1 Response_reg#1
4-116 aa · 113 aa · 47.9% of protein
Raw token
Response_reg:4:5.55e-16:116:116:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9945_RS05325
Response regulator LytTR family
Clostridioides difficile 70-100-2010 · GCF_000235905
ClassRRTypeLytTRLength236 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000235905#HMPREF9945_RS05325Stable P2CS identifier used across views.
GenomeGCF_000235905Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length236 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage202 / 236 aa (85.6%)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
139-227 aa · 89 aa · 37.7% of protein
Raw token
LytTR:139:2.78e-21:227:95:98- Raw architecture: Response_reg:4:5.55e-16:116:116:111#LytTR:139:2.78e-21:227:95:98
- 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_000235905::NZ_JH379312.1::G00035
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span1183-1893Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9945_02626RefSeq proteinWP_003439052.1
Context group ID
GCF_000235905::NZ_JH379312.1::G00035Context members
HMPREF9945_RS05325
Partner locus tags
HMPREF9945_RS05325
Partner old locus tags
HMPREF9945_02626
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_003439052.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF9945_RS05325Primary locus identifier stored in the genes table.
Old locus tagHMPREF9945_02626Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JH379312.1Sequence record reported by the local genomic context database.
Genomic interval1 183-1 893 nt711 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 183-1 893 ntGCF_000235905::NZ_JH379312.1::G00035
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000235905::NZ_JH379312.1::G00035Graphic 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_JH379312.1All displayed genes belong to this local TCS context.
Neighborhood span1 183-1 893 nt711 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 183 nt1 893 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
HMPREF9945_RS05325GCF_000235905#HMPREF9945_RS05325
RRLytTRCurrent focus
1 183-1 893 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000235905#HMPREF9945_RS05325The current gene is the representative for this cluster.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0988884
Simplified PFAM architecture for RROC_0988884
PFAM domain coverage: 201 / 236 aa (85.2%)
1 aa236 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-116] | LytTR[140-227]
- Domain count: 2
- Matched identifier: RROC_0988884
- Positioned domains: Response_reg 4-116 ; Response_reg 4-116 ; LytTR 140-227 ; LytTR 140-227
Cluster members and taxonomy
Representative gene: GCF_000235905#HMPREF9945_RS05325
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 002 369 · GCF_000235905
AssemblyASM23590v1 · Scaffoldhaploid
Genome composition4 008 217 bp · 28,5% GCClostridioides difficile 70-100-2010
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