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Protein

UPF0001 protein YggS

Gene

yggS

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

Functioni

Cofactori

GO - Molecular functioni

  • pyridoxal phosphate binding Source: EcoCyc
Complete GO annotation...

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciEcoCyc:G7527-MONOMER.
ECOL316407:JW2918-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
UPF0001 protein YggS
Gene namesi
Name:yggS
Ordered Locus Names:b2951, JW2918
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12979. yggS.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 234234UPF0001 protein YggSPRO_0000163196Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei36 – 361N6-(pyridoxal phosphate)lysineBy similarity

Proteomic databases

EPDiP67080.
PaxDbiP67080.
PRIDEiP67080.

Interactioni

Protein-protein interaction databases

BioGridi4261786. 34 interactions.
DIPiDIP-12194N.
IntActiP67080. 9 interactions.
MINTiMINT-1236179.
STRINGi511145.b2951.

Structurei

Secondary structure

1
234
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 2119Combined sources
Helixi26 – 283Combined sources
Beta strandi30 – 345Combined sources
Helixi40 – 489Combined sources
Beta strandi53 – 586Combined sources
Helixi59 – 7214Combined sources
Beta strandi78 – 814Combined sources
Helixi87 – 893Combined sources
Helixi90 – 967Combined sources
Beta strandi98 – 1036Combined sources
Helixi106 – 11510Combined sources
Beta strandi123 – 1297Combined sources
Beta strandi138 – 1403Combined sources
Helixi142 – 1443Combined sources
Helixi145 – 1539Combined sources
Beta strandi158 – 1647Combined sources
Helixi173 – 19119Combined sources
Beta strandi199 – 2013Combined sources
Helixi205 – 2073Combined sources
Helixi208 – 2147Combined sources
Beta strandi218 – 2225Combined sources
Helixi223 – 2264Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1W8GX-ray2.00A1-234[»]
3SY1X-ray1.46A1-234[»]
ProteinModelPortaliP67080.
SMRiP67080. Positions 3-228.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP67080.

Family & Domainsi

Sequence similaritiesi

Belongs to the UPF0001 family.Curated

Phylogenomic databases

eggNOGiENOG4105DFA. Bacteria.
COG0325. LUCA.
HOGENOMiHOG000048983.
InParanoidiP67080.
KOiK06997.
OMAiHGSTMVR.
OrthoDBiEOG6G7R84.
PhylomeDBiP67080.

Family and domain databases

Gene3Di3.20.20.10. 1 hit.
InterProiIPR001608. Ala_racemase_N.
IPR029066. PLP-binding_barrel.
IPR011078. UPF0001.
[Graphical view]
PANTHERiPTHR10146. PTHR10146. 1 hit.
PfamiPF01168. Ala_racemase_N. 1 hit.
[Graphical view]
PIRSFiPIRSF004848. YBL036c_PLPDEIII. 1 hit.
SUPFAMiSSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR00044. TIGR00044. 1 hit.
PROSITEiPS01211. UPF0001. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P67080-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNDIAHNLAQ VRDKISAAAT RCGRSPEEIT LLAVSKTKPA SAIAEAIDAG
60 70 80 90 100
QRQFGENYVQ EGVDKIRHFQ ELGVTGLEWH FIGPLQSNKS RLVAEHFDWC
110 120 130 140 150
HTIDRLRIAT RLNDQRPAEL PPLNVLIQIN ISDENSKSGI QLAELDELAA
160 170 180 190 200
AVAELPRLRL RGLMAIPAPE SEYVRQFEVA RQMAVAFAGL KTRYPHIDTL
210 220 230
SLGMSDDMEA AIAAGSTMVR IGTAIFGARD YSKK
Length:234
Mass (Da):25,787
Last modified:October 11, 2004 - v1
Checksum:i2AA431E2D75BCA59
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28377 Genomic DNA. Translation: AAA69118.1.
U00096 Genomic DNA. Translation: AAC75988.1.
AP009048 Genomic DNA. Translation: BAE77014.1.
PIRiF65080.
RefSeqiNP_417426.1. NC_000913.3.
WP_000997795.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75988; AAC75988; b2951.
BAE77014; BAE77014; BAE77014.
GeneIDi947423.
KEGGiecj:JW2918.
eco:b2951.
PATRICi32121314. VBIEscCol129921_3045.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28377 Genomic DNA. Translation: AAA69118.1.
U00096 Genomic DNA. Translation: AAC75988.1.
AP009048 Genomic DNA. Translation: BAE77014.1.
PIRiF65080.
RefSeqiNP_417426.1. NC_000913.3.
WP_000997795.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1W8GX-ray2.00A1-234[»]
3SY1X-ray1.46A1-234[»]
ProteinModelPortaliP67080.
SMRiP67080. Positions 3-228.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261786. 34 interactions.
DIPiDIP-12194N.
IntActiP67080. 9 interactions.
MINTiMINT-1236179.
STRINGi511145.b2951.

Proteomic databases

EPDiP67080.
PaxDbiP67080.
PRIDEiP67080.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75988; AAC75988; b2951.
BAE77014; BAE77014; BAE77014.
GeneIDi947423.
KEGGiecj:JW2918.
eco:b2951.
PATRICi32121314. VBIEscCol129921_3045.

Organism-specific databases

EchoBASEiEB2804.
EcoGeneiEG12979. yggS.

Phylogenomic databases

eggNOGiENOG4105DFA. Bacteria.
COG0325. LUCA.
HOGENOMiHOG000048983.
InParanoidiP67080.
KOiK06997.
OMAiHGSTMVR.
OrthoDBiEOG6G7R84.
PhylomeDBiP67080.

Enzyme and pathway databases

BioCyciEcoCyc:G7527-MONOMER.
ECOL316407:JW2918-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP67080.
PROiP67080.

Family and domain databases

Gene3Di3.20.20.10. 1 hit.
InterProiIPR001608. Ala_racemase_N.
IPR029066. PLP-binding_barrel.
IPR011078. UPF0001.
[Graphical view]
PANTHERiPTHR10146. PTHR10146. 1 hit.
PfamiPF01168. Ala_racemase_N. 1 hit.
[Graphical view]
PIRSFiPIRSF004848. YBL036c_PLPDEIII. 1 hit.
SUPFAMiSSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR00044. TIGR00044. 1 hit.
PROSITEiPS01211. UPF0001. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.

Entry informationi

Entry nameiYGGS_ECOLI
AccessioniPrimary (citable) accession number: P67080
Secondary accession number(s): P52054, Q2M9P2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: October 11, 2004
Last modified: March 16, 2016
This is version 95 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
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

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.