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Protein

Flagellar brake protein YcgR

Gene

ycgR

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Acts as a flagellar brake, regulating swimming and swarming in a bis-(3'-5') cyclic diguanylic acid (c-di-GMP)-dependent manner. When bound to c-di-GMP it binds to elements of the flagellar motor (MotA (PubMed:20303158) and/or FliG and FliM (PubMed:20346719), binding to FliM also occurs in the absence of c-di-GMP), causing the motor to slow down. Thus, increasing levels of c-di-GMP lead to decreased motility. Probably binds 1 c-di-GMP dimer per subunit.4 Publications

GO - Molecular functioni

  • cyclic-di-GMP binding Source: UniProtKB
  • FMN binding Source: InterPro
  • oxidoreductase activity Source: InterPro

GO - Biological processi

  • bacterial-type flagellum-dependent cell motility Source: EcoCyc
  • regulation of bacterial-type flagellum-dependent cell motility by regulation of motor speed Source: UniProtKB
Complete GO annotation...

Keywords - Ligandi

c-di-GMP, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:G6623-MONOMER.
ECOL316407:JW1183-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Flagellar brake protein YcgR
Alternative name(s):
Cyclic di-GMP binding protein YcgR
Gene namesi
Name:ycgR
Ordered Locus Names:b1194, JW1183
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13899. ycgR.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Bacterial flagellum

Pathology & Biotechi

Disruption phenotypei

No visible motility phenotype. Disruption of this gene suppresses the reduced motility of a yhjH disruption, thus the double disruption is motile.2 Publications

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi42 – 421K → D: Suppression of the yhjH disruption motility phenotype. 1 Publication
Mutagenesisi62 – 621N → W: Signficant suppression of the yhjH disruption motility phenotype, less binding to FliG. 1 Publication
Mutagenesisi81 – 811K → D: Signficant suppression of the yhjH disruption motility phenotype, less binding to FliG. 1 Publication
Mutagenesisi118 – 1181R → D: Complete loss of c-di-GMP binding in vitro, suppresses yhjH disruption (PubMed:16920715). Somewhat reduced binding to FliM, stimulated by c-di-GMP, greatly reduced binding to FliG (PubMed:20346719). 2 Publications
Mutagenesisi147 – 1471S → A: Slight increase in affinity for c-di-GMP. 1 Publication
Mutagenesisi223 – 2231Q → P: Signficant suppression of the yhjH disruption motility phenotype, no binding to FliM. 1 Publication
Mutagenesisi223 – 2231Q → W: Signficant suppression of the yhjH disruption motility phenotype. 1 Publication
Mutagenesisi227 – 2271I → W: Some suppression of the yhjH disruption motility phenotype, no binding to FliM. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Flagellar brake protein YcgRPRO_0000168858Add
BLAST

Proteomic databases

PaxDbiP76010.
PRIDEiP76010.

Interactioni

Subunit structurei

Monomer (Probable). Interacts with MotA in the flagellar basal bodies (PubMed:20303158). In another study (PubMed:20346719) it was not seen to interact with MotA, but instead with FliM and FliG, also in the flagellar basal body.Curated3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
fliGP0ABZ13EBI-554507,EBI-1126524
fliMP069743EBI-554507,EBI-560439

Protein-protein interaction databases

BioGridi4260858. 131 interactions.
DIPiDIP-11561N.
IntActiP76010. 7 interactions.
STRINGi511145.b1194.

Structurei

3D structure databases

ProteinModelPortaliP76010.
SMRiP76010. Positions 112-232.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini112 – 230119PilZAdd
BLAST

Domaini

The N-terminal domain is involved in FliG binding, the C-terminal domain is involved in FliM binding.1 Publication
The PilZ domain is able to bind c-di-GMP, but with a lower affinity (dissociation constant of 1.45 µM) compared to the whole protein (dissociation constant of 0.84 µM).1 Publication

Sequence similaritiesi

Belongs to the YcgR family.Curated
Contains 1 PilZ domain.Curated

Phylogenomic databases

eggNOGiENOG4108T7K. Bacteria.
COG5581. LUCA.
HOGENOMiHOG000265609.
OMAiVMIVHAR.

Family and domain databases

Gene3Di2.30.110.10. 1 hit.
HAMAPiMF_01457. YcgR. 1 hit.
InterProiIPR009875. PilZ_domain.
IPR012349. Split_barrel_FMN-bd.
IPR023787. T3SS_YcgR.
IPR009926. T3SS_YcgR_N.
[Graphical view]
PfamiPF07238. PilZ. 1 hit.
PF07317. YcgR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P76010-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSHYHEQFLK QNPLAVLGVL RDLHKAAIPL RLSWNGGQLI SKLLAITPDK
60 70 80 90 100
LVLDFGSQAE DNIAVLKAQH ITITAETQGA KVEFTVEQLQ QSEYLQLPAF
110 120 130 140 150
ITVPPPTLWF VQRRRYFRIS APLHPPYFCQ TKLADNSTLR FRLYDLSLGG
160 170 180 190 200
MGALLETAKP AELQEGMRFA QIEVNMGQWG VFHFDAQLIS ISERKVIDGK
210 220 230 240
NETITTPRLS FRFLNVSPTV ERQLQRIIFS LEREAREKAD KVRD
Length:244
Mass (Da):27,857
Last modified:February 1, 1997 - v1
Checksum:i85D76B51DAC7BAB9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74278.1.
AP009048 Genomic DNA. Translation: BAA36052.2.
PIRiG64865.
RefSeqiNP_415712.1. NC_000913.3.
WP_000020169.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74278; AAC74278; b1194.
BAA36052; BAA36052; BAA36052.
GeneIDi947609.
KEGGiecj:JW1183.
eco:b1194.
PATRICi32117636. VBIEscCol129921_1240.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC74278.1.
AP009048 Genomic DNA. Translation: BAA36052.2.
PIRiG64865.
RefSeqiNP_415712.1. NC_000913.3.
WP_000020169.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP76010.
SMRiP76010. Positions 112-232.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260858. 131 interactions.
DIPiDIP-11561N.
IntActiP76010. 7 interactions.
STRINGi511145.b1194.

Proteomic databases

PaxDbiP76010.
PRIDEiP76010.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74278; AAC74278; b1194.
BAA36052; BAA36052; BAA36052.
GeneIDi947609.
KEGGiecj:JW1183.
eco:b1194.
PATRICi32117636. VBIEscCol129921_1240.

Organism-specific databases

EchoBASEiEB3658.
EcoGeneiEG13899. ycgR.

Phylogenomic databases

eggNOGiENOG4108T7K. Bacteria.
COG5581. LUCA.
HOGENOMiHOG000265609.
OMAiVMIVHAR.

Enzyme and pathway databases

BioCyciEcoCyc:G6623-MONOMER.
ECOL316407:JW1183-MONOMER.

Miscellaneous databases

PROiP76010.

Family and domain databases

Gene3Di2.30.110.10. 1 hit.
HAMAPiMF_01457. YcgR. 1 hit.
InterProiIPR009875. PilZ_domain.
IPR012349. Split_barrel_FMN-bd.
IPR023787. T3SS_YcgR.
IPR009926. T3SS_YcgR_N.
[Graphical view]
PfamiPF07238. PilZ. 1 hit.
PF07317. YcgR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiYCGR_ECOLI
AccessioniPrimary (citable) accession number: P76010
Secondary accession number(s): Q9R7N3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: February 1, 1997
Last modified: September 7, 2016
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.