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(-) Description

Title :  CHARACTERIZATION AND ENGINEERING OF THE BIFUNCTIONAL N- AND O-GLUCOSYLTRANSFERASE INVOLVED IN XENOBIOTIC METABOLISM IN PLANTS
 
Authors :  M. Brazier-Hicks, W. A. Offen, M. C. Gershater, T. J. Revett, E. K. Lim, D. J. Bowles, G. J. Davies, R. Edwards
Date :  09 Nov 07  (Deposition) - 04 Dec 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A
Keywords :  Plant Glycosylation, N-Glucosyltransferase, Transferase, N-Glycosylation, Glycosyltransferase, S-Glucosyltransferase, O-Glucosyltransferase, Udp-Glucose- Dependent (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Brazier-Hicks, W. A. Offen, M. C. Gershater, T. J. Revett, E. K. Lim, D. J. Bowles, G. J. Davies, R. Edwards
Characterization And Engineering Of The Bifunctional N- And O-Glucosyltransferase Involved In Xenobiotic Metabolism In Plants.
Proc. Nat. Acad. Sci. Usa V. 104 20238 2007
PubMed-ID: 18077347  |  Reference-DOI: 10.1073/PNAS.0706421104

(-) Compounds

Molecule 1 - HYDROQUINONE GLUCOSYLTRANSFERASE
    Chains: A
    EC Number: 2.4.1.218
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-30A
    Expression System Strain: TUNER
    Expression System Taxid: 562
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: ARBUTIN SYNTHASE, UGT72B1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 11)

Asymmetric/Biological Unit (3, 11)
No.NameCountTypeFull Name
1EDO9Ligand/Ion1,2-ETHANEDIOL
2TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3UDP1Ligand/IonURIDINE-5'-DIPHOSPHATE

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:18 , ILE A:21 , GLY A:276 , SER A:277 , VAL A:303 , TRP A:346 , ALA A:347 , GLN A:349 , HIS A:364 , GLY A:366 , TRP A:367 , ASN A:368 , SER A:369 , GLU A:372 , TYR A:386 , TRS A:1478 , HOH A:2006 , HOH A:2223 , HOH A:2275 , HOH A:2350 , HOH A:2353BINDING SITE FOR RESIDUE UDP A1477
02AC2SOFTWAREGLY A:18 , HIS A:19 , PRO A:139 , GLY A:366 , TRP A:367 , ALA A:387 , GLU A:388 , UDP A:1477 , EDO A:1480 , HOH A:2007 , HOH A:2351 , HOH A:2353BINDING SITE FOR RESIDUE TRS A1478
03AC3SOFTWARETRP A:383 , PRO A:384 , VAL A:414 , HOH A:2291 , HOH A:2297 , HOH A:2352BINDING SITE FOR RESIDUE EDO A1479
04AC4SOFTWAREHIS A:19 , ILE A:86 , TYR A:315 , ALA A:387 , TRS A:1478 , HOH A:2353BINDING SITE FOR RESIDUE EDO A1480
05AC5SOFTWAREPHE A:275 , THR A:280 , LEU A:281 , TRP A:302 , VAL A:303 , ILE A:304 , ARG A:305 , HOH A:2354BINDING SITE FOR RESIDUE EDO A1481
06AC6SOFTWAREHIS A:34 , LEU A:328 , PRO A:330 , SER A:461 , LYS A:468BINDING SITE FOR RESIDUE EDO A1482
07AC7SOFTWAREILE A:42 , ALA A:43 , GLY A:44 , GLY A:46 , PHE A:67 , LEU A:68 , PRO A:69 , PRO A:70 , EDO A:1484 , HOH A:2355BINDING SITE FOR RESIDUE EDO A1483
08AC8SOFTWAREGLY A:46 , PRO A:47 , PRO A:70 , EDO A:1483 , HOH A:2026 , HOH A:2355BINDING SITE FOR RESIDUE EDO A1484
09AC9SOFTWARESER A:159 , GLU A:161 , LYS A:443 , CYS A:447BINDING SITE FOR RESIDUE EDO A1485
10BC1SOFTWAREPRO A:152 , LYS A:202 , LYS A:205 , GLU A:334 , ARG A:335 , HOH A:2247 , HOH A:2356BINDING SITE FOR RESIDUE EDO A1486
11BC2SOFTWAREGLY A:173 , ASN A:221 , ASP A:399 , HOH A:2281 , HOH A:2357BINDING SITE FOR RESIDUE EDO A1487

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VG8)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:240 -Pro A:241

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VG8)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UDPGTPS00375 UDP-glycosyltransferases signature.U72B1_ARATH346-389  1A:346-389

(-) Exons   (0, 0)

(no "Exon" information available for 2VG8)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:466
 aligned with U72B1_ARATH | Q9M156 from UniProtKB/Swiss-Prot  Length:480

