1 Response_reg#1
6-110 aa · 105 aa · 19.2% of protein
Raw token
Response_reg:6:5.98e-27:110:106:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
QCK_RS03950
Response regulator, RpfG family
Clostridioides difficile CD45 · GCF_000449065
ClassRRTypeRpfGLength546 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000449065#QCK_RS03950Stable P2CS identifier used across views.
GenomeGCF_000449065Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regHDGGDEF
Protein length546 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage356 / 546 aa (65.2%)Merged over positioned domains only.
Domain description1 Response_reg,1 HD,1 GGDEFSummary 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 annotation3 items
2 HD#2
195-300 aa · 106 aa · 19.4% of protein
Raw token
HD:195:0.00000000000785:300:106:1103 GGDEF#3
384-528 aa · 145 aa · 26.6% of protein
Raw token
GGDEF:384:3.37e-40:528:162:160- Raw architecture: Response_reg:6:5.98e-27:110:106:111#HD:195:0.00000000000785:300:106:110#GGDEF:384:3.37e-40:528:162:160
- Domain description: 1 Response_reg,1 HD,1 GGDEF
- 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_000449065::NZ_AVGY01000047.1::G00004
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span18804-23372Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQCK_0477RefSeq proteinWP_009901919.1
Context group ID
GCF_000449065::NZ_AVGY01000047.1::G00004Context members
QCK_RS03940QCK_RS03950
Partner locus tags
QCK_RS03940QCK_RS03950
Partner old locus tags
QCK_0475QCK_0477
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009901919.1Primary protein accession used for annex mappings.
UniProt accessionA0AB74QCM1Primary UniProt accession resolved in the annex database.
UniProt IDA0AB74QCM1_CLODIDisplay identifier provided by UniProt.
GO / PubMed2 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagQCK_RS03950Primary locus identifier stored in the genes table.
Old locus tagQCK_0477Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_AVGY01000047.1Sequence record reported by the local genomic context database.
Genomic interval21 732-23 372 nt1 641 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span18 804-23 372 ntGCF_000449065::NZ_AVGY01000047.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000449065::NZ_AVGY01000047.1::G00004Graphic 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_AVGY01000047.1All displayed genes belong to this local TCS context.
Neighborhood span18 804-23 372 nt4 569 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
18 804 nt23 372 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
QCK_RS03940GCF_000449065#QCK_RS03940
HKHybrid
18 804-21 362 nt · Reverse (-)
QCK_RS03950GCF_000449065#QCK_RS03950
RRRpfGCurrent focus
21 732-23 372 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155025#UAB_RS0203460Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + HD_5 + GGDEF3 domains in the representative PFAM annotation.
PFAM architecture for RROC_0079329
Simplified PFAM architecture for RROC_0079329
PFAM domain coverage: 385 / 546 aa (70.5%)
1 aa546 aa
Response_regHD_5GGDEF
- Simplified architecture: Response_reg + HD_5 + GGDEF
- Raw architecture: Response_reg[6-117] | HD_5[191-320] | GGDEF[384-526]
- Domain count: 3
- Matched identifier: RROC_0079329
- Positioned domains: Response_reg 6-117 ; Response_reg 6-117 ; HD_5 191-320 ; HD_5 191-320 ; GGDEF 384-526 ; GGDEF 384-526
Cluster members and taxonomy
Representative gene: GCF_000155025#UAB_RS0203460
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 151 268 · GCF_000449065
AssemblyASM44906v2 · Contighaploid
Genome composition4 367 906 bp · 28,5% GCClostridioides difficile CD45
Signal transduction countsGenes 98 · HK 46 · RR 51CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key