1 Response_reg#1
4-112 aa · 109 aa · 49.5% of protein
Raw token
Response_reg:4:8.43e-25:112:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF3082_RS08690
Response regulator OmpR family
Clostridioides difficile · GCF_001857645
ClassRRTypeOmpRLength220 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001857645#HMPREF3082_RS08690Stable P2CS identifier used across views.
GenomeGCF_001857645Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length220 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage181 / 220 aa (82.3%)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
146-217 aa · 72 aa · 32.7% of protein
Raw token
Trans_reg_C:146:2.41e-25:217:76:77- Raw architecture: Response_reg:4:8.43e-25:112:111:111#Trans_reg_C:146:2.41e-25:217:76:77
- 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_001857645::NZ_KV860238.1::G00032
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span714-2557Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF3082_08725RefSeq proteinWP_009888287.1
Context group ID
GCF_001857645::NZ_KV860238.1::G00032Context members
HMPREF3082_RS08690HMPREF3082_RS08695
Partner locus tags
HMPREF3082_RS08690HMPREF3082_RS08695
Partner old locus tags
HMPREF3082_08725HMPREF3082_08730
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009888287.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3MZY9Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3MZY9_CLODCDisplay 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 tagHMPREF3082_RS08690Primary locus identifier stored in the genes table.
Old locus tagHMPREF3082_08725Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KV860238.1Sequence record reported by the local genomic context database.
Genomic interval714-1 376 nt663 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span714-2 557 ntGCF_001857645::NZ_KV860238.1::G00032
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001857645::NZ_KV860238.1::G00032Graphic 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_KV860238.1All displayed genes belong to this local TCS context.
Neighborhood span714-2 557 nt1 844 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
714 nt2 557 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF3082_RS08690GCF_001857645#HMPREF3082_RS08690
RROmpRCurrent focus
714-1 376 nt · Forward (+)
HMPREF3082_RS08695GCF_001857645#HMPREF3082_RS08695
HKClassic
1 376-2 557 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0202435Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1722608
Simplified PFAM architecture for RROC_1722608
PFAM domain coverage: 180 / 220 aa (81.8%)
1 aa220 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-111] | Trans_reg_C[146-217]
- Domain count: 2
- Matched identifier: RROC_1722608
- Positioned domains: Response_reg 4-111 ; Response_reg 4-111 ; Trans_reg_C 146-217 ; Trans_reg_C 146-217
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0202435
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001857645
AssemblyASM185764v1 · Scaffoldhaploid
Genome composition4 075 171 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 106 · HK 50 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key