1 Response_reg#1
5-114 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:5:2.01e-28:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
QCA_RS04960
Response regulator OmpR family
Clostridioides difficile CD40 · GCF_000448965
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000448965#QCA_RS04960Stable P2CS identifier used across views.
GenomeGCF_000448965Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length234 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage181 / 234 aa (77.4%)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
160-230 aa · 71 aa · 30.3% of protein
Raw token
Trans_reg_C:160:8.54e-26:230:74:77- Raw architecture: Response_reg:5:2.01e-28:114:111:111#Trans_reg_C:160:8.54e-26:230:74:77
- 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_000448965::NZ_AVGT01000031.1::G00015
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span18336-20529Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQCA_1024RefSeq proteinWP_003437036.1
Context group ID
GCF_000448965::NZ_AVGT01000031.1::G00015Context members
QCA_RS04960QCA_RS04965
Partner locus tags
QCA_RS04960QCA_RS04965
Partner old locus tags
QCA_1024QCA_1025
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003437036.1Primary protein accession used for annex mappings.
UniProt accessionQ18AL4Primary UniProt accession resolved in the annex database.
UniProt IDQ18AL4_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 tagQCA_RS04960Primary locus identifier stored in the genes table.
Old locus tagQCA_1024Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_AVGT01000031.1Sequence record reported by the local genomic context database.
Genomic interval18 336-19 040 nt705 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span18 336-20 529 ntGCF_000448965::NZ_AVGT01000031.1::G00015
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000448965::NZ_AVGT01000031.1::G00015Graphic 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_AVGT01000031.1All displayed genes belong to this local TCS context.
Neighborhood span18 336-20 529 nt2 194 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
18 336 nt20 529 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
QCA_RS04960GCF_000448965#QCA_RS04960
RROmpRCurrent focus
18 336-19 040 nt · Forward (+)
QCA_RS04965GCF_000448965#QCA_RS04965
HKClassic
19 042-20 529 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS05665Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047081
Simplified PFAM architecture for RROC_1047081
PFAM domain coverage: 181 / 234 aa (77.4%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[159-230]
- Domain count: 2
- Matched identifier: RROC_1047081
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 159-230 ; Trans_reg_C 159-230
Cluster members and taxonomy
Representative gene: GCF_000009205#CD630_RS05665
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 151 263 · GCF_000448965
AssemblyASM44896v2 · Contighaploid
Genome composition4 069 381 bp · 28,5% GCClostridioides difficile CD40
Signal transduction countsGenes 96 · HK 46 · RR 50CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key