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
E5F39_RS11420
Response regulator, RpfG family
Clostridioides difficile · GCF_004684515
ClassRRTypeRpfGLength546 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004684515#E5F39_RS11420Stable P2CS identifier used across views.
GenomeGCF_004684515Bacteria; 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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa546 aa
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_004684515::NZ_SRKF01000082.1::G00050
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span18408-22976Genomic interval covered by the local TCS group.
Identifiers
Old locus tagE5F39_11425RefSeq proteinWP_009901919.1
Context group ID
GCF_004684515::NZ_SRKF01000082.1::G00050Context members
E5F39_RS11410E5F39_RS11420
Partner locus tags
E5F39_RS11410E5F39_RS11420
Partner old locus tags
E5F39_11415E5F39_11425
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 tagE5F39_RS11420Primary locus identifier stored in the genes table.
Old locus tagE5F39_11425Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SRKF01000082.1Sequence record reported by the local genomic context database.
Genomic interval21 336-22 976 nt1 641 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span18 408-22 976 ntGCF_004684515::NZ_SRKF01000082.1::G00050
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004684515::NZ_SRKF01000082.1::G00050Graphic 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_SRKF01000082.1All displayed genes belong to this local TCS context.
Neighborhood span18 408-22 976 nt4 569 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
18 408 nt22 976 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
E5F39_RS11410GCF_004684515#E5F39_RS11410
HKHybrid
18 408-20 966 nt · Reverse (-)
E5F39_RS11420GCF_004684515#E5F39_RS11420
RRRpfGCurrent focus
21 336-22 976 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 1 496 · GCF_004684515
AssemblyASM468451v1 · Contighaploid
Genome composition4 354 623 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 103 · HK 49 · 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