1 GGDEF#1
131-274 aa · 144 aa · 22.3% of protein
Raw token
GGDEF:131:2.33e-37:274:156:160P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0373_RS09055
Response regulator, RpfG family
Eubacterium ramulus ATCC 29099 · GCF_000469345
ClassRRTypeRpfGLength645 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000469345#HMPREF0373_RS09055Stable P2CS identifier used across views.
GenomeGCF_000469345Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Eubacteriaceae; Eubacterium
Domain signature
Compact overview inferred from the domain field
GGDEFResponse_regHD
Protein length645 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage383 / 645 aa (59.4%)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 aa645 aa
Domain-by-domain annotation3 items
2 Response_reg#2
302-407 aa · 106 aa · 16.4% of protein
Raw token
Response_reg:302:8.83e-23:407:107:1113 HD#3
463-595 aa · 133 aa · 20.6% of protein
Raw token
HD:463:0.000000000000123:595:133:110- Raw architecture: GGDEF:131:2.33e-37:274:156:160#Response_reg:302:8.83e-23:407:107:111#HD:463:0.000000000000123:595:133:110
- 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_000469345::NZ_KI271134.1::G00033
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span17234-19169Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0373_00236RefSeq proteinWP_242831200.1
Context group ID
GCF_000469345::NZ_KI271134.1::G00033Context members
HMPREF0373_RS09055
Partner locus tags
HMPREF0373_RS09055
Partner old locus tags
HMPREF0373_00236
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_242831200.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF0373_RS09055Primary locus identifier stored in the genes table.
Old locus tagHMPREF0373_00236Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KI271134.1Sequence record reported by the local genomic context database.
Genomic interval17 234-19 169 nt1 936 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span17 234-19 169 ntGCF_000469345::NZ_KI271134.1::G00033
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000469345::NZ_KI271134.1::G00033Graphic 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_KI271134.1All displayed genes belong to this local TCS context.
Neighborhood span17 234-19 169 nt1 936 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
17 234 nt19 169 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
HMPREF0373_RS09055GCF_000469345#HMPREF0373_RS09055
RRRpfGCurrent focus
17 234-19 169 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000469345#HMPREF0373_RS09055The current gene is the representative for this cluster.
PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.
PFAM architecture for RROC_0036787
Simplified PFAM architecture for RROC_0036787
PFAM domain coverage: 397 / 645 aa (61.6%)
1 aa645 aa
GGDEFResponse_regHD_5
- Simplified architecture: GGDEF + Response_reg + HD_5
- Raw architecture: GGDEF[131-274] | Response_reg[302-414] | HD_5[476-615]
- Domain count: 3
- Matched identifier: RROC_0036787
- Positioned domains: GGDEF 131-274 ; GGDEF 131-274 ; Response_reg 302-414 ; Response_reg 302-414 ; HD_5 476-615 ; HD_5 476-615
Cluster members and taxonomy
Representative gene: GCF_000469345#HMPREF0373_RS09055
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