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P37672

- DLGD_ECOLI

UniProt

P37672 - DLGD_ECOLI

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Protein

2,3-diketo-L-gulonate reductase

Gene

dlgD

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

Catalyzes the reduction of 2,3-diketo-L-gulonate in the presence of NADH, to form 3-keto-L-gulonate.1 Publication

Catalytic activityi

3-dehydro-L-gulonate + NAD(P)+ = (4R,5S)-4,5,6-trihydroxy-2,3-dioxohexanoate + NAD(P)H.

Enzyme regulationi

The enzyme is inhibited by tartrate and D-malate.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei44 – 441Proton donorCurated

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi168 – 1747NAD
Nucleotide bindingi224 – 2252NAD
Nucleotide bindingi304 – 3063NAD

GO - Molecular functioni

  1. 3-dehydro-L-gulonate 2-dehydrogenase activity Source: UniProtKB-HAMAP
  2. NAD+ binding Source: InterPro
  3. oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciEcoCyc:EG12279-MONOMER.
ECOL316407:JW3547-MONOMER.
MetaCyc:EG12279-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
2,3-diketo-L-gulonate reductase (EC:1.1.1.130)
Short name:
2,3-DKG reductase
Alternative name(s):
3-dehydro-L-gulonate 2-dehydrogenase
Gene namesi
Name:dlgD
Synonyms:yiaK
Ordered Locus Names:b3575, JW3547
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG12279. dlgD.

Subcellular locationi

Cytoplasm Curated

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 3323322,3-diketo-L-gulonate reductasePRO_0000083830Add
BLAST

Proteomic databases

PRIDEiP37672.

Expressioni

Gene expression databases

GenevestigatoriP37672.

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi511145.b3575.

Structurei

Secondary structure

1
332
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi5 – 1814Combined sources
Helixi23 – 3816Combined sources
Turni43 – 453Combined sources
Helixi46 – 483Combined sources
Helixi49 – 579Combined sources
Beta strandi68 – 736Combined sources
Beta strandi76 – 805Combined sources
Helixi86 – 10419Combined sources
Beta strandi105 – 11410Combined sources
Helixi121 – 1299Combined sources
Beta strandi133 – 1386Combined sources
Beta strandi149 – 1513Combined sources
Beta strandi159 – 1635Combined sources
Beta strandi169 – 1735Combined sources
Beta strandi175 – 1784Combined sources
Helixi180 – 1889Combined sources
Beta strandi203 – 2064Combined sources
Helixi209 – 2157Combined sources
Turni221 – 2233Combined sources
Helixi224 – 24118Combined sources
Helixi246 – 2527Combined sources
Beta strandi254 – 2563Combined sources
Beta strandi258 – 2669Combined sources
Turni269 – 2713Combined sources
Helixi274 – 28916Combined sources
Beta strandi293 – 2953Combined sources
Turni303 – 3053Combined sources
Helixi306 – 31712Combined sources
Helixi323 – 3319Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1NXUX-ray1.80A/B1-332[»]
1S20X-ray2.20A/B/C/D/E/F/G/H1-332[»]
ProteinModelPortaliP37672.
SMRiP37672. Positions 1-332.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP37672.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG2055.
HOGENOMiHOG000249660.
KOiK08092.
OMAiGHEFTTI.
OrthoDBiEOG6QK4PJ.
PhylomeDBiP37672.

Family and domain databases

HAMAPiMF_00820. Diketo_gul_reduc.
InterProiIPR023689. Diketo_gul_Rdtase.
IPR003767. Malate/L-lactate_DH.
[Graphical view]
PANTHERiPTHR11091. PTHR11091. 1 hit.
PfamiPF02615. Ldh_2. 1 hit.
[Graphical view]
SUPFAMiSSF89733. SSF89733. 1 hit.

Sequencei

Sequence statusi: Complete.

