1 Response_reg#1
7-119 aa · 113 aa · 47.5% of protein
Raw token
Response_reg:7:8.33e-17:119:117:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER35_RS09310
Response regulator LytTR family
Clostridioides difficile · GCF_001972065
ClassRRTypeLytTRLength238 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001972065#BER35_RS09310Stable P2CS identifier used across views.
GenomeGCF_001972065Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length238 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage194 / 238 aa (81.5%)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
139-219 aa · 81 aa · 34.0% of protein
Raw token
LytTR:139:2.66e-18:219:87:98- Raw architecture: Response_reg:7:8.33e-17:119:117:111#LytTR:139:2.66e-18:219:87:98
- 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_001972065::NZ_MTWE01000004.1::G00025
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span1563721-1564437Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER35_001827RefSeq proteinWP_223380663.1
Context group ID
GCF_001972065::NZ_MTWE01000004.1::G00025Context members
BER35_RS09310
Partner locus tags
BER35_RS09310
Partner old locus tags
BER35_001827
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_223380663.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBER35_RS09310Primary locus identifier stored in the genes table.
Old locus tagBER35_001827Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTWE01000004.1Sequence record reported by the local genomic context database.
Genomic interval1 563 721-1 564 437 nt717 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 563 721-1 564 437 ntGCF_001972065::NZ_MTWE01000004.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972065::NZ_MTWE01000004.1::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_MTWE01000004.1All displayed genes belong to this local TCS context.
Neighborhood span1 563 721-1 564 437 nt717 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 563 721 nt1 564 437 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BER35_RS09310GCF_001972065#BER35_RS09310
RRLytTRCurrent focus
1 563 721-1 564 437 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_001972065
AssemblyASM197206v1 · Contighaploid
Genome composition4 057 973 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