1 Response_reg#1
9-120 aa · 112 aa · 35.1% of protein
Raw token
Response_reg:9:2.33e-28:120:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
AMR88_RS14150
Response regulator, PleD family
Clostridioides difficile · GCF_002891615
ClassRRTypePleDLength319 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_002891615#AMR88_RS14150Stable P2CS identifier used across views.
GenomeGCF_002891615Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regGGDEF
Protein length319 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage267 / 319 aa (83.7%)Merged over positioned domains only.
Domain description1 Response_reg,1 GGDEFSummary 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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa319 aa
Domain-by-domain annotation2 items
2 GGDEF#2
153-307 aa · 155 aa · 48.6% of protein
Raw token
GGDEF:153:7.11e-48:307:158:160- Raw architecture: Response_reg:9:2.33e-28:120:112:111#GGDEF:153:7.11e-48:307:158:160
- Domain description: 1 Response_reg,1 GGDEF
- 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_002891615::NZ_LJCI01000016.1::G00021
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span57909-58868Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_002891615::NZ_LJCI01000016.1::G00021Context members
AMR88_RS14150
Partner locus tags
AMR88_RS14150
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009895564.1Primary protein accession used for annex mappings.
UniProt accessionQ188Y2Primary UniProt accession resolved in the annex database.
UniProt IDQ188Y2_CLOD6Display identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagAMR88_RS14150Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_LJCI01000016.1Sequence record reported by the local genomic context database.
Genomic interval57 909-58 868 nt960 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span57 909-58 868 ntGCF_002891615::NZ_LJCI01000016.1::G00021
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002891615::NZ_LJCI01000016.1::G00021Graphic 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_LJCI01000016.1All displayed genes belong to this local TCS context.
Neighborhood span57 909-58 868 nt960 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
57 909 nt58 868 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
AMR88_RS14150GCF_002891615#AMR88_RS14150
RRPleDCurrent focus
57 909-58 868 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_033840625#SIK64_RS08865Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GGDEF2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0528365
Simplified PFAM architecture for RROC_0528365
PFAM domain coverage: 266 / 323 aa (82.4%)
1 aa323 aa
Response_regGGDEF
- Simplified architecture: Response_reg + GGDEF
- Raw architecture: Response_reg[13-124] | GGDEF[157-310]
- Domain count: 2
- Matched identifier: RROC_0528365
- Positioned domains: Response_reg 13-124 ; GGDEF 157-310
Cluster members and taxonomy
Representative gene: GCF_033840625#SIK64_RS08865
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_002891615
AssemblyASM289161v1 · Scaffoldhaploid
Genome composition4 208 917 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 101 · HK 48 · RR 52CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key