1 Response_reg#1
5-117 aa · 113 aa · 48.7% of protein
Raw token
Response_reg:5:4.12e-23:117:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0220_RS10230
Response regulator, unclassified
Clostridioides difficile NAP08 · GCF_000164175
ClassRRTypeunclassifiedLength232 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000164175#HMPREF0220_RS10230Stable P2CS identifier used across views.
GenomeGCF_000164175Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regHTH_AraC
Protein length232 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage154 / 232 aa (66.4%)Merged over positioned domains only.
Domain description1 Response_reg,1 HTH_AraCSummary 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 HTH_AraC#2
186-226 aa · 41 aa · 17.7% of protein
Raw token
HTH_AraC:186:0.0000804:226:41:42- Raw architecture: Response_reg:5:4.12e-23:117:113:111#HTH_AraC:186:0.0000804:226:41:42
- Domain description: 1 Response_reg,1 HTH_AraC
- 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_000164175::NZ_GG770711.1::G00037
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span593126-595443Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0220_3296RefSeq proteinWP_003422778.1
Context group ID
GCF_000164175::NZ_GG770711.1::G00037Context members
HMPREF0220_RS10235HMPREF0220_RS10230
Partner locus tags
HMPREF0220_RS10235HMPREF0220_RS10230
Partner old locus tags
HMPREF0220_3295HMPREF0220_3296
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003422778.1Primary protein accession used for annex mappings.
UniProt accessionD5Q8R2Primary UniProt accession resolved in the annex database.
UniProt IDD5Q8R2_CLODIDisplay identifier provided by UniProt.
GO / PubMed3 / 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 tagHMPREF0220_RS10230Primary locus identifier stored in the genes table.
Old locus tagHMPREF0220_3296Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770711.1Sequence record reported by the local genomic context database.
Genomic interval594 745-595 443 nt699 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span593 126-595 443 ntGCF_000164175::NZ_GG770711.1::G00037
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164175::NZ_GG770711.1::G00037Graphic 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_GG770711.1All displayed genes belong to this local TCS context.
Neighborhood span593 126-595 443 nt2 318 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
593 126 nt595 443 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0220_RS10235GCF_000164175#HMPREF0220_RS10235
HKClassic
593 126-594 631 nt · Forward (+)
HMPREF0220_RS10230GCF_000164175#HMPREF0220_RS10230
RRunclassifiedCurrent focus
594 745-595 443 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0214030Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + HTH_182 domains in the representative PFAM annotation.
PFAM architecture for RROC_1119711
Simplified PFAM architecture for RROC_1119711
PFAM domain coverage: 189 / 232 aa (81.5%)
1 aa232 aa
Response_regHTH_18
- Simplified architecture: Response_reg + HTH_18
- Raw architecture: Response_reg[5-116] | HTH_18[151-227]
- Domain count: 2
- Matched identifier: RROC_1119711
- Positioned domains: Response_reg 5-116 ; Response_reg 5-116 ; HTH_18 151-227 ; HTH_18 151-227
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0214030
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 50 over 304 total members. Page 1 / 7.
GCF_000155065#QAE_RS0214030 (representative) | ||||
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 525 259 · GCF_000164175
AssemblyASM16417v1 · Scaffoldhaploid
Genome composition4 078 686 bp · 29,0% GCClostridioides difficile NAP08
Signal transduction countsGenes 97 · HK 48 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key