1 Response_reg#1
4-116 aa · 113 aa · 47.7% of protein
Raw token
Response_reg:4:1.91e-18:116:116:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0220_RS06315
Response regulator LytTR family
Clostridioides difficile NAP08 · GCF_000164175
ClassRRTypeLytTRLength237 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000164175#HMPREF0220_RS06315Stable P2CS identifier used across views.
GenomeGCF_000164175Bacteria; 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:137:2.57e-23:228:97:98- Raw architecture: Response_reg:4:1.91e-18:116:116:111#LytTR:137:2.57e-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_000164175::NZ_GG770713.1::G00004
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span64085-64798Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0220_2084RefSeq proteinWP_003418978.1
Context group ID
GCF_000164175::NZ_GG770713.1::G00004Context members
HMPREF0220_RS06315
Partner locus tags
HMPREF0220_RS06315
Partner old locus tags
HMPREF0220_2084
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003418978.1Primary protein accession used for annex mappings.
UniProt accessionD5Q5A2Primary UniProt accession resolved in the annex database.
UniProt IDD5Q5A2_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 tagHMPREF0220_RS06315Primary locus identifier stored in the genes table.
Old locus tagHMPREF0220_2084Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770713.1Sequence record reported by the local genomic context database.
Genomic interval64 085-64 798 nt714 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span64 085-64 798 ntGCF_000164175::NZ_GG770713.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164175::NZ_GG770713.1::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_GG770713.1All displayed genes belong to this local TCS context.
Neighborhood span64 085-64 798 nt714 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
64 085 nt64 798 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
HMPREF0220_RS06315GCF_000164175#HMPREF0220_RS06315
RRLytTRCurrent focus
64 085-64 798 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0205380Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0961606
Simplified PFAM architecture for RROC_0961606
PFAM domain coverage: 204 / 237 aa (86.1%)
1 aa237 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-116] | LytTR[138-228]
- Domain count: 2
- Matched identifier: RROC_0961606
- Positioned domains: Response_reg 4-116 ; Response_reg 4-116 ; LytTR 138-228 ; LytTR 138-228
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0205380
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 525 259 · GCF_000164175
AssemblyASM16417v1 · Scaffoldhaploid
Genome composition4 078 686 bp · 29,0% GCClostridioides difficile NAP08
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