1 Response_reg#1
4-108 aa · 105 aa · 44.5% of protein
Raw token
Response_reg:4:1.21e-22:108:108:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
V439_RS00355
Response regulator LytTR family
Clostridioides difficile · GCF_002352505
ClassRRTypeLytTRLength236 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_002352505#V439_RS00355Stable P2CS identifier used across views.
GenomeGCF_002352505Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length236 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage192 / 236 aa (81.4%)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
141-227 aa · 87 aa · 36.9% of protein
Raw token
LytTR:141:4.97e-19:227:93:98- Raw architecture: Response_reg:4:1.21e-22:108:108:111#LytTR:141:4.97e-19:227:93:98
- 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_002352505::NZ_JCKF01000004.1::G00054
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span15019-15729Genomic interval covered by the local TCS group.
Identifiers
Old locus tagV439_18250RefSeq proteinWP_003432343.1
Context group ID
GCF_002352505::NZ_JCKF01000004.1::G00054Context members
V439_RS00355
Partner locus tags
V439_RS00355
Partner old locus tags
V439_18250
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003432343.1Primary protein accession used for annex mappings.
UniProt accessionD5Q7M7Primary UniProt accession resolved in the annex database.
UniProt IDD5Q7M7_CLODIDisplay identifier provided by UniProt.
GO / PubMed2 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagV439_RS00355Primary locus identifier stored in the genes table.
Old locus tagV439_18250Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JCKF01000004.1Sequence record reported by the local genomic context database.
Genomic interval15 019-15 729 nt711 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span15 019-15 729 ntGCF_002352505::NZ_JCKF01000004.1::G00054
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002352505::NZ_JCKF01000004.1::G00054Graphic 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_JCKF01000004.1All displayed genes belong to this local TCS context.
Neighborhood span15 019-15 729 nt711 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
15 019 nt15 729 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
V439_RS00355GCF_002352505#V439_RS00355
RRLytTRCurrent focus
15 019-15 729 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS17315Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0988195
Simplified PFAM architecture for RROC_0988195
PFAM domain coverage: 194 / 236 aa (82.2%)
1 aa236 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-110] | LytTR[141-227]
- Domain count: 2
- Matched identifier: RROC_0988195
- Positioned domains: Response_reg 4-110 ; Response_reg 4-110 ; LytTR 141-227 ; LytTR 141-227
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS17315
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_002352505
AssemblyK40_RF17.1 · Contighaploid
Genome composition3 938 559 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 97 · HK 48 · 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