1 Response_reg#1
4-113 aa · 110 aa · 43.0% of protein
Raw token
Response_reg:4:1.33e-28:113:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HCN89_RS13850
Response regulator LytTR family
Clostridioides difficile · GCF_012952655
ClassRRTypeLytTRLength256 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_012952655#HCN89_RS13850Stable 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 length256 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage208 / 256 aa (81.3%)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 aa256 aa
Domain-by-domain annotation2 items
2 LytTR#2
157-254 aa · 98 aa · 38.3% of protein
Raw token
LytTR:157:6.46e-31:254:98:98- Raw architecture: Response_reg:4:1.33e-28:113:112:111#LytTR:157:6.46e-31:254:98:98
- 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 labelpairedGCF_012952655::NZ_JAATIE010000001.1::G00038
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2943331-2945308Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHCN89_13850RefSeq proteinWP_003416198.1
Context group ID
GCF_012952655::NZ_JAATIE010000001.1::G00038Context members
HCN89_RS13850HCN89_RS13855
Partner locus tags
HCN89_RS13850HCN89_RS13855
Partner old locus tags
HCN89_13850HCN89_13855
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003416198.1Primary protein accession used for annex mappings.
UniProt accessionD5Q244Primary UniProt accession resolved in the annex database.
UniProt IDD5Q244_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_RS13850Primary locus identifier stored in the genes table.
Old locus tagHCN89_13850Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAATIE010000001.1Sequence record reported by the local genomic context database.
Genomic interval2 943 331-2 944 101 nt771 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 943 331-2 945 308 ntGCF_012952655::NZ_JAATIE010000001.1::G00038
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_012952655::NZ_JAATIE010000001.1::G00038Graphic 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_JAATIE010000001.1All displayed genes belong to this local TCS context.
Neighborhood span2 943 331-2 945 308 nt1 978 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 943 331 nt2 945 308 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HCN89_RS13850GCF_012952655#HCN89_RS13850
RRLytTRCurrent focus
2 943 331-2 944 101 nt · Reverse (-)
HCN89_RS13855GCF_012952655#HCN89_RS13855
HKClassic
2 944 106-2 945 308 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0212810Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0673144
Simplified PFAM architecture for RROC_0673144
PFAM domain coverage: 206 / 256 aa (80.5%)
1 aa256 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-112] | LytTR[157-253]
- Domain count: 2
- Matched identifier: RROC_0673144
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; LytTR 157-253 ; LytTR 157-253
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0212810
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