    Alignment length:471
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475 
          U72B1_ARATH     6 TPHVAIIPSPGMGHLIPLVEFAKRLVHLHGLTVTFVIAGEGPPSKAQRTVLDSLPSSISSVFLPPVDLTDLSSSTRIESRISLTVTRSNPELRKVFDSFVEGGRLPTALVVDLFGTDAFDVAVEFHVPPYIFYPTTANVLSFFLHLPKLDETVSCEFRELTEPLMLPGCVPVAGKDFLDPAQDRKDDAYKWLLHNTKRYKEAEGILVNTFFELEPNAIKALQEPGLDKPPVYPVGPLVNIGKQEAKQTEESECLKWLDNQPLGSVLYVSFGSGGTLTCEQLNELALGLADSEQRFLWVIRSPSGIANSSYFDSHSQTDPLTFLPPGFLERTKKRGFVIPFWAPQAQVLAHPSTGGFLTHCGWNSTLESVVSGIPLIAWPLYAEQKMNAVLLSEDIRAALRPRAGDDGLVRREEVARVVKGLMEGEEGKGVRNKMKELKEAACRVLKDDGTSTKALSLVALKWKAHKKELEQ 476
               SCOP domains d2vg8a_ A: Hydroquinone glucosyltransferase                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UDPGT-2vg8A01 A:230-     440                                                                                                                                                                                       ------------------------------------ Pfam domains
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhhhhhhhh.eeeeee........hhhhhhh.....eeeee.............hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee...hhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhhhhh..hhhhh............hhhhhhhhhh...hhhhhhhhhhhhhhhhh.eeee......hhhhhhhhhh.......eee...........-----hhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhhhh.eeeeee..................hhhhhh..hhhhhh...eeeee...hhhhhhh...eeeeee..hhhhhhhhhhh...eee.....hhhhhhhhhhhh...ee..........hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UDPGT  PDB: A:346-389 UniProt: 346-389      --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vg8 A   6 TPHVAIIPSPGMGHLIPLVEFAKRLVHLHGLTVTFVIAGEGPPSKAQRTVLDSLPSSISSVFLPPVDLTDLSSSTRIESRISLTVTRSNPELRKVFDSFVEGGRLPTALVVDLFGTDAFDVAVEFHVPPYIFYPTTANVLSFFLHLPKLDETVSCEFRELTEPLMLPGCVPVAGKDFLDPAQDRKDDAYKWLLHNTKRYKEAEGILVNTFFELEPNAIKALQEPGLDKPPVYPVGPLVNIGKQE-----ESECLKWLDNQPLGSVLYVSFGSGGTLTCEQLNELALGLADSEQRFLWVIRSPSGIANSSYFDSHSQTDPLTFLPPGFLERTKKRGFVIPFWAPQAQVLAHPSTGGFLTHCGWNSTLESVVSGIPLIAWPLYAEQKMNAVLLSEDIRAALRPRAGDDGLVRREEVARVVKGLMEGEEGKGVRNKMKELKEAACRVLKDDGTSTKALSLVALKWKAHKKELEQ 476
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245   |   255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475 
                                                                                                                                                                                                                                                                             249   255
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2VG8)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: GT-B (132)

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (U72B1_ARATH | Q9M156)
molecular function
    GO:0035251    UDP-glucosyltransferase activity    Catalysis of the transfer of a glucosyl group from UDP-glucose to an acceptor molecule.
    GO:0008194    UDP-glycosyltransferase activity    Catalysis of the transfer of a glycosyl group from a UDP-sugar to a small hydrophobic molecule.
    GO:0050505    hydroquinone glucosyltransferase activity    Catalysis of the reaction: hydroquinone + UDP-D-glucose = H(+) + hydroquinone O-beta-D-glucopyranoside + UDP.
    GO:0080043    quercetin 3-O-glucosyltransferase activity    Catalysis of the transfer of a glucosyl group from UDP-glucose to the 3-hydroxy group of a quercetin molecule.
    GO:0080044    quercetin 7-O-glucosyltransferase activity    Catalysis of the transfer of a glucosyl group from UDP-glucose to the 7-hydroxy group of a quercetin molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016757    transferase activity, transferring glycosyl groups    Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).
    GO:0016758    transferase activity, transferring hexosyl groups    Catalysis of the transfer of a hexosyl group from one compound (donor) to another (acceptor).
biological process
    GO:0009813    flavonoid biosynthetic process    The chemical reactions and pathways resulting in the formation of flavonoids, a group of phenolic derivatives containing a flavan skeleton.
    GO:0052696    flavonoid glucuronidation    The modification of a flavonoid by the conjugation of glucuronic acid. The resultant flavonoid glucuronosides are often much more water-soluble than the precursor.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0009651    response to salt stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating an increase or decrease in the concentration of salt (particularly but not exclusively sodium and chloride ions) in the environment.
    GO:0009636    response to toxic substance    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus.
    GO:0042178    xenobiotic catabolic process    The chemical reactions and pathways resulting in the breakdown of a xenobiotic compound, a compound foreign to living organisms. Used of chemical compounds, e.g. a xenobiotic chemical, such as a pesticide.
    GO:0006805    xenobiotic metabolic process    The chemical reactions and pathways involving a xenobiotic compound, a compound foreign to living organisms. Used of chemical compounds, e.g. a xenobiotic chemical, such as a pesticide.
cellular component
    GO:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.

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  2.4.1.218
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        U72B1_ARATH | Q9M156: 2vce 2vch

(-) Related Entries Specified in the PDB File

2vce CHARACTERIZATION AND ENGINEERING OF THE BIFUNCTIONAL N- AND O-GLUCOSYLTRANSFERASE INVOLVED IN XENOBIOTIC METABOLISM IN PLANTS
2vch CHARACTERIZATION AND ENGINEERING OF THE BIFUNCTIONAL N- AND O-GLUCOSYLTRANSFERASE INVOLVED IN XENOBIOTIC METABOLISM IN PLANTS
2vcu CHARACTERIZATION AND ENGINEERING OF THE BIFUNCTIONAL N- AND O-GLUCOSYLTRANSFERASE INVOLVED IN XENOBIOTIC METABOLISM IN PLANTS