1 Response_reg#1
5-109 aa · 105 aa · 43.6% of protein
Raw token
Response_reg:5:5.9e-28:109:106:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1123_RS00540
Response regulator OmpR family
Clostridioides difficile 050-P50-2011 · GCF_000235925
ClassRRTypeOmpRLength241 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000235925#HMPREF1123_RS00540Stable P2CS identifier used across views.
GenomeGCF_000235925Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length241 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage182 / 241 aa (75.5%)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
160-236 aa · 77 aa · 32.0% of protein
Raw token
Trans_reg_C:160:2.83e-32:236:77:77- Raw architecture: Response_reg:5:5.9e-28:109:106:111#Trans_reg_C:160:2.83e-32:236:77:77
- 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_000235925::NZ_JH379225.1::G00057
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span151643-153775Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1123_03859RefSeq proteinWP_003430131.1
Context group ID
GCF_000235925::NZ_JH379225.1::G00057Context members
HMPREF1123_RS00545HMPREF1123_RS00540
Partner locus tags
HMPREF1123_RS00545HMPREF1123_RS00540
Partner old locus tags
HMPREF1123_03858HMPREF1123_03859
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_003430131.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF1123_RS00540Primary locus identifier stored in the genes table.
Old locus tagHMPREF1123_03859Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JH379225.1Sequence record reported by the local genomic context database.
Genomic interval153 050-153 775 nt726 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span151 643-153 775 ntGCF_000235925::NZ_JH379225.1::G00057
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000235925::NZ_JH379225.1::G00057Graphic 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_JH379225.1All displayed genes belong to this local TCS context.
Neighborhood span151 643-153 775 nt2 133 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
151 643 nt153 775 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1123_RS00545GCF_000235925#HMPREF1123_RS00545
HKClassic
151 643-153 046 nt · Reverse (-)
HMPREF1123_RS00540GCF_000235925#HMPREF1123_RS00540
RROmpRCurrent focus
153 050-153 775 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000210395#CDM68_RS08765Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0862968
Simplified PFAM architecture for RROC_0862968
PFAM domain coverage: 184 / 241 aa (76.3%)
1 aa241 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-111] | Trans_reg_C[160-236]
- Domain count: 2
- Matched identifier: RROC_0862968
- Positioned domains: Response_reg 5-111 ; Response_reg 5-111 ; Trans_reg_C 160-236 ; Trans_reg_C 160-236
Cluster members and taxonomy
Representative gene: GCF_000210395#CDM68_RS08765
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 50 over 214 total members. Page 1 / 5.
GCF_000210395#CDM68_RS08765 (representative) | ||||
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 997 828 · GCF_000235925
AssemblyASM23592v1 · Scaffoldhaploid
Genome composition4 227 225 bp · 28,5% GCClostridioides difficile 050-P50-2011
Signal transduction countsGenes 104 · HK 50 · RR 54CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key