1 GGDEF#1
136-277 aa · 142 aa · 21.8% of protein
Raw token
GGDEF:136:2.5e-38:277:154:160P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
G4388_RS06315
Response regulator, RpfG family
Coprococcus comes · GCF_013301465
ClassRRTypeRpfGLength651 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_013301465#G4388_RS06315Stable P2CS identifier used across views.
GenomeGCF_013301465Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Coprococcus
Domain signature
Compact overview inferred from the domain field
GGDEFResponse_regHD
Protein length651 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage374 / 651 aa (57.5%)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 aa651 aa
Domain-by-domain annotation3 items
2 Response_reg#2
306-410 aa · 105 aa · 16.1% of protein
Raw token
Response_reg:306:1.7e-28:410:106:1113 HD#3
473-599 aa · 127 aa · 19.5% of protein
Raw token
HD:473:0.000000000000185:599:127:110- Raw architecture: GGDEF:136:2.5e-38:277:154:160#Response_reg:306:1.7e-28:410:106:111#HD:473:0.000000000000185:599:127:110
- 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_013301465::NZ_JAAIOJ010000006.1::G00048
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span61662-63617Genomic interval covered by the local TCS group.
Identifiers
Old locus tagG4388_06320RefSeq proteinWP_055249044.1
Context group ID
GCF_013301465::NZ_JAAIOJ010000006.1::G00048Context members
G4388_RS06315
Partner locus tags
G4388_RS06315
Partner old locus tags
G4388_06320
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_055249044.1Primary protein accession used for annex mappings.
UniProt accessionA0A174DCR1Primary UniProt accession resolved in the annex database.
UniProt IDA0A174DCR1_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 tagG4388_RS06315Primary locus identifier stored in the genes table.
Old locus tagG4388_06320Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAAIOJ010000006.1Sequence record reported by the local genomic context database.
Genomic interval61 662-63 617 nt1 956 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span61 662-63 617 ntGCF_013301465::NZ_JAAIOJ010000006.1::G00048
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_013301465::NZ_JAAIOJ010000006.1::G00048Graphic 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_JAAIOJ010000006.1All displayed genes belong to this local TCS context.
Neighborhood span61 662-63 617 nt1 956 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
61 662 nt63 617 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
G4388_RS06315GCF_013301465#G4388_RS06315
RRRpfGCurrent focus
61 662-63 617 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001404595#AQ998_RS12695Use this link to inspect the representative gene detail.
PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.
PFAM architecture for RROC_0035963
Simplified PFAM architecture for RROC_0035963
PFAM domain coverage: 386 / 651 aa (59.3%)
1 aa651 aa
GGDEFResponse_regHD_5
- Simplified architecture: GGDEF + Response_reg + HD_5
- Raw architecture: GGDEF[136-279] | Response_reg[306-417] | HD_5[491-620]
- Domain count: 3
- Matched identifier: RROC_0035963
- Positioned domains: GGDEF 136-279 ; GGDEF 136-279 ; Response_reg 306-417 ; Response_reg 306-417 ; HD_5 491-620 ; HD_5 491-620
Cluster members and taxonomy
Representative gene: GCF_001404595#AQ998_RS12695
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 410 072 · GCF_013301465
AssemblyASM1330146v1 · Contighaploid
Genome composition3 191 192 bp · 42,5% GCCoprococcus comes
Signal transduction countsGenes 90 · HK 46 · RR 43CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusCoprococcus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Coprococcus
Related genes
Preview from the same derived genome key