1 Response_reg#1
4-113 aa · 110 aa · 48.2% of protein
Raw token
Response_reg:4:1.07e-28:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9945_RS14120
Response regulator OmpR family
Clostridioides difficile 70-100-2010 · GCF_000235905
ClassRRTypeOmpRLength228 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000235905#HMPREF9945_RS14120Stable P2CS identifier used across views.
GenomeGCF_000235905Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length228 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 228 aa (81.6%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_CSummary 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 aa228 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
146-221 aa · 76 aa · 33.3% of protein
Raw token
Trans_reg_C:146:7.57e-24:221:78:77- Raw architecture: Response_reg:4:1.07e-28:113:111:111#Trans_reg_C:146:7.57e-24:221:78:77
- Domain description: 1 Response_reg,1 Trans_reg_C
- 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_000235905::NZ_JH379245.1::G00011
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span125422-127129Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9945_00781RefSeq proteinWP_003435302.1
Context group ID
GCF_000235905::NZ_JH379245.1::G00011Context members
HMPREF9945_RS14125HMPREF9945_RS14120
Partner locus tags
HMPREF9945_RS14125HMPREF9945_RS14120
Partner old locus tags
HMPREF9945_00780HMPREF9945_00781
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003435302.1Primary protein accession used for annex mappings.
UniProt accessionA0A6N3H473Primary UniProt accession resolved in the annex database.
UniProt IDA0A6N3H473_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF9945_RS14120Primary locus identifier stored in the genes table.
Old locus tagHMPREF9945_00781Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JH379245.1Sequence record reported by the local genomic context database.
Genomic interval126 443-127 129 nt687 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span125 422-127 129 ntGCF_000235905::NZ_JH379245.1::G00011
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000235905::NZ_JH379245.1::G00011Graphic 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_JH379245.1All displayed genes belong to this local TCS context.
Neighborhood span125 422-127 129 nt1 708 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
125 422 nt127 129 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9945_RS14125GCF_000235905#HMPREF9945_RS14125
HKClassic
125 422-126 453 nt · Reverse (-)
HMPREF9945_RS14120GCF_000235905#HMPREF9945_RS14120
RROmpRCurrent focus
126 443-127 129 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000235905#HMPREF9945_RS14120The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1302850
Simplified PFAM architecture for RROC_1302850
PFAM domain coverage: 184 / 228 aa (80.7%)
1 aa228 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[146-220]
- Domain count: 2
- Matched identifier: RROC_1302850
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 146-220 ; Trans_reg_C 146-220
Cluster members and taxonomy
Representative gene: GCF_000235905#HMPREF9945_RS14120
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