Gene detail

CGS46_RS01135

Response regulator, RpfG family

Faecalibacterium prausnitzii · GCF_002549755

Open genome Open selected cluster RefSeq

ClassRRTypeRpfGLength640 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_002549755#CGS46_RS01135Stable P2CS identifier used across views.

GenomeGCF_002549755Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Oscillospiraceae; Faecalibacterium

Selected clusterRROC_0037384Run 7 · 2 sequences · id 100% · cov 80% · representative

External referencesWP_179859584.1 · MIST4 CGS46_RS01135RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

GGDEFResponse_regHD

Protein length640 aaLength used to scale native and Biotite-like views.

Annotated domains33 with usable coordinates.

Domain coverage356 / 640 aa (55.6%)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

Domain view

Native Biotite-like

Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.

1 aa640 aa

Domain-by-domain annotation3 items

1 GGDEF#1

128-264 aa · 137 aa · 21.4% of protein

Raw tokenGGDEF:128:3.78e-18:264:150:160

2 Response_reg#2

294-406 aa · 113 aa · 17.7% of protein

Raw tokenResponse_reg:294:9.27e-29:406:114:111

3 HD#3

482-587 aa · 106 aa · 16.6% of protein

Raw tokenHD:482:0.0000000000155:587:106:110

Raw architecture: GGDEF:128:3.78e-18:264:150:160#Response_reg:294:9.27e-29:406:114:111#HD:482:0.0000000000155:587:106:110
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_002549755::NZ_NMTQ01000011.1::G00011

Group size11 locus tag listed below.

HK / RR0 / 1Counts resolved for the local TCS neighborhood.

Context span8883-10805Genomic interval covered by the local TCS group.

Identifiers

Old locus tagCGS46_01130RefSeq proteinWP_179859584.1

Context group IDGCF_002549755::NZ_NMTQ01000011.1::G00011

Context members

CGS46_RS01135

Partner locus tags

CGS46_RS01135

Partner old locus tags

CGS46_01130

Partner protein IDs

WP_179859584.1

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_179859584.1.

Genomic coordinates

Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table

Current locus tagCGS46_RS01135Primary locus identifier stored in the genes table.

Old locus tagCGS46_01130Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_NMTQ01000011.1Sequence record reported by the local genomic context database.

Genomic interval8 883-10 805 nt1 923 nt · Forward (+)

StrandForward (+)Strand sign follows the local context database convention.

Local TCS group span8 883-10 805 ntGCF_002549755::NZ_NMTQ01000011.1::G00011

Quick actions

Open genome Search genes in genome

Local neighborhood

Graphical neighborhood resolved from the local TCS context group on the current contig

GCF_002549755::NZ_NMTQ01000011.1::G00011

Graphic view

Compact Biotite-like

Zoom

Full window Focus gene

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_NMTQ01000011.1All displayed genes belong to this local TCS context.

Neighborhood span8 883-10 805 nt1 923 nt

Members11 current focus gene

Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.

8 883 nt10 805 nt

+-CGS46_RS01135

Neighborhood gene cards

1 gene in the current local neighborhood.

CGS46_RS01135GCF_002549755#CGS46_RS01135

RRRpfGCurrent focus

8 883-10 805 nt · Forward (+)

Old locus CGS46_01130RefSeq WP_179859584.1

Open current gene

Clusters

CD-HIT memberships and selected cluster details for the current gene class

Available memberships1 cluster

RROC_0037384RR

Run 72 sequencesid 100%cov 80%

PFAM GGDEF + Response_reg + HD_5

Current gene is the representative sequence.

Selected clusterRROC_0037384Run 7 · RR · 2 sequences

Representative sequenceGCF_002549755#CGS46_RS01135The current gene is the representative for this cluster.

PFAM architectureGGDEF + Response_reg + HD_53 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for RROC_0037384

Simplified PFAM architecture for RROC_0037384

PFAM domain coverage: 393 / 640 aa (61.4%)

1 aa640 aa

GGDEFResponse_regHD_5

Simplified architecture: GGDEF + Response_reg + HD_5
Raw architecture: GGDEF[128-270] | Response_reg[294-406] | HD_5[470-606]
Domain count: 3
Matched identifier: RROC_0037384
Positioned domains: GGDEF 128-270 ; GGDEF 128-270 ; Response_reg 294-406 ; Response_reg 294-406 ; HD_5 470-606 ; HD_5 470-606

Cluster members and taxonomy

Representative gene: GCF_002549755#CGS46_RS01135

Sankey plot built from the taxonomy of all members in the selected cluster.

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 853 · GCF_002549755

AssemblyASM254975v1 · Scaffoldhaploid

Genome composition3 043 493 bp · 55,5% GCFaecalibacterium prausnitzii

Signal transduction countsGenes 38 · HK 18 · RR 19CheA 0 · PP 1

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyOscillospiraceaeGenusFaecalibacterium

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Oscillospiraceae7Faecalibacterium

Open genome Search genes in genome Search RR genes NCBI assembly files

Related genes

Preview from the same derived genome key