1 Response_reg#1
5-115 aa · 111 aa · 47.8% of protein
Raw token
Response_reg:5:3.16e-30:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0220_RS12990
Response regulator OmpR family
Clostridioides difficile NAP08 · GCF_000164175
ClassRRTypeOmpRLength232 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000164175#HMPREF0220_RS12990Stable P2CS identifier used across views.
GenomeGCF_000164175Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
152-228 aa · 77 aa · 33.2% of protein
Raw token
Trans_reg_C:152:3.17e-34:228:77:77- Raw architecture: Response_reg:5:3.16e-30:115:111:111#Trans_reg_C:152:3.17e-34:228:77:77
- 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 labelpairedGCF_000164175::NZ_GG770710.1::G00052
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1149369-1151503Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0220_1953RefSeq proteinWP_009905583.1
Context group ID
GCF_000164175::NZ_GG770710.1::G00052Context members
HMPREF0220_RS12995HMPREF0220_RS12990
Partner locus tags
HMPREF0220_RS12995HMPREF0220_RS12990
Partner old locus tags
HMPREF0220_1952HMPREF0220_1953
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009905583.1Primary protein accession used for annex mappings.
UniProt accessionA0AAX3GVM2Primary UniProt accession resolved in the annex database.
UniProt IDA0AAX3GVM2_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF0220_RS12990Primary locus identifier stored in the genes table.
Old locus tagHMPREF0220_1953Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770710.1Sequence record reported by the local genomic context database.
Genomic interval1 150 805-1 151 503 nt699 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 149 369-1 151 503 ntGCF_000164175::NZ_GG770710.1::G00052
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164175::NZ_GG770710.1::G00052Graphic 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_GG770710.1All displayed genes belong to this local TCS context.
Neighborhood span1 149 369-1 151 503 nt2 135 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 149 369 nt1 151 503 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0220_RS12995GCF_000164175#HMPREF0220_RS12995
HKClassic
1 149 369-1 150 802 nt · Reverse (-)
HMPREF0220_RS12990GCF_000164175#HMPREF0220_RS12990
RROmpRCurrent focus
1 150 805-1 151 503 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0208840Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1119709
Simplified PFAM architecture for RROC_1119709
PFAM domain coverage: 188 / 232 aa (81.0%)
1 aa232 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-115] | Trans_reg_C[152-228]
- Domain count: 2
- Matched identifier: RROC_1119709
- Positioned domains: Response_reg 5-115 ; Response_reg 5-115 ; Trans_reg_C 152-228 ; Trans_reg_C 152-228
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0208840
Sankey plot built from the taxonomy of all members in the selected cluster.
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