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
HMPREF0219_RS10250
Response regulator LytTR family
Clostridioides difficile NAP07 · GCF_000164655
ClassRRTypeLytTRLength256 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000164655#HMPREF0219_RS10250Stable P2CS identifier used across views.
GenomeGCF_000164655Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
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_000164655::NZ_GG770747.1::G00026
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span106195-108172Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0219_0879RefSeq proteinWP_003416198.1
Context group ID
GCF_000164655::NZ_GG770747.1::G00026Context members
HMPREF0219_RS10255HMPREF0219_RS10250
Partner locus tags
HMPREF0219_RS10255HMPREF0219_RS10250
Partner old locus tags
HMPREF0219_0878HMPREF0219_0879
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 tagHMPREF0219_RS10250Primary locus identifier stored in the genes table.
Old locus tagHMPREF0219_0879Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770747.1Sequence record reported by the local genomic context database.
Genomic interval107 402-108 172 nt771 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span106 195-108 172 ntGCF_000164655::NZ_GG770747.1::G00026
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164655::NZ_GG770747.1::G00026Graphic 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_GG770747.1All displayed genes belong to this local TCS context.
Neighborhood span106 195-108 172 nt1 978 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
106 195 nt108 172 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0219_RS10255GCF_000164655#HMPREF0219_RS10255
HKClassic
106 195-107 397 nt · Forward (+)
HMPREF0219_RS10250GCF_000164655#HMPREF0219_RS10250
RRLytTRCurrent focus
107 402-108 172 nt · Forward (+)
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
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 50 over 304 total members. Page 1 / 7.
GCF_000155065#QAE_RS0212810 (representative) | ||||
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 525 258 · GCF_000164655
AssemblyASM16465v1 · Scaffoldhaploid
Genome composition3 905 466 bp · 28,5% GCClostridioides difficile NAP07
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