1 Response_reg#1
4-115 aa · 112 aa · 48.1% of protein
Raw token
Response_reg:4:5.9e-34:115:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1123_RS15415
Response regulator OmpR family
Clostridioides difficile 050-P50-2011 · GCF_000235925
ClassRRTypeOmpRLength233 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000235925#HMPREF1123_RS15415Stable 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 length233 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 233 aa (80.3%)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
155-229 aa · 75 aa · 32.2% of protein
Raw token
Trans_reg_C:155:2.54e-35:229:75:77- Raw architecture: Response_reg:4:5.9e-34:115:113:111#Trans_reg_C:155:2.54e-35:229:75:77
- 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_JH379176.1::G00012
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3939-5565Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1123_00740RefSeq proteinWP_003427144.1
Context group ID
GCF_000235925::NZ_JH379176.1::G00012Context members
HMPREF1123_RS15420HMPREF1123_RS15415
Partner locus tags
HMPREF1123_RS15420HMPREF1123_RS15415
Partner old locus tags
HMPREF1123_00739HMPREF1123_00740
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003427144.1Primary protein accession used for annex mappings.
UniProt accessionA0A9P3U2F2Primary UniProt accession resolved in the annex database.
UniProt IDA0A9P3U2F2_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF1123_RS15415Primary locus identifier stored in the genes table.
Old locus tagHMPREF1123_00740Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JH379176.1Sequence record reported by the local genomic context database.
Genomic interval4 864-5 565 nt702 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 939-5 565 ntGCF_000235925::NZ_JH379176.1::G00012
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000235925::NZ_JH379176.1::G00012Graphic 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_JH379176.1All displayed genes belong to this local TCS context.
Neighborhood span3 939-5 565 nt1 627 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 939 nt5 565 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1123_RS15420GCF_000235925#HMPREF1123_RS15420
HKClassic
3 939-4 862 nt · Reverse (-)
HMPREF1123_RS15415GCF_000235925#HMPREF1123_RS15415
RROmpRCurrent focus
4 864-5 565 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000210395#CDM68_RS01810Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1081174
Simplified PFAM architecture for RROC_1081174
PFAM domain coverage: 187 / 233 aa (80.3%)
1 aa233 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-115] | Trans_reg_C[155-229]
- Domain count: 2
- Matched identifier: RROC_1081174
- Positioned domains: Response_reg 4-115 ; Response_reg 4-115 ; Trans_reg_C 155-229 ; Trans_reg_C 155-229
Cluster members and taxonomy
Representative gene: GCF_000210395#CDM68_RS01810
Sankey plot built from the taxonomy of all members in the selected cluster.
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