P37672-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKVTFEQLKA AFNRVLISRG VDSETADACA EMFARTTESG VYSHGVNRFP
60 70 80 90 100
RFIQQLENGD IIPDAQPKRI TSLGAIEQWD AQRSIGNLTA KKMMDRAIEL
110 120 130 140 150
AADHGIGLVA LRNANHWMRG GSYGWQAAEK GYIGICWTNS IAVMPPWGAK
160 170 180 190 200
ECRIGTNPLI VAIPSTPITM VDMSMSMFSY GMLEVNRLAG RQLPVDGGFD
210 220 230 240 250
DEGNLTKEPG VIEKNRRILP MGYWKGSGMS IVLDMIATLL SDGASVAEVT
260 270 280 290 300
QDNSDEYGIS QIFIAIEVDK LIDGPTRDAK LQRIMDYVTS AERADENQAI
310 320 330
RLPGHEFTTL LAENRRNGIT VDDSVWAKIQ AL
Length:332
Mass (Da):36,573
Last modified:November 1, 1997 - v2
Checksum:iA411EB14D5C03DF7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00039 Genomic DNA. Translation: AAB18552.1.
U00096 Genomic DNA. Translation: AAC76599.1.
AP009048 Genomic DNA. Translation: BAE77718.1.
AJ223475 Genomic DNA. Translation: CAA11398.1.
PIRiA65157.
RefSeqiNP_418032.1. NC_000913.3.
YP_491859.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76599; AAC76599; b3575.
BAE77718; BAE77718; BAE77718.
GeneIDi12933552.
948096.
KEGGiecj:Y75_p3600.
eco:b3575.
PATRICi32122626. VBIEscCol129921_3690.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00039 Genomic DNA. Translation: AAB18552.1 .
U00096 Genomic DNA. Translation: AAC76599.1 .
AP009048 Genomic DNA. Translation: BAE77718.1 .
AJ223475 Genomic DNA. Translation: CAA11398.1 .
PIRi A65157.
RefSeqi NP_418032.1. NC_000913.3.
YP_491859.1. NC_007779.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1NXU X-ray 1.80 A/B 1-332 [» ]
1S20 X-ray 2.20 A/B/C/D/E/F/G/H 1-332 [» ]
ProteinModelPortali P37672.
SMRi P37672. Positions 1-332.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 511145.b3575.

Proteomic databases

PRIDEi P37672.

Protocols and materials databases

DNASUi 948096.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC76599 ; AAC76599 ; b3575 .
BAE77718 ; BAE77718 ; BAE77718 .
GeneIDi 12933552.
948096.
KEGGi ecj:Y75_p3600.
eco:b3575.
PATRICi 32122626. VBIEscCol129921_3690.

Organism-specific databases

EchoBASEi EB2187.
EcoGenei EG12279. dlgD.

Phylogenomic databases

eggNOGi COG2055.
HOGENOMi HOG000249660.
KOi K08092.
OMAi GHEFTTI.
OrthoDBi EOG6QK4PJ.
PhylomeDBi P37672.

Enzyme and pathway databases

BioCyci EcoCyc:EG12279-MONOMER.
ECOL316407:JW3547-MONOMER.
MetaCyc:EG12279-MONOMER.

Miscellaneous databases

EvolutionaryTracei P37672.
PROi P37672.

Gene expression databases

Genevestigatori P37672.

Family and domain databases

HAMAPi MF_00820. Diketo_gul_reduc.
InterProi IPR023689. Diketo_gul_Rdtase.
IPR003767. Malate/L-lactate_DH.
[Graphical view ]
PANTHERi PTHR11091. PTHR11091. 1 hit.
Pfami PF02615. Ldh_2. 1 hit.
[Graphical view ]
SUPFAMi SSF89733. SSF89733. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76.0 to 81.5 minutes."
    Sofia H.J., Burland V., Daniels D.L., Plunkett G. III, Blattner F.R.
    Nucleic Acids Res. 22:2576-2586(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "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.
  4. "A rare 920-kilobase chromosomal inversion mediated by IS1 transposition causes constitutive expression of the yiaK-S operon for carbohydrate utilization in Escherichia coli."
    Badia J., Ibanez E., Sabate M., Baldoma L., Aguilar J.
    J. Biol. Chem. 273:8376-8381(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-61.
  5. "Utilization of L-ascorbate by Escherichia coli K-12: assignments of functions to products of the yjf-sga and yia-sgb operons."
    Yew W.S., Gerlt J.A.
    J. Bacteriol. 184:302-306(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
    Strain: K12 / MG1655 / ATCC 47076.
  6. "A novel NAD-binding protein revealed by the crystal structure of 2,3-diketo-L-gulonate reductase (YiaK)."
    Forouhar F., Lee I., Benach J., Kulkarni K., Xiao R., Acton T.B., Montelione G.T., Tong L.
    J. Biol. Chem. 279:13148-13155(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF NATIVE PROTEIN AND COMPLEX WITH NAD AND TARTRATE, SUBUNIT.

Entry informationi

Entry nameiDLGD_ECOLI
AccessioniPrimary (citable) accession number: P37672
Secondary accession number(s): P76716, Q2M7N8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: November 1, 1997
Last modified: November 26, 2014
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

NAD is bound in an unusual conformation, at the interface of a dimer of the enzyme.

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

External Data

Dasty 3