1 Response_reg#1
12-124 aa · 113 aa · 46.5% of protein
Raw token
Response_reg:12:0.0000000000000485:124:117:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
A4Y25_RS02015
Response regulator LytTR family
Clostridioides difficile · GCF_900013115
ClassRRTypeLytTRLength243 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_900013115#A4Y25_RS02015Stable P2CS identifier used across views.
GenomeGCF_900013115Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 LytTR#2
144-224 aa · 81 aa · 33.3% of protein
Raw token
LytTR:144:4.9e-18:224:87:98- Raw architecture: Response_reg:12:0.0000000000000485:124:117:111#LytTR:144:4.9e-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_900013115::NZ_FAFF01000002.1::G00004
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span24500-25231Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_900013115::NZ_FAFF01000002.1::G00004Context members
A4Y25_RS02015
Partner locus tags
A4Y25_RS02015
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004454401.1Primary protein accession used for annex mappings.
UniProt accessionA0AAN5VMG8Primary UniProt accession resolved in the annex database.
UniProt IDA0AAN5VMG8_CLODIDisplay 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 tagA4Y25_RS02015Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_FAFF01000002.1Sequence record reported by the local genomic context database.
Genomic interval24 500-25 231 nt732 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span24 500-25 231 ntGCF_900013115::NZ_FAFF01000002.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_900013115::NZ_FAFF01000002.1::G00004Graphic 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_FAFF01000002.1All displayed genes belong to this local TCS context.
Neighborhood span24 500-25 231 nt732 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
24 500 nt25 231 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
A4Y25_RS02015GCF_900013115#A4Y25_RS02015
RRLytTRCurrent focus
24 500-25 231 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_002302125#BGU89_RS17295Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0758747
Simplified PFAM architecture for RROC_0758747
PFAM domain coverage: 197 / 247 aa (79.8%)
1 aa247 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[16-127] | LytTR[150-234]
- Domain count: 2
- Matched identifier: RROC_0758747
- Positioned domains: Response_reg 16-127 ; Response_reg 16-127 ; LytTR 150-234 ; LytTR 150-234
Cluster members and taxonomy
Representative gene: GCF_002302125#BGU89_RS17295
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_900013115
AssemblyPeptoclostridium difficile · Contighaploid
Genome composition4 123 326 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 95 · HK 46 · 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