1 Response_reg#1
3-115 aa · 113 aa · 49.6% of protein
Raw token
Response_reg:3:3.45e-28:115:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0373_RS04530
Response regulator OmpR family
Eubacterium ramulus ATCC 29099 · GCF_000469345
ClassRRTypeOmpRLength228 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000469345#HMPREF0373_RS04530Stable P2CS identifier used across views.
GenomeGCF_000469345Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Eubacteriaceae; Eubacterium
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 coverage189 / 228 aa (82.9%)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 aa228 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
148-223 aa · 76 aa · 33.3% of protein
Raw token
Trans_reg_C:148:1.85e-19:223:77:77- Raw architecture: Response_reg:3:3.45e-28:115:113:111#Trans_reg_C:148:1.85e-19:223:77:77
- 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_000469345::NZ_KI271103.1::G00013
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3297-5269Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0373_03072RefSeq proteinWP_009264276.1
Context group ID
GCF_000469345::NZ_KI271103.1::G00013Context members
HMPREF0373_RS04525HMPREF0373_RS04530
Partner locus tags
HMPREF0373_RS04525HMPREF0373_RS04530
Partner old locus tags
HMPREF0373_03071HMPREF0373_03072
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009264276.1Primary protein accession used for annex mappings.
UniProt accessionU2NUU1Primary UniProt accession resolved in the annex database.
UniProt IDU2NUU1_EUBRADisplay 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 tagHMPREF0373_RS04530Primary locus identifier stored in the genes table.
Old locus tagHMPREF0373_03072Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KI271103.1Sequence record reported by the local genomic context database.
Genomic interval4 583-5 269 nt687 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 297-5 269 ntGCF_000469345::NZ_KI271103.1::G00013
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000469345::NZ_KI271103.1::G00013Graphic 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_KI271103.1All displayed genes belong to this local TCS context.
Neighborhood span3 297-5 269 nt1 973 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 297 nt5 269 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0373_RS04525GCF_000469345#HMPREF0373_RS04525
HKClassic
3 297-4 589 nt · Reverse (-)
HMPREF0373_RS04530GCF_000469345#HMPREF0373_RS04530
RROmpRCurrent focus
4 583-5 269 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000469345#HMPREF0373_RS04530The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1304873
Simplified PFAM architecture for RROC_1304873
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_1304873
- 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_000469345#HMPREF0373_RS04530
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 256 908 · GCF_000469345
AssemblyASM46934v1 · Scaffoldhaploid
Genome composition3 447 136 bp · 42,5% GCEubacterium ramulus ATCC 29099
Signal transduction countsGenes 84 · HK 41 · RR 42CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyEubacteriaceaeGenusEubacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Eubacteriaceae7Eubacterium
Related genes
Preview from the same derived genome key