1 Response_reg#1
4-114 aa · 111 aa · 45.3% of protein
Raw token
Response_reg:4:8.68e-23:114:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDIF28668_RS02355
Response regulator LytTR family
Clostridioides difficile · GCF_003490105
ClassRRTypeLytTRLength245 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_003490105#CDIF28668_RS02355Stable P2CS identifier used across views.
GenomeGCF_003490105Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length245 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage190 / 245 aa (77.6%)Merged over positioned domains only.
Domain description1 Response_reg,1 LytTRSummary 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 LytTR#2
142-220 aa · 79 aa · 32.2% of protein
Raw token
LytTR:142:0.00000000000000845:220:80:98- Raw architecture: Response_reg:4:8.68e-23:114:113:111#LytTR:142:0.00000000000000845:220:80:98
- Domain description: 1 Response_reg,1 LytTR
- 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 labelorphanGCF_003490105::NZ_CP012309.1::G00003
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span427096-427833Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDIF28668_00473RefSeq proteinWP_003434827.1
Context group ID
GCF_003490105::NZ_CP012309.1::G00003Context members
CDIF28668_RS02355
Partner locus tags
CDIF28668_RS02355
Partner old locus tags
CDIF28668_00473
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003434827.1Primary protein accession used for annex mappings.
UniProt accessionQ18D78Primary UniProt accession resolved in the annex database.
UniProt IDQ18D78_CLOD6Display identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCDIF28668_RS02355Primary locus identifier stored in the genes table.
Old locus tagCDIF28668_00473Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP012309.1Sequence record reported by the local genomic context database.
Genomic interval427 096-427 833 nt738 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span427 096-427 833 ntGCF_003490105::NZ_CP012309.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003490105::NZ_CP012309.1::G00003Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_CP012309.1All displayed genes belong to this local TCS context.
Neighborhood span427 096-427 833 nt738 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
427 096 nt427 833 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
CDIF28668_RS02355GCF_003490105#CDIF28668_RS02355
RRLytTRCurrent focus
427 096-427 833 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS02245Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0789290
Simplified PFAM architecture for RROC_0789290
PFAM domain coverage: 203 / 245 aa (82.9%)
1 aa245 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-113] | LytTR[143-235]
- Domain count: 2
- Matched identifier: RROC_0789290
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; LytTR 143-235 ; LytTR 143-235
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS02245
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_003490105
AssemblyASM349010v1 · Complete Genomehaploid
Genome composition4 214 812 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 101 · HK 48 · RR 53CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key