1 Response_reg#1
3-115 aa · 113 aa · 49.6% of protein
Raw token
Response_reg:3:5.83e-29:115:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
H3U12_RS00465
Response regulator OmpR family
Clostridioides difficile · GCF_025532885
ClassRRTypeOmpRLength228 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_025532885#H3U12_RS00465Stable P2CS identifier used across views.
GenomeGCF_025532885Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length228 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage188 / 228 aa (82.5%)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
149-223 aa · 75 aa · 32.9% of protein
Raw token
Trans_reg_C:149:1.67e-19:223:76:77- Raw architecture: Response_reg:3:5.83e-29:115:113:111#Trans_reg_C:149:1.67e-19:223:76:77
- 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_025532885::NZ_JACFVC010000001.1::G00021
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span123101-125073Genomic interval covered by the local TCS group.
Identifiers
Old locus tagH3U12_00465RefSeq proteinWP_005342376.1
Context group ID
GCF_025532885::NZ_JACFVC010000001.1::G00021Context members
H3U12_RS00465H3U12_RS00470
Partner locus tags
H3U12_RS00465H3U12_RS00470
Partner old locus tags
H3U12_00465H3U12_00470
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_005342376.1Primary protein accession used for annex mappings.
UniProt accessionA0A414D0L8Primary UniProt accession resolved in the annex database.
UniProt IDA0A414D0L8_MEDGNDisplay 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 tagH3U12_RS00465Primary locus identifier stored in the genes table.
Old locus tagH3U12_00465Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JACFVC010000001.1Sequence record reported by the local genomic context database.
Genomic interval123 101-123 787 nt687 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span123 101-125 073 ntGCF_025532885::NZ_JACFVC010000001.1::G00021
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_025532885::NZ_JACFVC010000001.1::G00021Graphic 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_JACFVC010000001.1All displayed genes belong to this local TCS context.
Neighborhood span123 101-125 073 nt1 973 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
123 101 nt125 073 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
H3U12_RS00465GCF_025532885#H3U12_RS00465
RROmpRCurrent focus
123 101-123 787 nt · Forward (+)
H3U12_RS00470GCF_025532885#H3U12_RS00470
HKClassic
123 781-125 073 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003439255#DXB36_RS14635Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1314854
Simplified PFAM architecture for RROC_1314854
PFAM domain coverage: 187 / 228 aa (82.0%)
1 aa228 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[3-115] | Trans_reg_C[150-223]
- Domain count: 2
- Matched identifier: RROC_1314854
- Positioned domains: Response_reg 3-115 ; Response_reg 3-115 ; Trans_reg_C 150-223 ; Trans_reg_C 150-223
Cluster members and taxonomy
Representative gene: GCF_003439255#DXB36_RS14635
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_025532885
AssemblyASM2553288v1 · Scaffoldhaploid
Genome composition4 218 094 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 109 · HK 52 · RR 57CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key