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Protein

Putative pyruvate formate-lyase 3-activating enzyme

Gene

ybiY

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Activation of pyruvate formate-lyase 2 under anaerobic conditions by generation of an organic free radical, using S-adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine.By similarity

Catalytic activityi

S-adenosyl-L-methionine + dihydroflavodoxin + [formate C-acetyltransferase]-glycine = 5'-deoxyadenosine + L-methionine + flavodoxin semiquinone + [formate C-acetyltransferase]-glycin-2-yl radical.

Cofactori

[4Fe-4S] clusterBy similarityNote: Binds 1 [4Fe-4S] cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi25Iron-sulfur (4Fe-4S-S-AdoMet)By similarity1
Metal bindingi29Iron-sulfur (4Fe-4S-S-AdoMet)By similarity1
Metal bindingi32Iron-sulfur (4Fe-4S-S-AdoMet)By similarity1
Binding sitei132S-adenosyl-L-methionine; via carbonyl oxygenBy similarity1
Binding sitei254S-adenosyl-L-methionine; via amide nitrogen and carbonyl oxygenBy similarity1

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciEcoCyc:G6427-MONOMER.
ECOL316407:JW0808-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative pyruvate formate-lyase 3-activating enzyme (EC:1.97.1.4)
Alternative name(s):
Formate-C-acetyltransferase-activating enzyme 3
PFL-activating enzyme 3
Gene namesi
Name:ybiY
Ordered Locus Names:b0824, JW0808
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13470. ybiY.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002005281 – 299Putative pyruvate formate-lyase 3-activating enzymeAdd BLAST299

Proteomic databases

PaxDbiP75794.
PRIDEiP75794.

Interactioni

Protein-protein interaction databases

BioGridi4262835. 11 interactors.
DIPiDIP-11444N.
IntActiP75794. 5 interactors.
MINTiMINT-1313356.
STRINGi511145.b0824.

Structurei

3D structure databases

ProteinModelPortaliP75794.
SMRiP75794.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni31 – 33S-adenosyl-L-methionine bindingBy similarity3
Regioni181 – 183S-adenosyl-L-methionine bindingBy similarity3

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105F1A. Bacteria.
COG1180. LUCA.
HOGENOMiHOG000011459.
InParanoidiP75794.
KOiK04069.
PhylomeDBiP75794.

Family and domain databases

InterProiIPR012839. Organic_radical_activase.
IPR001989. Radical_activat_CS.
IPR007197. rSAM.
[Graphical view]
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFiPIRSF000371. PFL_act_enz. 1 hit.
TIGRFAMsiTIGR02494. PFLE_PFLC. 1 hit.
PROSITEiPS01087. RADICAL_ACTIVATING. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P75794-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIFNIQRYST HDGPGIRTVV FLKGCSLGCR WCQNPESRAR TQDLLYDARL
60 70 80 90 100
CLEGCELCAK AAPEVIERAL NGLLIHREKL TPEHLTALTD CCPTQALTVC
110 120 130 140 150
GEVKSVEEIM TTVLRDKPFY DRSGGGLTLS GGEPFMQPEM AMALLQASHE
160 170 180 190 200
AGIHTAVETC LHVPWKYIAP SLPYIDLFLA DLKHVADAPF KQWTDGNAAR
210 220 230 240 250
VLDNLKKLAA AGKKIIIRVP LIQGFNADET SVKAITDFAA DELHVGEIHF
260 270 280 290
LPYHTLGINK YHLLNLPYDA PEKPLDAPEL LDFAQQYACQ KGLTATLRG
Length:299
Mass (Da):33,038
Last modified:November 24, 2009 - v2
Checksum:iCA8AFB4C956E732C
GO

Sequence cautioni

The sequence BAA35512 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC73911.2.
AP009048 Genomic DNA. Translation: BAA35512.1. Different initiation.
PIRiH64819.
RefSeqiNP_415345.2. NC_000913.3.
WP_001295295.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73911; AAC73911; b0824.
BAA35512; BAA35512; BAA35512.
GeneIDi945445.
KEGGiecj:JW0808.
eco:b0824.
PATRICi32116851. VBIEscCol129921_0851.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC73911.2.
AP009048 Genomic DNA. Translation: BAA35512.1. Different initiation.
PIRiH64819.
RefSeqiNP_415345.2. NC_000913.3.
WP_001295295.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP75794.
SMRiP75794.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262835. 11 interactors.
DIPiDIP-11444N.
IntActiP75794. 5 interactors.
MINTiMINT-1313356.
STRINGi511145.b0824.

Proteomic databases

PaxDbiP75794.
PRIDEiP75794.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73911; AAC73911; b0824.
BAA35512; BAA35512; BAA35512.
GeneIDi945445.
KEGGiecj:JW0808.
eco:b0824.
PATRICi32116851. VBIEscCol129921_0851.

Organism-specific databases

EchoBASEiEB3243.
EcoGeneiEG13470. ybiY.

Phylogenomic databases

eggNOGiENOG4105F1A. Bacteria.
COG1180. LUCA.
HOGENOMiHOG000011459.
InParanoidiP75794.
KOiK04069.
PhylomeDBiP75794.

Enzyme and pathway databases

BioCyciEcoCyc:G6427-MONOMER.
ECOL316407:JW0808-MONOMER.

Miscellaneous databases

PROiP75794.

Family and domain databases

InterProiIPR012839. Organic_radical_activase.
IPR001989. Radical_activat_CS.
IPR007197. rSAM.
[Graphical view]
PfamiPF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFiPIRSF000371. PFL_act_enz. 1 hit.
TIGRFAMsiTIGR02494. PFLE_PFLC. 1 hit.
PROSITEiPS01087. RADICAL_ACTIVATING. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPFLE_ECOLI
AccessioniPrimary (citable) accession number: P75794
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: November 24, 2009
Last modified: November 2, 2016
This is version 141 of the entry and version 2 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.