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(-) Description

Title :  SUGAR BEET ALPHA-GLUCOSIDASE WITH ACARBOSE
 
Authors :  T. Tagami, K. Yamashita, M. Okuyama, H. Mori, M. Yao, A. Kimura
Date :  13 Dec 12  (Deposition) - 29 May 13  (Release) - 30 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Glucosidase, Glycoside Hydrolase Family 31, (Beta/Alpha)8- Barrel, Acarbose, Hydrolase, Carbohydrate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Tagami, K. Yamashita, M. Okuyama, H. Mori, M. Yao, A. Kimura
Molecular Basis For The Recognition Of Long-Chain Substrate By Plant & Alpha-Glucosidase
J. Biol. Chem. V. 288 19296 2013
PubMed-ID: 23687304  |  Reference-DOI: 10.1074/JBC.M113.465211

(-) Compounds

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

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 14)

Asymmetric/Biological Unit (6, 14)
No.NameCountTypeFull Name
1ACR1Ligand/IonALPHA-ACARBOSE
2ACY3Ligand/IonACETIC ACID
3FUC1Ligand/IonALPHA-L-FUCOSE
4GOL3Ligand/IonGLYCEROL
5NAG5Ligand/IonN-ACETYL-D-GLUCOSAMINE
6SO41Ligand/IonSULFATE ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:232 , ILE A:233 , ALA A:234 , ASN A:237 , TRP A:329 , ASP A:357 , ILE A:358 , TRP A:467 , ASP A:469 , MET A:470 , 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:1117 , HOH A:1171 , HOH A:1324 , HOH A:1450BINDING SITE FOR RESIDUE ACR A 1001
02AC2SOFTWAREGLY A:820 , ILE A:821 , ASN A:823 , NAG A:1003BINDING SITE FOR RESIDUE NAG A 1002
03AC3SOFTWAREGLU A:607 , NAG A:1002 , HOH A:1457 , HOH A:1498BINDING SITE FOR RESIDUE NAG A 1003
04AC4SOFTWAREASN A:404 , FUC A:1005 , NAG A:1006BINDING SITE FOR RESIDUE NAG A 1004
05AC5SOFTWARELYS A:903 , NAG A:1004 , NAG A:1006 , HOH A:1263 , HOH A:1628 , HOH A:1630BINDING SITE FOR RESIDUE FUC A 1005
06AC6SOFTWARENAG A:1004 , FUC A:1005 , HOH A:1679BINDING SITE FOR RESIDUE NAG A 1006
07AC7SOFTWAREARG A:720 , SER A:736 , HOH A:1384 , HOH A:1819BINDING SITE FOR RESIDUE ACY A 1007
08AC8SOFTWAREPHE A:727 , ASN A:728 , TYR A:729 , HOH A:1412BINDING SITE FOR RESIDUE GOL A 1008
09AC9SOFTWARETHR A:681 , PHE A:682 , ARG A:699 , HIS A:755 , ASN A:758BINDING SITE FOR RESIDUE ACY A 1009
10BC1SOFTWAREGLU A:301 , ARG A:670 , ARG A:676 , ARG A:699 , HOH A:1374 , HOH A:1518 , HOH A:1549BINDING SITE FOR RESIDUE SO4 A 1010
11BC2SOFTWAREGLU A:39 , THR A:730 , SER A:731 , SER A:732 , HOH A:1446BINDING SITE FOR RESIDUE GOL A 1011
12BC3SOFTWAREASN A:728 , THR A:730 , SER A:731BINDING SITE FOR RESIDUE NAG A 1012
13BC4SOFTWAREVAL A:733 , SER A:734BINDING SITE FOR RESIDUE ACY A 1013
14BC5SOFTWARETHR A:368 , LEU A:369 , HOH A:1319 , HOH A:1465 , HOH A:1820BINDING SITE FOR RESIDUE GOL A 1014

(-) 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 3W37)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3W37)

(-) Exons   (0, 0)

(no "Exon" information available for 3W37)

(-) 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:826
 aligned with L0N7E5_BETVU | L0N7E5 from UniProtKB/TrEMBL  Length:913

