1 Response_reg#1
6-115 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:6:1.32e-36:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9474_RS00060
Response regulator OmpR family
[Clostridium] symbiosum WAL-14163 · GCF_000189595
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000189595#HMPREF9474_RS00060Stable P2CS identifier used across views.
GenomeGCF_000189595Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length234 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 234 aa (79.9%)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 aa234 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
156-232 aa · 77 aa · 32.9% of protein
Raw token
Trans_reg_C:156:1.78e-33:232:77:77- Raw architecture: Response_reg:6:1.32e-36:115:111:111#Trans_reg_C:156:1.78e-33:232:77:77
- 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_000189595::NZ_GL834305.1::G00001
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span10714-12547Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9474_00011RefSeq proteinWP_003497006.1
Context group ID
GCF_000189595::NZ_GL834305.1::G00001Context members
HMPREF9474_RS00055HMPREF9474_RS00060
Partner locus tags
HMPREF9474_RS00055HMPREF9474_RS00060
Partner old locus tags
HMPREF9474_00010HMPREF9474_00011
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003497006.1Primary protein accession used for annex mappings.
UniProt accessionE7GGG1Primary UniProt accession resolved in the annex database.
UniProt IDE7GGG1_CLOS6Display 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 tagHMPREF9474_RS00060Primary locus identifier stored in the genes table.
Old locus tagHMPREF9474_00011Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GL834305.1Sequence record reported by the local genomic context database.
Genomic interval11 843-12 547 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span10 714-12 547 ntGCF_000189595::NZ_GL834305.1::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000189595::NZ_GL834305.1::G00001Graphic 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_GL834305.1All displayed genes belong to this local TCS context.
Neighborhood span10 714-12 547 nt1 834 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
10 714 nt12 547 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9474_RS00055GCF_000189595#HMPREF9474_RS00055
HKClassic
10 714-11 838 nt · Reverse (-)
HMPREF9474_RS00060GCF_000189595#HMPREF9474_RS00060
RROmpRCurrent focus
11 843-12 547 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000189595#HMPREF9474_RS00060The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047673
Simplified PFAM architecture for RROC_1047673
PFAM domain coverage: 186 / 234 aa (79.5%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[6-115] | Trans_reg_C[156-231]
- Domain count: 2
- Matched identifier: RROC_1047673
- Positioned domains: Response_reg 6-115 ; Response_reg 6-115 ; Trans_reg_C 156-231 ; Trans_reg_C 156-231
Cluster members and taxonomy
Representative gene: GCF_000189595#HMPREF9474_RS00060
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 742 740 · GCF_000189595
AssemblyClos_symb_WAL_14163_V1 · Scaffoldhaploid
Genome composition5 352 498 bp · 47,5% GC[Clostridium] symbiosum WAL-14163
Signal transduction countsGenes 111 · HK 54 · RR 54CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusLachnoclostridium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Lachnoclostridium
Related genes
Preview from the same derived genome key