Gene detail

G4451_RS05565

Response regulator, RpfG family

Fusicatenibacter saccharivorans · GCF_013301135

Open genome Open selected cluster RefSeq

ClassRRTypeRpfGLength665 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_013301135#G4451_RS05565Stable P2CS identifier used across views.

GenomeGCF_013301135Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Fusicatenibacter

Selected clusterRROC_0034526Run 7 · 10 sequences · id 100% · cov 80%

External referencesWP_330427248.1 · MIST4 G4451_RS05565RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

GGDEFResponse_regHD

Protein length665 aaLength used to scale native and Biotite-like views.

Annotated domains33 with usable coordinates.

Domain coverage359 / 665 aa (54.0%)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 aa665 aa

Domain-by-domain annotation3 items

1 GGDEF#1

127-272 aa · 146 aa · 22.0% of protein

Raw tokenGGDEF:127:1.58e-34:272:158:160

2 Response_reg#2

299-412 aa · 114 aa · 17.1% of protein

Raw tokenResponse_reg:299:5.72e-26:412:115:111

3 HD#3

494-592 aa · 99 aa · 14.9% of protein

Raw tokenHD:494:0.000000000000785:592:99:110

Raw architecture: GGDEF:127:1.58e-34:272:158:160#Response_reg:299:5.72e-26:412:115:111#HD:494:0.000000000000785:592:99:110
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 labelorphanGCF_013301135::NZ_JAAINX010000006.1::G00045

Group size11 locus tag listed below.

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

Context span30410-32473Genomic interval covered by the local TCS group.

Identifiers

Old locus tagG4451_05590RefSeq proteinWP_330427248.1

Context group IDGCF_013301135::NZ_JAAINX010000006.1::G00045

Context members

G4451_RS05565

Partner locus tags

G4451_RS05565

Partner old locus tags

G4451_05590

Partner protein IDs

WP_330427248.1

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_330427248.1.

Genomic coordinates

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

Current locus tagG4451_RS05565Primary locus identifier stored in the genes table.

Old locus tagG4451_05590Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JAAINX010000006.1Sequence record reported by the local genomic context database.

Genomic interval30 410-32 473 nt2 064 nt · Reverse (-)

StrandReverse (-)Strand sign follows the local context database convention.

Local TCS group span30 410-32 473 ntGCF_013301135::NZ_JAAINX010000006.1::G00045

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_013301135::NZ_JAAINX010000006.1::G00045

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_JAAINX010000006.1All displayed genes belong to this local TCS context.

Neighborhood span30 410-32 473 nt2 064 nt

Members11 current focus gene

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

30 410 nt32 473 nt

+-G4451_RS05565

Neighborhood gene cards

1 gene in the current local neighborhood.

G4451_RS05565GCF_013301135#G4451_RS05565

RRRpfGCurrent focus

30 410-32 473 nt · Reverse (-)

Old locus G4451_05590RefSeq WP_330427248.1

Open current gene

Clusters

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

Available memberships1 cluster

RROC_0034526RR

Run 710 sequencesid 100%cov 80%

PFAM GGDEF + Response_reg + HD_5

Representative GCF_003482095#DXA93_RS04335

Selected clusterRROC_0034526Run 7 · RR · 10 sequences

Representative sequenceGCF_003482095#DXA93_RS04335Use this link to inspect the representative gene detail.

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

Open in cluster search Open representative gene

PFAM architecture for RROC_0034526

Simplified PFAM architecture for RROC_0034526

PFAM domain coverage: 388 / 665 aa (58.3%)

1 aa665 aa

GGDEFResponse_regHD_5

Simplified architecture: GGDEF + Response_reg + HD_5
Raw architecture: GGDEF[127-271] | Response_reg[299-411] | HD_5[482-611]
Domain count: 3
Matched identifier: RROC_0034526
Positioned domains: GGDEF 127-271 ; GGDEF 127-271 ; Response_reg 299-411 ; Response_reg 299-411 ; HD_5 482-611 ; HD_5 482-611

Cluster members and taxonomy

Representative gene: GCF_003482095#DXA93_RS04335

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 1 150 298 · GCF_013301135

AssemblyASM1330113v1 · Contighaploid

Genome composition3 904 794 bp · 47,0% GCFusicatenibacter saccharivorans

Signal transduction countsGenes 89 · HK 47 · RR 40CheA 0 · PP 2

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusFusicatenibacter

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Fusicatenibacter

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

Related genes

Preview from the same derived genome key