1 Response_reg#1
6-112 aa · 107 aa · 46.3% of protein
Raw token
Response_reg:6:1.39e-30:112:107:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9475_RS09835
Response regulator OmpR family
[Clostridium] symbiosum WAL-14673 · GCF_000189615
ClassRRTypeOmpRLength231 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000189615#HMPREF9475_RS09835Stable P2CS identifier used across views.
GenomeGCF_000189615Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length231 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage182 / 231 aa (78.8%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa231 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-227 aa · 75 aa · 32.5% of protein
Raw token
Trans_reg_C:153:1.05e-31:227:76:77- Raw architecture: Response_reg:6:1.39e-30:112:107:111#Trans_reg_C:153:1.05e-31:227:76:77
- 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_000189615::NZ_GL834359.1::G00039
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span565405-569100Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9475_01946RefSeq proteinWP_003508294.1
Context group ID
GCF_000189615::NZ_GL834359.1::G00039Context members
HMPREF9475_RS09835HMPREF9475_RS09840
Partner locus tags
HMPREF9475_RS09835HMPREF9475_RS09840
Partner old locus tags
HMPREF9475_01946HMPREF9475_01947
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_003508294.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF9475_RS09835Primary locus identifier stored in the genes table.
Old locus tagHMPREF9475_01946Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GL834359.1Sequence record reported by the local genomic context database.
Genomic interval565 405-566 100 nt696 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span565 405-569 100 ntGCF_000189615::NZ_GL834359.1::G00039
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000189615::NZ_GL834359.1::G00039Graphic 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_GL834359.1All displayed genes belong to this local TCS context.
Neighborhood span565 405-569 100 nt3 696 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
565 405 nt569 100 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9475_RS09835GCF_000189615#HMPREF9475_RS09835
RROmpRCurrent focus
565 405-566 100 nt · Forward (+)
HMPREF9475_RS09840GCF_000189615#HMPREF9475_RS09840
HKHybrid
566 281-569 100 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000189615#HMPREF9475_RS09835The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1158400
Simplified PFAM architecture for RROC_1158400
PFAM domain coverage: 184 / 231 aa (79.7%)
1 aa231 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[6-114] | Trans_reg_C[153-227]
- Domain count: 2
- Matched identifier: RROC_1158400
- Positioned domains: Response_reg 6-114 ; Response_reg 6-114 ; Trans_reg_C 153-227 ; Trans_reg_C 153-227
Cluster members and taxonomy
Representative gene: GCF_000189615#HMPREF9475_RS09835
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 742 741 · GCF_000189615
AssemblyClos_symb_WAL_14673_V2 · Scaffoldhaploid
Genome composition4 916 964 bp · 48,0% GC[Clostridium] symbiosum WAL-14673
Signal transduction countsGenes 109 · HK 55 · RR 50CheA 0 · PP 4
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusLachnoclostridium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Lachnoclostridium
Related genes
Preview from the same derived genome key