1 Response_reg#1
12-124 aa · 113 aa · 46.5% of protein
Raw token
Response_reg:12:7.38e-17:124:117:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HCN89_RS09620
Response regulator LytTR family
Clostridioides difficile · GCF_012952655
ClassRRTypeLytTRLength243 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_012952655#HCN89_RS09620Stable P2CS identifier used across views.
GenomeGCF_012952655Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length243 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage194 / 243 aa (79.8%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa243 aa
Domain-by-domain annotation2 items
2 LytTR#2
144-224 aa · 81 aa · 33.3% of protein
Raw token
LytTR:144:3.41e-18:224:87:98- Raw architecture: Response_reg:12:7.38e-17:124:117:111#LytTR:144:3.41e-18:224:87:98
- 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_012952655::NZ_JAATIE010000001.1::G00025
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span2008148-2008879Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHCN89_09620RefSeq proteinWP_003423659.1
Context group ID
GCF_012952655::NZ_JAATIE010000001.1::G00025Context members
HCN89_RS09620
Partner locus tags
HCN89_RS09620
Partner old locus tags
HCN89_09620
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003423659.1Primary protein accession used for annex mappings.
UniProt accessionA0AAX3H492Primary UniProt accession resolved in the annex database.
UniProt IDA0AAX3H492_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 tagHCN89_RS09620Primary locus identifier stored in the genes table.
Old locus tagHCN89_09620Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAATIE010000001.1Sequence record reported by the local genomic context database.
Genomic interval2 008 148-2 008 879 nt732 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 008 148-2 008 879 ntGCF_012952655::NZ_JAATIE010000001.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_012952655::NZ_JAATIE010000001.1::G00025Graphic 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_JAATIE010000001.1All displayed genes belong to this local TCS context.
Neighborhood span2 008 148-2 008 879 nt732 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 008 148 nt2 008 879 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
HCN89_RS09620GCF_012952655#HCN89_RS09620
RRLytTRCurrent focus
2 008 148-2 008 879 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164655#HMPREF0219_RS05535Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0824839
Simplified PFAM architecture for RROC_0824839
PFAM domain coverage: 197 / 243 aa (81.1%)
1 aa243 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[12-123] | LytTR[146-230]
- Domain count: 2
- Matched identifier: RROC_0824839
- Positioned domains: Response_reg 12-123 ; Response_reg 12-123 ; LytTR 146-230 ; LytTR 146-230
Cluster members and taxonomy
Representative gene: GCF_000164655#HMPREF0219_RS05535
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_012952655
AssemblyASM1295265v1 · Contighaploid
Genome composition4 226 733 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 96 · HK 48 · RR 48CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key