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Protein

Uncharacterized lipoprotein YgdR

Gene

ygdR

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Enzyme and pathway databases

BioCyciEcoCyc:G7461-MONOMER.
ECOL316407:JW2801-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Uncharacterized lipoprotein YgdR
Gene namesi
Name:ygdR
Ordered Locus Names:b2833, JW2801
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13076. ygdR.

Subcellular locationi

  • Cell membrane PROSITE-ProRule annotation; Lipid-anchor PROSITE-ProRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 19PROSITE-ProRule annotationAdd BLAST19
ChainiPRO_000001805020 – 72Uncharacterized lipoprotein YgdRAdd BLAST53

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Lipidationi20N-palmitoyl cysteinePROSITE-ProRule annotation1
Lipidationi20S-diacylglycerol cysteinePROSITE-ProRule annotation1

Keywords - PTMi

Lipoprotein, Palmitate

Proteomic databases

PaxDbiP65294.
PRIDEiP65294.

Interactioni

Protein-protein interaction databases

BioGridi4262302. 11 interactors.
IntActiP65294. 1 interactor.
STRINGi511145.b2833.

Structurei

Secondary structure

172
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi23 – 28Combined sources6
Beta strandi33 – 35Combined sources3
Beta strandi41 – 43Combined sources3
Turni44 – 47Combined sources4
Beta strandi48 – 52Combined sources5
Beta strandi54 – 56Combined sources3
Beta strandi58 – 62Combined sources5
Helixi63 – 65Combined sources3
Beta strandi66 – 72Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JN0NMR-A21-72[»]
3FIFX-ray2.70A/B/C/D/E/F/G/H21-72[»]
ProteinModelPortaliP65294.
SMRiP65294.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP65294.

Family & Domainsi

Sequence similaritiesi

To E.coli YgdI.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4105SUV. Bacteria.
ENOG4111UKF. LUCA.
HOGENOMiHOG000282509.
OMAiAVMISGC.

Family and domain databases

InterProiIPR010305. DUF903.
IPR010920. LSM_dom.
[Graphical view]
PfamiPF06004. DUF903. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.
PROSITEiPS51257. PROKAR_LIPOPROTEIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P65294-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKWAVIISA VGLAFAVSGC SSDYVMATKD GRMILTDGKP EIDDDTGLVS
60 70
YHDQQGNAMQ INRDDVSQII ER
Length:72
Mass (Da):7,877
Last modified:October 11, 2004 - v1
Checksum:i7E053CA350712598
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29581 Genomic DNA. Translation: AAB40480.1.
U00096 Genomic DNA. Translation: AAC75872.1.
AP009048 Genomic DNA. Translation: BAE76902.1.
PIRiB65066.
RefSeqiNP_417310.1. NC_000913.3.
WP_000758655.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75872; AAC75872; b2833.
BAE76902; BAE76902; BAE76902.
GeneIDi947304.
KEGGiecj:JW2801.
eco:b2833.
PATRICi32121084. VBIEscCol129921_2931.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29581 Genomic DNA. Translation: AAB40480.1.
U00096 Genomic DNA. Translation: AAC75872.1.
AP009048 Genomic DNA. Translation: BAE76902.1.
PIRiB65066.
RefSeqiNP_417310.1. NC_000913.3.
WP_000758655.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JN0NMR-A21-72[»]
3FIFX-ray2.70A/B/C/D/E/F/G/H21-72[»]
ProteinModelPortaliP65294.
SMRiP65294.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262302. 11 interactors.
IntActiP65294. 1 interactor.
STRINGi511145.b2833.

Proteomic databases

PaxDbiP65294.
PRIDEiP65294.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75872; AAC75872; b2833.
BAE76902; BAE76902; BAE76902.
GeneIDi947304.
KEGGiecj:JW2801.
eco:b2833.
PATRICi32121084. VBIEscCol129921_2931.

Organism-specific databases

EchoBASEiEB2886.
EcoGeneiEG13076. ygdR.

Phylogenomic databases

eggNOGiENOG4105SUV. Bacteria.
ENOG4111UKF. LUCA.
HOGENOMiHOG000282509.
OMAiAVMISGC.

Enzyme and pathway databases

BioCyciEcoCyc:G7461-MONOMER.
ECOL316407:JW2801-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP65294.
PROiP65294.

Family and domain databases

InterProiIPR010305. DUF903.
IPR010920. LSM_dom.
[Graphical view]
PfamiPF06004. DUF903. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.
PROSITEiPS51257. PROKAR_LIPOPROTEIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiYGDR_ECOLI
AccessioniPrimary (citable) accession number: P65294
Secondary accession number(s): Q2MA04, Q46932
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: October 11, 2004
Last modified: November 2, 2016
This is version 78 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

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.