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(-) Description

Title :  SUGAR BEET ALPHA-GLUCOSIDASE WITH ACARVIOSYL-MALTOPENTAOSE
 
Authors :  T. Tagami, K. Yamashita, M. Okuyama, H. Mori, M. Yao, A. Kimura
Date :  09 Jul 13  (Deposition) - 16 Jul 14  (Release) - 04 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.59
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Glucosidase, Glycoside Hydrolase Family 31, (Beta/Alpha)8- Barrel, Acarbose Derivative, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Tagami, K. Yamashita, M. Okuyama, H. Mori, M. Yao, A. Kimura
Structural Advantage Of Sugar Beet Alpha-Glucosidase To Stabilize The Michaelis Complex With Long-Chain Substrate
J. Biol. Chem. V. 290 1796 2014
PubMed-ID: 25451917  |  Reference-DOI: 10.1074/JBC.M114.606939

(-) Compounds

Molecule 1 - ALPHA-GLUCOSIDASE
    Chains: A
    EC Number: 3.2.1.20
    Organism Common: SUGAR BEET
    Organism Scientific: BETA VULGARIS
    Organism Taxid: 161934
    Other Details: SEEDS
    Strain: CV. ABEND

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 10)

Asymmetric/Biological Unit (5, 10)
No.NameCountTypeFull Name
1ACR1Ligand/IonALPHA-ACARBOSE
2FUC1Ligand/IonALPHA-L-FUCOSE
3GLC3Ligand/IonALPHA-D-GLUCOSE
4NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:670 , ARG A:676 , ARG A:699BINDING SITE FOR RESIDUE SO4 A 1009
2AC2SOFTWAREASP A:362 , ALA A:363 , LYS A:365 , ASN A:404 , PHE A:902 , LYS A:903BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 404 RESIDUES 1005 TO 1007
3AC3SOFTWAREASN A:728BINDING SITE FOR MONO-SACCHARIDE NAG A1008 BOUND TO ASN A 728
4AC4SOFTWARESER A:736 , ASN A:822 , ASN A:823 , GLU A:907 , HOH A:1244BINDING SITE FOR MONO-SACCHARIDE NAG A1010 BOUND TO ASN A 823
5AC5SOFTWAREASP A:232 , ILE A:233 , ALA A:234 , ASN A:237 , LEU A:240 , ASP A:357 , ILE A:358 , ARG A:388 , ASN A:389 , TRP A:467 , ASP A:469 , MET A:470 , SER A:497 , VAL A:501 , ARG A:552 , TRP A:565 , ASP A:568 , PHE A:601 , HIS A:626 , SER A:838 , GLN A:839 , ARG A:840 , HOH A:1101 , HOH A:1105 , HOH A:1182 , HOH A:1262 , HOH A:1267BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 1001 TO 1004

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:599 -A:610

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Thr A:158 -Pro A:159
2Gly A:211 -Glu A:212
3Ser A:255 -Pro A:256
4Gly A:297 -Arg A:298
5Glu A:472 -Ala A:473

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3WEN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3WEN)

(-) Exons   (0, 0)

(no "Exon" information available for 3WEN)

(-) 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:830
 aligned with L0N7E5_BETVU | L0N7E5 from UniProtKB/TrEMBL  Length:913

