1 Response_reg#1
5-114 aa · 110 aa · 47.2% of protein
Raw token
Response_reg:5:4.82e-35:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9945_RS10840
Response regulator OmpR family
Clostridioides difficile 70-100-2010 · GCF_000235905
ClassRRTypeOmpRLength233 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000235905#HMPREF9945_RS10840Stable 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 length233 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 233 aa (79.4%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
155-229 aa · 75 aa · 32.2% of protein
Raw token
Trans_reg_C:155:1.32e-34:229:75:77- Raw architecture: Response_reg:5:4.82e-35:114:111:111#Trans_reg_C:155:1.32e-34:229:75:77
- 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_JH379264.1::G00022
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span10498-12331Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9945_01472RefSeq proteinWP_003436401.1
Context group ID
GCF_000235905::NZ_JH379264.1::G00022Context members
HMPREF9945_RS10840HMPREF9945_RS10835
Partner locus tags
HMPREF9945_RS10840HMPREF9945_RS10835
Partner old locus tags
HMPREF9945_01472HMPREF9945_01473
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003436401.1Primary protein accession used for annex mappings.
UniProt accessionQ186H9Primary UniProt accession resolved in the annex database.
UniProt IDQ186H9_CLOD6Display identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF9945_RS10840Primary locus identifier stored in the genes table.
Old locus tagHMPREF9945_01472Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JH379264.1Sequence record reported by the local genomic context database.
Genomic interval10 498-11 199 nt702 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span10 498-12 331 ntGCF_000235905::NZ_JH379264.1::G00022
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000235905::NZ_JH379264.1::G00022Graphic 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_JH379264.1All displayed genes belong to this local TCS context.
Neighborhood span10 498-12 331 nt1 834 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
10 498 nt12 331 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9945_RS10840GCF_000235905#HMPREF9945_RS10840
RROmpRCurrent focus
10 498-11 199 nt · Forward (+)
HMPREF9945_RS10835GCF_000235905#HMPREF9945_RS10835
HKClassic
11 249-12 331 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS08860Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1080372
Simplified PFAM architecture for RROC_1080372
PFAM domain coverage: 185 / 233 aa (79.4%)
1 aa233 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[155-230]
- Domain count: 2
- Matched identifier: RROC_1080372
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 155-230 ; Trans_reg_C 155-230
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS08860
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