1 Response_reg#1
4-116 aa · 113 aa · 47.7% of protein
Raw token
Response_reg:4:1.19e-18:116:116:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
AMR89_RS03840
Response regulator LytTR family
Clostridioides difficile · GCF_002891605
ClassRRTypeLytTRLength237 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_002891605#AMR89_RS03840Stable P2CS identifier used across views.
GenomeGCF_002891605Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length237 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage205 / 237 aa (86.5%)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
137-228 aa · 92 aa · 38.8% of protein
Raw token
LytTR:137:3.25e-23:228:97:98- Raw architecture: Response_reg:4:1.19e-18:116:116:111#LytTR:137:3.25e-23:228:97:98
- 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_002891605::NZ_LJCK01000003.1::G00039
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span179536-180249Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_002891605::NZ_LJCK01000003.1::G00039Context members
AMR89_RS03840
Partner locus tags
AMR89_RS03840
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_102814482.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagAMR89_RS03840Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_LJCK01000003.1Sequence record reported by the local genomic context database.
Genomic interval179 536-180 249 nt714 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span179 536-180 249 ntGCF_002891605::NZ_LJCK01000003.1::G00039
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002891605::NZ_LJCK01000003.1::G00039Graphic 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_LJCK01000003.1All displayed genes belong to this local TCS context.
Neighborhood span179 536-180 249 nt714 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
179 536 nt180 249 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
AMR89_RS03840GCF_002891605#AMR89_RS03840
RRLytTRCurrent focus
179 536-180 249 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_002891605#AMR89_RS03840The current gene is the representative for this cluster.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0967405
Simplified PFAM architecture for RROC_0967405
PFAM domain coverage: 203 / 237 aa (85.7%)
1 aa237 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[5-116] | LytTR[138-228]
- Domain count: 2
- Matched identifier: RROC_0967405
- Positioned domains: Response_reg 5-116 ; Response_reg 5-116 ; LytTR 138-228 ; LytTR 138-228
Cluster members and taxonomy
Representative gene: GCF_002891605#AMR89_RS03840
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_002891605
AssemblyASM289160v1 · Scaffoldhaploid
Genome composition4 144 242 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 102 · HK 49 · 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