    Alignment length:870
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849       859       869       879       889       899       909
         L0N7E5_BETVU    40 AIGYGYQVKNAKVDNSTGKSLTALLQLIRNSPVYGPDIQFLSFTASFEEDDTLRIRITDANNRRWEIPNEVLPRPPPPPSPPPLSSLQHLPKPIPQNQPTTTVLSHPHSDLVFTLFHTTPFGFTIYRKSTHDVLFDATPIPSNPTTFLIYKDQYLQLSSSLPAQQAHLYGLGEHTKPTFQLAHNQILTLWNADIASFNRDLNLYGSHPFYMDVRSSPMVGSTHGVFLLNSNGMDVEYTGDRITYKVIGGIIDLYIFAGRTPEMVLDQYTKLIGRPAPMPYWAFGFHQCRWGYRDVNEIETVVDKYAEARIPLEVMWTDIDYMDAFKDFTLDPVHFPLDKMQQFVTKLHRNGQRYVPILDPGINTNKSYGTFIRGMQSNVFIKRDGNPYLGSVWPGPVYYPDFLDPAARSFWVDEIKRFRDILPIDGIWIDMNEASNFITSAPTPGSTLDNPPYKINNSGGRVPINSKTIPATAMHYGNVTEYNAHNLYGFLESQATREALVRTSNERPFLLSRSTFAGSGKYTAHWTGDNAARWDDLQYSIPTMLNFGLFGMPMIGADICGFAESTTEELCRRWIQLGAFYPFSRDHSARDTTHQELYLWESVAASARTVLGLRYQLLPYYYTLMYDANLRGIPIARPLFFTFPDDVATYGISSQFLIGRGIMVSPVLQPGAVSVNAYFPRGNWFSLFNYTSSVSVSAGTYVSLSAPPDHINVHIHEGNIVAMQGEAMTTQAARSTPFHLLVVMSDHVASTGELFLDNGIEMDIGGPGGKWTLVRFFAESGINNLTISSEVVNRGYAMSQRWVMDKITILGLKRRVRIKEYTVQKDAGAIKIKGLGLRTSSHNQGGFVVSVISDLRQLVGQAFKLELEFE 909
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeeee......eeeeeeee............eeeeeeeeee..eeeeeeee........................--------------..eeeeee.....eeeeeee....eeeeee....eeeee......hhhhh.eee..eeeeeee.....eeeeeee............eeeee.................eeeeeeee......eeeeeee.....eeeee...eeeeee....eeeeee...hhhhhhhhhhhhhh.....hhhhhh.ee......hhhhhhhhhhhhhhh.....eeeehhhhh.............hhhhhhhhhhhhhhh..eeeeee...ee....hhhhhhhhhh....ee..ee..ee....eee.....hhhhhhhhhhhhhhhhhhh....eee..........................hhhhh.............ee...eehhhhh.hhhhhhhhhhhhhhhhhh.....eee.....hhhhh.eee......hhhhhhhhhhhhhhhhhh....ee.ee.......hhhhhhhhhhhhh.....ee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhh..hhhhh.....eee...eeee........eeeeee..eeeee......eeee...eeeeee......eeeee..eeeee.....hhhhhh...eeeeee......eeeeeeee.............eeeeeeeeee...eeeeeeeee.hhhhhh...eeeeeeeeee...eee.--------------------------..eeeeeeeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3wen A  40 AIGYGYQVKNAKVDNSTGKSLTALLQLIRNSPVYGPDIQFLSFTASFEEDDTLRIRITDANNRRWEIPNEVLPRPPPPPSPPP--------------QPTTTVLSHPHSDLVFTLFHTTPFGFTIYRKSTHDVLFDATPIPSNPTTFLIYKDQYLQLSSSLPAQQAHLYGLGEHTKPTFQLAHNQILTLWNADIASFNRDLNLYGSHPFYMDVRSSPMVGSTHGVFLLNSNGMDVEYTGDRITYKVIGGIIDLYIFAGRTPEMVLDQYTKLIGRPAPMPYWAFGFHQCRWGYRDVNEIETVVDKYAEARIPLEVMWTDIDYMDAFKDFTLDPVHFPLDKMQQFVTKLHRNGQRYVPILDPGINTNKSYGTFIRGMQSNVFIKRDGNPYLGSVWPGPVYYPDFLDPAARSFWVDEIKRFRDILPIDGIWIDMNEASNFITSAPTPGSTLDNPPYKINNSGGRVPINSKTIPATAMHYGNVTEYNAHNLYGFLESQATREALVRTSNERPFLLSRSTFAGSGKYTAHWTGDNAARWDDLQYSIPTMLNFGLFGMPMIGADICGFAESTTEELCRRWIQLGAFYPFSRDHSARDTTHQELYLWESVAASARTVLGLRYQLLPYYYTLMYDANLRGIPIARPLFFTFPDDVATYGISSQFLIGRGIMVSPVLQPGAVSVNAYFPRGNWFSLFNYTSSVSVSAGTYVSLSAPPDHINVHIHEGNIVAMQGEAMTTQAARSTPFHLLVVMSDHVASTGELFLDNGIEMDIGGPGGKWTLVRFFAESGINNLTISSEVVNRGYAMSQRWVMDKITILGLKRRVRIK--------------------------GFVVSVISDLRQLVGQAFKLELEFE 909
                                    49        59        69        79        89        99       109       119  |      -       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849        |-         -         -     | 889       899       909
                                                                                                            122            137                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              858                        885
   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  (0, 0)

(no "SCOP Domain" information available for 3WEN)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3WEN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3WEN)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (L0N7E5_BETVU | L0N7E5)
molecular function
    GO:0004558    alpha-1,4-glucosidase activity    Catalysis of the hydrolysis of terminal, non-reducing alpha-(1->4)-linked alpha-D-glucose residues with release of alpha-D-glucose.
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
    GO:0032450    maltose alpha-glucosidase activity    Catalysis of the reaction: alpha-maltose + H2O = 2 alpha-D-glucose.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0000023    maltose metabolic process    The chemical reactions and pathways involving the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose), an intermediate in the catabolism of glycogen and starch.
    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.

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 Related Entries

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

UniProtKB/TrEMBL
        L0N7E5_BETVU | L0N7E5: 3w37 3w38 3wel 3wem 3weo

(-) Related Entries Specified in the PDB File

3w37 THE SAME PROTEIN COMPLEXED WITH ACARBOSE (AC4)
3w38 LIGAND-FREE FORM OF THE SAME PROTEIN
3wel THE SAME PROTEIN COMPLEXED WITH ACARVIOSYL-MALTOTRIOSE (AC5)
3wem THE SAME PROTEIN COMPLEXED WITH ACARVIOSYL-MALTOTETRAOSE (AC6)
3weo THE SAME PROTEIN COMPLEXED WITH ACARVIOSYL-MALTOHEXAOSE (AC8)