1 Response_reg#1
5-114 aa · 110 aa · 47.4% of protein
Raw token
Response_reg:5:1.21e-36:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDCF5_RS16885
Response regulator OmpR family
Clostridioides difficile CF5 · GCF_000210415
ClassRRTypeOmpRLength232 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_000210415#CDCF5_RS16885Stable P2CS identifier used across views.
GenomeGCF_000210415Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length232 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage188 / 232 aa (81.0%)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 aa232 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
155-232 aa · 78 aa · 33.6% of protein
Raw token
Trans_reg_C:155:4.57e-28:232:78:77- Raw architecture: Response_reg:5:1.21e-36:114:111:111#Trans_reg_C:155:4.57e-28:232:78:77
- 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 labelpentadGCF_000210415::NC_017173.1::G00053
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span3739845-3745569Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000210415::NC_017173.1::G00053Context members
CDCF5_RS16880CDCF5_RS16885CDCF5_RS16890CDCF5_RS16895CDCF5_RS16900
Partner locus tags
CDCF5_RS16880CDCF5_RS16885CDCF5_RS16890CDCF5_RS16895CDCF5_RS16900
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003432359.1Primary protein accession used for annex mappings.
UniProt accessionA0A9P3U0K6Primary UniProt accession resolved in the annex database.
UniProt IDA0A9P3U0K6_CLODIDisplay 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 tagCDCF5_RS16885Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNC_017173.1Sequence record reported by the local genomic context database.
Genomic interval3 740 996-3 741 694 nt699 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 739 845-3 745 569 ntGCF_000210415::NC_017173.1::G00053
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000210415::NC_017173.1::G00053Graphic 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 / repliconNC_017173.1All displayed genes belong to this local TCS context.
Neighborhood span3 739 845-3 745 569 nt5 725 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 739 845 nt3 745 569 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
CDCF5_RS16880GCF_000210415#CDCF5_RS16880
HKClassic
3 739 845-3 740 960 nt · Reverse (-)
CDCF5_RS16885GCF_000210415#CDCF5_RS16885
RROmpRCurrent focus
3 740 996-3 741 694 nt · Reverse (-)
CDCF5_RS16890GCF_000210415#CDCF5_RS16890
RROmpR
3 742 075-3 742 755 nt · Reverse (-)
CDCF5_RS16895GCF_000210415#CDCF5_RS16895
HKClassic
3 742 805-3 744 820 nt · Reverse (-)
CDCF5_RS16900GCF_000210415#CDCF5_RS16900
RROmpR
3 744 892-3 745 569 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000210395#CDM68_RS16905Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1120124
Simplified PFAM architecture for RROC_1120124
PFAM domain coverage: 187 / 232 aa (80.6%)
1 aa232 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-114] | Trans_reg_C[155-231]
- Domain count: 2
- Matched identifier: RROC_1120124
- Positioned domains: Response_reg 5-114 ; Response_reg 5-114 ; Trans_reg_C 155-231 ; Trans_reg_C 155-231
Cluster members and taxonomy
Representative gene: GCF_000210395#CDM68_RS16905
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 699 036 · GCF_000210415
AssemblyASM21041v1 · Complete Genomehaploid
Genome composition4 159 517 bp · 28,5% GCClostridioides difficile CF5
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