP028525.1::G00052
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003597895::NZ_CP028525.1::G00052Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpentadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_CP028525.1All displayed genes belong to this local TCS context.
Neighborhood span3 678 970-3 684 695 nt5 726 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 678 970 nt3 684 695 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
DA422_RS17135GCF_003597895#DA422_RS17135
HKClassic
3 678 970-3 680 085 nt · Reverse (-)
DA422_RS17140GCF_003597895#DA422_RS17140
RROmpR
3 680 121-3 680 819 nt · Reverse (-)
DA422_RS17145GCF_003597895#DA422_RS17145
RROmpR
3 681 201-3 681 881 nt · Reverse (-)
DA422_RS17150GCF_003597895#DA422_RS17150
HKClassic
3 681 931-3 683 946 nt · Reverse (-)
DA422_RS17155GCF_003597895#DA422_RS17155
RROmpRCurrent focus
3 684 018-3 684 695 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0216535Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1462539
Simplified PFAM architecture for RROC_1462539
PFAM domain coverage: 185 / 225 aa (82.2%)
1 aa225 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-112] | Trans_reg_C[147-223]
- Domain count: 2
- Matched identifier: RROC_1462539
- Positioned domains: Response_reg 5-112 ; Response_reg 5-112 ; Trans_reg_C 147-223 ; Trans_reg_C 147-223
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0216535
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_003597895
AssemblyASM359789v1 · Chromosomehaploid
Genome composition4 182 371 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 103 · HK 49 · RR 54CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key