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Protein

Protein YdcF

Gene

ydcF

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

Functioni

Binds S-adenosyl-L-methionine (AdoMet).

Enzyme and pathway databases

BioCyciEcoCyc:EG12110-MONOMER.
ECOL316407:JW1411-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein YdcF
Gene namesi
Name:ydcF
Ordered Locus Names:b1414, JW1411
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12110. ydcF.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001689291 – 266Protein YdcFAdd BLAST266

Proteomic databases

PaxDbiP34209.
PRIDEiP34209.

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4261553. 9 interactors.
DIPiDIP-11642N.
IntActiP34209. 2 interactors.
STRINGi511145.b1414.

Structurei

Secondary structure

1266
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi11 – 25Combined sources15
Turni29 – 32Combined sources4
Beta strandi38 – 44Combined sources7
Helixi48 – 61Combined sources14
Beta strandi65 – 68Combined sources4
Helixi75 – 83Combined sources9
Helixi88 – 90Combined sources3
Helixi98 – 108Combined sources11
Helixi114 – 116Combined sources3
Beta strandi117 – 120Combined sources4
Helixi126 – 138Combined sources13
Beta strandi147 – 150Combined sources4
Turni153 – 155Combined sources3
Helixi156 – 167Combined sources12
Beta strandi175 – 178Combined sources4
Beta strandi186 – 189Combined sources4
Beta strandi192 – 197Combined sources6
Helixi205 – 219Combined sources15
Beta strandi225 – 227Combined sources3
Turni228 – 231Combined sources4
Helixi241 – 251Combined sources11
Helixi254 – 262Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3CA8X-ray1.80A/B1-266[»]
ProteinModelPortaliP34209.
SMRiP34209.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP34209.

Family & Domainsi

Sequence similaritiesi

To S.coelicolor SCO4629.Curated

Phylogenomic databases

eggNOGiENOG4107DB1. Bacteria.
COG1434. LUCA.
HOGENOMiHOG000120552.
InParanoidiP34209.
OMAiILCQDAT.
PhylomeDBiP34209.

Family and domain databases

CDDicd06259. YdcF-like. 1 hit.
Gene3Di3.40.50.620. 1 hit.
InterProiIPR003848. DUF218.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
PfamiPF02698. DUF218. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P34209-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNITPFPTLS PATIDAINVI GQWLAQDDFS GEVPYQADCV ILAGNAVMPT
60 70 80 90 100
IDAACKIARD QQIPLLISGG IGHSTTFLYS AIAQHPHYNT IRTTGRAEAT
110 120 130 140 150
ILADIAHQFW HIPHEKIWIE DQSTNCGENA RFSIALLNQA VERVHTAIVV
160 170 180 190 200
QDPTMQRRTM ATFRRMTGDN PDAPRWLSYP GFVPQLGNNA DSVIFINQLQ
210 220 230 240 250
GLWPVERYLS LLTGELPRLR DDSDGYGPRG RDFIVHVDFP AEVIHAWQTL
260
KHDAVLIEAM ESRSLR
Length:266
Mass (Da):29,706
Last modified:November 1, 1997 - v3
Checksum:iDA59CFB3D34728A5
GO

Sequence cautioni

The sequence AAA24246 differs from that shown. Reason: Frameshift at positions 8 and 23.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti97A → R in AAA24246 (Ref. 1) Curated1
Sequence conflicti217 – 266PRLRD…SRSLR → RVYAMIAMATVPAGEILSFT LIFRQKSSMHGKR (Ref. 1) CuratedAdd BLAST50

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L09068 Genomic DNA. Translation: AAA24246.1. Frameshift.
U00096 Genomic DNA. Translation: AAC74496.1.
AP009048 Genomic DNA. Translation: BAA15030.1.
PIRiA64893.
RefSeqiNP_415932.1. NC_000913.3.
WP_001027942.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74496; AAC74496; b1414.
BAA15030; BAA15030; BAA15030.
GeneIDi946215.
KEGGiecj:JW1411.
eco:b1414.
PATRICi32118114. VBIEscCol129921_1477.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L09068 Genomic DNA. Translation: AAA24246.1. Frameshift.
U00096 Genomic DNA. Translation: AAC74496.1.
AP009048 Genomic DNA. Translation: BAA15030.1.
PIRiA64893.
RefSeqiNP_415932.1. NC_000913.3.
WP_001027942.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3CA8X-ray1.80A/B1-266[»]
ProteinModelPortaliP34209.
SMRiP34209.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261553. 9 interactors.
DIPiDIP-11642N.
IntActiP34209. 2 interactors.
STRINGi511145.b1414.

Proteomic databases

PaxDbiP34209.
PRIDEiP34209.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74496; AAC74496; b1414.
BAA15030; BAA15030; BAA15030.
GeneIDi946215.
KEGGiecj:JW1411.
eco:b1414.
PATRICi32118114. VBIEscCol129921_1477.

Organism-specific databases

EchoBASEiEB2033.
EcoGeneiEG12110. ydcF.

Phylogenomic databases

eggNOGiENOG4107DB1. Bacteria.
COG1434. LUCA.
HOGENOMiHOG000120552.
InParanoidiP34209.
OMAiILCQDAT.
PhylomeDBiP34209.

Enzyme and pathway databases

BioCyciEcoCyc:EG12110-MONOMER.
ECOL316407:JW1411-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP34209.
PROiP34209.

Family and domain databases

CDDicd06259. YdcF-like. 1 hit.
Gene3Di3.40.50.620. 1 hit.
InterProiIPR003848. DUF218.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
PfamiPF02698. DUF218. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiYDCF_ECOLI
AccessioniPrimary (citable) accession number: P34209
Secondary accession number(s): P77578
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: November 1, 1997
Last modified: November 2, 2016
This is version 111 of the entry and version 3 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.