1 GGDEF#1
135-278 aa · 144 aa · 21.0% of protein
Raw token
GGDEF:135:7.17e-38:278:156:160P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DXD18_RS04000
Response regulator, RpfG family
Dorea formicigenerans · GCF_003437485
ClassRRTypeRpfGLength687 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_003437485#DXD18_RS04000Stable P2CS identifier used across views.
GenomeGCF_003437485Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Dorea
Domain signature
Compact overview inferred from the domain field
GGDEFResponse_regHD
Protein length687 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage348 / 687 aa (50.7%)Merged over positioned domains only.
Domain description1 GGDEF,1 Response_reg,1 HDSummary 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 aa687 aa
Domain-by-domain annotation3 items
2 Response_reg#2
307-411 aa · 105 aa · 15.3% of protein
Raw token
Response_reg:307:9.43e-28:411:106:1113 HD#3
502-600 aa · 99 aa · 14.4% of protein
Raw token
HD:502:0.00000000000426:600:99:110- Raw architecture: GGDEF:135:7.17e-38:278:156:160#Response_reg:307:9.43e-28:411:106:111#HD:502:0.00000000000426:600:99:110
- Domain description: 1 GGDEF,1 Response_reg,1 HD
- 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 labelorphanGCF_003437485::NZ_QSQM01000001.1::G00010
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span839920-841983Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDXD18_03990RefSeq proteinWP_117657168.1
Context group ID
GCF_003437485::NZ_QSQM01000001.1::G00010Context members
DXD18_RS04000
Partner locus tags
DXD18_RS04000
Partner old locus tags
DXD18_03990
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_117657168.1Primary protein accession used for annex mappings.
UniProt accessionA0A415N6H4Primary UniProt accession resolved in the annex database.
UniProt IDA0A415N6H4_9FIRMDisplay identifier provided by UniProt.
GO / PubMed1 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagDXD18_RS04000Primary locus identifier stored in the genes table.
Old locus tagDXD18_03990Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_QSQM01000001.1Sequence record reported by the local genomic context database.
Genomic interval839 920-841 983 nt2 064 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span839 920-841 983 ntGCF_003437485::NZ_QSQM01000001.1::G00010
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003437485::NZ_QSQM01000001.1::G00010Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_QSQM01000001.1All displayed genes belong to this local TCS context.
Neighborhood span839 920-841 983 nt2 064 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
839 920 nt841 983 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
DXD18_RS04000GCF_003437485#DXD18_RS04000
RRRpfGCurrent focus
839 920-841 983 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003437485#DXD18_RS04000The current gene is the representative for this cluster.
PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.
PFAM architecture for RROC_0032739
Simplified PFAM architecture for RROC_0032739
PFAM domain coverage: 384 / 687 aa (55.9%)
1 aa687 aa
GGDEFResponse_regHD_5
- Simplified architecture: GGDEF + Response_reg + HD_5
- Raw architecture: GGDEF[135-278] | Response_reg[307-418] | HD_5[492-619]
- Domain count: 3
- Matched identifier: RROC_0032739
- Positioned domains: GGDEF 135-278 ; GGDEF 135-278 ; Response_reg 307-418 ; Response_reg 307-418 ; HD_5 492-619 ; HD_5 492-619
Cluster members and taxonomy
Representative gene: GCF_003437485#DXD18_RS04000
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 39 486 · GCF_003437485
AssemblyASM343748v1 · Scaffoldhaploid
Genome composition2 865 423 bp · 41,0% GCDorea formicigenerans
Signal transduction countsGenes 84 · HK 41 · RR 41CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusDorea
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Dorea
Related genes
Preview from the same derived genome key