1 GGDEF#1
137-280 aa · 144 aa · 22.0% of protein
Raw token
GGDEF:137:1.27e-36:280:156:160P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ARA08_RS11435
Response regulator, RpfG family
Eubacterium ramulus · GCF_001406295
ClassRRTypeRpfGLength655 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001406295#ARA08_RS11435Stable P2CS identifier used across views.
GenomeGCF_001406295Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Eubacteriaceae; Eubacterium
Domain signature
Compact overview inferred from the domain field
GGDEFResponse_regHD
Protein length655 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage383 / 655 aa (58.5%)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 aa655 aa
Domain-by-domain annotation3 items
2 Response_reg#2
308-413 aa · 106 aa · 16.2% of protein
Raw token
Response_reg:308:1.08e-22:413:107:1113 HD#3
469-601 aa · 133 aa · 20.3% of protein
Raw token
HD:469:0.000000000000116:601:133:110- Raw architecture: GGDEF:137:1.27e-36:280:156:160#Response_reg:308:1.08e-22:413:107:111#HD:469:0.000000000000116:601:133:110
- 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_001406295::NZ_CYYA01000018.1::G00029
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span12001-13968Genomic interval covered by the local TCS group.
Identifiers
Old locus tagERS852448_02338RefSeq proteinWP_055290624.1
Context group ID
GCF_001406295::NZ_CYYA01000018.1::G00029Context members
ARA08_RS11435
Partner locus tags
ARA08_RS11435
Partner old locus tags
ERS852448_02338
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_055290624.1Primary protein accession used for annex mappings.
UniProt accessionA0A173UXI5Primary UniProt accession resolved in the annex database.
UniProt IDA0A173UXI5_EUBRADisplay identifier provided by UniProt.
GO / PubMed2 / 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 tagARA08_RS11435Primary locus identifier stored in the genes table.
Old locus tagERS852448_02338Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CYYA01000018.1Sequence record reported by the local genomic context database.
Genomic interval12 001-13 968 nt1 968 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span12 001-13 968 ntGCF_001406295::NZ_CYYA01000018.1::G00029
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001406295::NZ_CYYA01000018.1::G00029Graphic 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_CYYA01000018.1All displayed genes belong to this local TCS context.
Neighborhood span12 001-13 968 nt1 968 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
12 001 nt13 968 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
ARA08_RS11435GCF_001406295#ARA08_RS11435
RRRpfGCurrent focus
12 001-13 968 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001406295#ARA08_RS11435The current gene is the representative for this cluster.
PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.
PFAM architecture for RROC_0035516
Simplified PFAM architecture for RROC_0035516
PFAM domain coverage: 399 / 655 aa (60.9%)
1 aa655 aa
GGDEFResponse_regHD_5
- Simplified architecture: GGDEF + Response_reg + HD_5
- Raw architecture: GGDEF[137-280] | Response_reg[308-420] | HD_5[480-621]
- Domain count: 3
- Matched identifier: RROC_0035516
- Positioned domains: GGDEF 137-280 ; GGDEF 137-280 ; Response_reg 308-420 ; Response_reg 308-420 ; HD_5 480-621 ; HD_5 480-621
Cluster members and taxonomy
Representative gene: GCF_001406295#ARA08_RS11435
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 39 490 · GCF_001406295
Assembly13414_6#75 · Scaffoldhaploid
Genome composition3 307 376 bp · 43,0% GCEubacterium ramulus
Signal transduction countsGenes 68 · HK 34 · RR 33CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyEubacteriaceaeGenusEubacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Eubacteriaceae7Eubacterium
Related genes
Preview from the same derived genome key