    Alignment length:871
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908 
         L0N7E5_BETVU    39 EAIGYGYQVKNAKVDNSTGKSLTALLQLIRNSPVYGPDIQFLSFTASFEEDDTLRIRITDANNRRWEIPNEVLPRPPPPPSPPPLSSLQHLPKPIPQNQPTTTVLSHPHSDLVFTLFHTTPFGFTIYRKSTHDVLFDATPIPSNPTTFLIYKDQYLQLSSSLPAQQAHLYGLGEHTKPTFQLAHNQILTLWNADIASFNRDLNLYGSHPFYMDVRSSPMVGSTHGVFLLNSNGMDVEYTGDRITYKVIGGIIDLYIFAGRTPEMVLDQYTKLIGRPAPMPYWAFGFHQCRWGYRDVNEIETVVDKYAEARIPLEVMWTDIDYMDAFKDFTLDPVHFPLDKMQQFVTKLHRNGQRYVPILDPGINTNKSYGTFIRGMQSNVFIKRDGNPYLGSVWPGPVYYPDFLDPAARSFWVDEIKRFRDILPIDGIWIDMNEASNFITSAPTPGSTLDNPPYKINNSGGRVPINSKTIPATAMHYGNVTEYNAHNLYGFLESQATREALVRTSNERPFLLSRSTFAGSGKYTAHWTGDNAARWDDLQYSIPTMLNFGLFGMPMIGADICGFAESTTEELCRRWIQLGAFYPFSRDHSARDTTHQELYLWESVAASARTVLGLRYQLLPYYYTLMYDANLRGIPIARPLFFTFPDDVATYGISSQFLIGRGIMVSPVLQPGAVSVNAYFPRGNWFSLFNYTSSVSVSAGTYVSLSAPPDHINVHIHEGNIVAMQGEAMTTQAARSTPFHLLVVMSDHVASTGELFLDNGIEMDIGGPGGKWTLVRFFAESGINNLTISSEVVNRGYAMSQRWVMDKITILGLKRRVRIKEYTVQKDAGAIKIKGLGLRTSSHNQGGFVVSVISDLRQLVGQAFKLELEFE 909
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee......eeeeeeee............eeeeeeeeee..eeeeeeee....................-------------------..eeee......eeeeee.....eeeeee.....eeee.......hhh..eee..eeeeeee.....eeeeeee............eeeee.................eeeeeeee......eeeeeee.....eeeee...eeeeee....eeeeee....hhhhhhhhhhhh.......hhhh..ee.......hhhhhhhhhhhhh......eeee.hhh...............hhhhhhhhhhhhh...eeeeee...ee.....hhhhhhhh.....ee..ee..eee..eeee......hhhhhhhhhhhhhhhhh.....eee...........................hhh..............ee...eehhhhhhhhhhhhhhhhhhhhhhh......eee......hhh..eee.......hhhhhhhhhhhhhhhh.....ee.ee........hhhhhhhhhhh......ee..............hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh....ee.hhhh....hhh......eee...eeee........eeeeee..eeeee......eeee...eeeeee......eeeee..eeeee......hhhh....eeeeee......eeeeeeee.............eeeeeeeeee...eeeeeeeee.hhhhhh...eeeeeeeeee...eee.--------------------------..eeeeeeeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3w37 A  39 EAIGYGYQVKNAKVDNSTGKSLTALLQLIRNSPVYGPDIQFLSFTASFEEDDTLRIRITDANNRRWEIPNEVLPRPPPPP-------------------PTTTVLSHPHSDLVFTLFHTTPFGFTIYRKSTHDVLFDATPIPSNPTTFLIYKDQYLQLSSSLPAQQAHLYGLGEHTKPTFQLAHNQILTLWNADIASFNRDLNLYGSHPFYMDVRSSPMVGSTHGVFLLNSNGMDVEYTGDRITYKVIGGIIDLYIFAGRTPEMVLDQYTKLIGRPAPMPYWAFGFHQCRWGYRDVNEIETVVDKYAEARIPLEVMWTDIDYMDAFKDFTLDPVHFPLDKMQQFVTKLHRNGQRYVPILDPGINTNKSYGTFIRGMQSNVFIKRDGNPYLGSVWPGPVYYPDFLDPAARSFWVDEIKRFRDILPIDGIWIDMNEASNFITSAPTPGSTLDNPPYKINNSGGRVPINSKTIPATAMHYGNVTEYNAHNLYGFLESQATREALVRTSNERPFLLSRSTFAGSGKYTAHWTGDNAARWDDLQYSIPTMLNFGLFGMPMIGADICGFAESTTEELCRRWIQLGAFYPFSRDHSARDTTHQELYLWESVAASARTVLGLRYQLLPYYYTLMYDANLRGIPIARPLFFTFPDDVATYGISSQFLIGRGIMVSPVLQPGAVSVNAYFPRGNWFSLFNYTSSVSVSAGTYVSLSAPPDHINVHIHEGNIVAMQGEAMTTQAARSTPFHLLVVMSDHVASTGELFLDNGIEMDIGGPGGKWTLVRFFAESGINNLTISSEVVNRGYAMSQRWVMDKITILGLKRRVRIK--------------------------GFVVSVISDLRQLVGQAFKLELEFE 909
                                    48        58        68        78        88        98       108       118         -       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858         -         -      |888       898       908 
                                                                                                         118                 138                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             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 3W37)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3W37)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3W37)

(-) 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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  3w37
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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

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)
3wen THE SAME PROTEIN COMPLEXED WITH ACARVIOSYL-MALTOPENTAOSE (AC7)
3weo THE SAME PROTEIN COMPLEXED WITH ACARVIOSYL-MALTOHEXAOSE (AC8)