1 GGDEF#1
135-276 aa · 142 aa · 21.2% of protein
Raw token
GGDEF:135:3.61e-38:276:153:160P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
I4V84_RS10935
Response regulator, RpfG family
Ruminococcus sp. 1001713B170207_170306_F1 · GCF_015668065
ClassRRTypeRpfGLength670 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_015668065#I4V84_RS10935Stable P2CS identifier used across views.
GenomeGCF_015668065Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Oscillospiraceae; Ruminococcus
Domain signature
Compact overview inferred from the domain field
GGDEFResponse_regHD
Protein length670 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage348 / 670 aa (51.9%)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 aa670 aa
Domain-by-domain annotation3 items
2 Response_reg#2
308-414 aa · 107 aa · 16.0% of protein
Raw token
Response_reg:308:6.76e-26:414:108:1113 HD#3
503-601 aa · 99 aa · 14.8% of protein
Raw token
HD:503:0.00000000000696:601:99:110- Raw architecture: GGDEF:135:3.61e-38:276:153:160#Response_reg:308:6.76e-26:414:108:111#HD:503:0.00000000000696:601:99:110
- 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 labelpairedGCF_015668065::NZ_JADPEX010000016.1::G00013
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span62320-66040Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_015668065::NZ_JADPEX010000016.1::G00013Context members
I4V84_RS10935I4V84_RS10940
Partner locus tags
I4V84_RS10935I4V84_RS10940
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_195991964.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagI4V84_RS10935Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_JADPEX010000016.1Sequence record reported by the local genomic context database.
Genomic interval62 320-64 332 nt2 013 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span62 320-66 040 ntGCF_015668065::NZ_JADPEX010000016.1::G00013
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015668065::NZ_JADPEX010000016.1::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_JADPEX010000016.1All displayed genes belong to this local TCS context.
Neighborhood span62 320-66 040 nt3 721 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
62 320 nt66 040 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
I4V84_RS10935GCF_015668065#I4V84_RS10935
RRRpfGCurrent focus
62 320-64 332 nt · Forward (+)
I4V84_RS10940GCF_015668065#I4V84_RS10940
HKClassic
64 454-66 040 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_015668065#I4V84_RS10935The current gene is the representative for this cluster.
PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.
PFAM architecture for RROC_0034180
Simplified PFAM architecture for RROC_0034180
PFAM domain coverage: 386 / 670 aa (57.6%)
1 aa670 aa
GGDEFResponse_regHD_5
- Simplified architecture: GGDEF + Response_reg + HD_5
- Raw architecture: GGDEF[135-279] | Response_reg[308-418] | HD_5[492-621]
- Domain count: 3
- Matched identifier: RROC_0034180
- Positioned domains: GGDEF 135-279 ; Response_reg 308-418 ; HD_5 492-621
Cluster members and taxonomy
Representative gene: GCF_015668065#I4V84_RS10935
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 2 787 106 · GCF_015668065
AssemblyASM1566806v1 · Scaffoldhaploid
Genome composition4 260 374 bp · 43,0% GCRuminococcus sp. 1001713B170207_170306_F1
Signal transduction countsGenes 123 · HK 63 · RR 58CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyOscillospiraceaeGenusRuminococcus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Oscillospiraceae7Ruminococcus
Related genes
Preview from the same derived genome key