1 Response_reg#1
5-113 aa · 109 aa · 46.6% of protein
Raw token
Response_reg:5:2.84e-29:113:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GSQ42_RS03260
Response regulator OmpR family
Clostridioides difficile · GCF_012276925
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_012276925#GSQ42_RS03260Stable P2CS identifier used across views.
GenomeGCF_012276925Bacteria; 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 coverage187 / 234 aa (79.9%)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
148-225 aa · 78 aa · 33.3% of protein
Raw token
Trans_reg_C:148:1.43e-30:225:78:77- Raw architecture: Response_reg:5:2.84e-29:113:110:111#Trans_reg_C:148:1.43e-30:225:78:77
- 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_012276925::NZ_JAAXLN010000016.1::G00019
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3387-5322Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGSQ42_03280RefSeq proteinWP_011861224.1
Context group ID
GCF_012276925::NZ_JAAXLN010000016.1::G00019Context members
GSQ42_RS03255GSQ42_RS03260
Partner locus tags
GSQ42_RS03255GSQ42_RS03260
Partner old locus tags
GSQ42_03275GSQ42_03280
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_011861224.1Primary protein accession used for annex mappings.
UniProt accessionQ18BY3Primary UniProt accession resolved in the annex database.
UniProt IDQ18BY3_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 tagGSQ42_RS03260Primary locus identifier stored in the genes table.
Old locus tagGSQ42_03280Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAAXLN010000016.1Sequence record reported by the local genomic context database.
Genomic interval4 618-5 322 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 387-5 322 ntGCF_012276925::NZ_JAAXLN010000016.1::G00019
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_012276925::NZ_JAAXLN010000016.1::G00019Graphic 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_JAAXLN010000016.1All displayed genes belong to this local TCS context.
Neighborhood span3 387-5 322 nt1 936 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 387 nt5 322 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GSQ42_RS03255GCF_012276925#GSQ42_RS03255
HKClassic
3 387-4 640 nt · Reverse (-)
GSQ42_RS03260GCF_012276925#GSQ42_RS03260
RROmpRCurrent focus
4 618-5 322 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000154625#QAB_RS0209045Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0862776
Simplified PFAM architecture for RROC_0862776
PFAM domain coverage: 185 / 241 aa (76.8%)
1 aa241 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[12-120] | Trans_reg_C[156-231]
- Domain count: 2
- Matched identifier: RROC_0862776
- Positioned domains: Response_reg 12-120 ; Response_reg 12-120 ; Trans_reg_C 156-231 ; Trans_reg_C 156-231
Cluster members and taxonomy
Representative gene: GCF_000154625#QAB_RS0209045
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_012276925
AssemblyASM1227692v1 · Contighaploid
Genome composition4 122 348 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 100 · HK 46 · RR 53CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key