1 Response_reg#1
5-112 aa · 108 aa · 48.0% of protein
Raw token
Response_reg:5:5.72e-26:112:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DA417_RS04665
Response regulator OmpR family
Clostridioides difficile · GCF_006380895
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_006380895#DA417_RS04665Stable P2CS identifier used across views.
GenomeGCF_006380895Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-223 aa · 77 aa · 34.2% of protein
Raw token
Trans_reg_C:147:9.35e-30:223:77:77- Raw architecture: Response_reg:5:5.72e-26:112:109:111#Trans_reg_C:147:9.35e-30:223:77:77
- 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_006380895::NZ_PZRA01000008.1::G00041
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span141746-147471Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDA417_04660RefSeq proteinWP_140030931.1
Context group ID
GCF_006380895::NZ_PZRA01000008.1::G00041Context members
DA417_RS04665DA417_RS04670DA417_RS04675DA417_RS04680DA417_RS04685
Partner locus tags
DA417_RS04665DA417_RS04670DA417_RS04675DA417_RS04680DA417_RS04685
Partner old locus tags
DA417_04660DA417_04665DA417_04670DA417_04675DA417_04680
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_140030931.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagDA417_RS04665Primary locus identifier stored in the genes table.
Old locus tagDA417_04660Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_PZRA01000008.1Sequence record reported by the local genomic context database.
Genomic interval141 746-142 423 nt678 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span141 746-147 471 ntGCF_006380895::NZ_PZRA01000008.1::G00041
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_006380895::NZ_PZRA01000008.1::G00041Graphic 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_PZRA01000008.1All displayed genes belong to this local TCS context.
Neighborhood span141 746-147 471 nt5 726 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
141 746 nt147 471 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
DA417_RS04665GCF_006380895#DA417_RS04665
RROmpRCurrent focus
141 746-142 423 nt · Forward (+)
DA417_RS04670GCF_006380895#DA417_RS04670
HKClassic
142 495-144 510 nt · Forward (+)
DA417_RS04675GCF_006380895#DA417_RS04675
RROmpR
144 560-145 240 nt · Forward (+)
DA417_RS04680GCF_006380895#DA417_RS04680
RROmpR
145 622-146 320 nt · Forward (+)
DA417_RS04685GCF_006380895#DA417_RS04685
HKClassic
146 356-147 471 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_006380895#DA417_RS04665The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1483943
Simplified PFAM architecture for RROC_1483943
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_1483943
- 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_006380895#DA417_RS04665
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_006380895
AssemblyASM638089v1 · Contighaploid
Genome composition4 192 092 bp · 29,0% 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