1 Response_reg#1
5-112 aa · 108 aa · 48.0% of protein
Raw token
Response_reg:5:6.28e-26:112:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF3082_RS06640
Response regulator OmpR family
Clostridioides difficile · GCF_001857645
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_001857645#HMPREF3082_RS06640Stable P2CS identifier used across views.
GenomeGCF_001857645Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length225 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 225 aa (82.2%)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 aa225 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-223 aa · 77 aa · 34.2% of protein
Raw token
Trans_reg_C:147:1.15e-29:223:77:77- Raw architecture: Response_reg:5:6.28e-26:112:109:111#Trans_reg_C:147:1.15e-29:223:77:77
- 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 labelpentadGCF_001857645::NZ_KV860219.1::G00015
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span39451-45176Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF3082_06665RefSeq proteinWP_009891739.1
Context group ID
GCF_001857645::NZ_KV860219.1::G00015Context members
HMPREF3082_RS06620HMPREF3082_RS06625HMPREF3082_RS06630HMPREF3082_RS06635HMPREF3082_RS06640
Partner locus tags
HMPREF3082_RS06620HMPREF3082_RS06625HMPREF3082_RS06630HMPREF3082_RS06635HMPREF3082_RS06640
Partner old locus tags
HMPREF3082_06645HMPREF3082_06650HMPREF3082_06655HMPREF3082_06660HMPREF3082_06665
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009891739.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N6D2Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N6D2_CLODCDisplay 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 tagHMPREF3082_RS06640Primary locus identifier stored in the genes table.
Old locus tagHMPREF3082_06665Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KV860219.1Sequence record reported by the local genomic context database.
Genomic interval44 499-45 176 nt678 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span39 451-45 176 ntGCF_001857645::NZ_KV860219.1::G00015
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001857645::NZ_KV860219.1::G00015Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpentadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_KV860219.1All displayed genes belong to this local TCS context.
Neighborhood span39 451-45 176 nt5 726 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
39 451 nt45 176 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
HMPREF3082_RS06620GCF_001857645#HMPREF3082_RS06620
HKClassic
39 451-40 566 nt · Reverse (-)
HMPREF3082_RS06625GCF_001857645#HMPREF3082_RS06625
RROmpR
40 602-41 300 nt · Reverse (-)
HMPREF3082_RS06630GCF_001857645#HMPREF3082_RS06630
RROmpR
41 682-42 362 nt · Reverse (-)
HMPREF3082_RS06635GCF_001857645#HMPREF3082_RS06635
HKClassic
42 412-44 427 nt · Reverse (-)
HMPREF3082_RS06640GCF_001857645#HMPREF3082_RS06640
RROmpRCurrent focus
44 499-45 176 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0216535Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1462539
Simplified PFAM architecture for RROC_1462539
PFAM domain coverage: 185 / 225 aa (82.2%)
1 aa225 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-112] | Trans_reg_C[147-223]
- Domain count: 2
- Matched identifier: RROC_1462539
- Positioned domains: Response_reg 5-112 ; Response_reg 5-112 ; Trans_reg_C 147-223 ; Trans_reg_C 147-223
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0216535
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001857645
AssemblyASM185764v1 · Scaffoldhaploid
Genome composition4 075 171 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 106 · HK 50 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key