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(-) Description

Title :  CRYSTAL STRUCTURE OF BARLEY BETA-D-GLUCAN GLUCOHYDROLASE ISOENZYME EXO1 IN COMPLEX WITH GLUCO-PHENYLIMIDAZOLE
 
Authors :  M. Hrmova, R. De Gori, B. J. Smith, A. Vasella, J. N. Varghese, G. B. Finc
Date :  09 May 02  (Deposition) - 18 Nov 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A
Keywords :  2-Domain Fold, Ligand-Protein Complex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Hrmova, R. De Gori, B. J. Smith, A. Vasella, J. N. Varghese, G. B. Fincher
Three-Dimensional Structure Of The Barley {Beta}-D-Glucan Glucohydrolase In Complex With A Transition State Mimic.
J. Biol. Chem. V. 279 4970 2004
PubMed-ID: 14597633  |  Reference-DOI: 10.1074/JBC.M307188200

(-) Compounds

Molecule 1 - BETA-D-GLUCAN GLUCOHYDROLASE ISOENZYME EXO1
    Chains: A
    EC Number: 3.2.1.58
    Organism Scientific: HORDEUM VULGARE
    Organism Taxid: 4513
    Strain: CULTIVAR CLIPPER
    Synonym: BETA-D-GLUCAN EXOHYDROLASE ISOENZYME EXOI

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 13)

Asymmetric/Biological Unit (6, 13)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2FUC2Ligand/IonALPHA-L-FUCOSE
3GOL1Ligand/IonGLYCEROL
4IDD1Ligand/Ion(5R,6R,7S,8S)-5-(HYDROXYMETHYL)-2-PHENYL-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL
5MAN2Ligand/IonALPHA-D-MANNOSE
6NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:221 , ASN A:222 , HOH A:878BINDING SITE FOR RESIDUE NAG A 610
02AC2SOFTWAREASP A:495 , ASN A:496 , ASN A:498 , THR A:500 , NAG A:612 , FUC A:614BINDING SITE FOR RESIDUE NAG A 611
03AC3SOFTWARELYS A:493 , NAG A:611 , MAN A:613 , MAN A:615BINDING SITE FOR RESIDUE NAG A 612
04AC4SOFTWARENAG A:612 , MAN A:615BINDING SITE FOR RESIDUE MAN A 613
05AC5SOFTWAREPRO A:502 , NAG A:611 , MAN A:615BINDING SITE FOR RESIDUE FUC A 614
06AC6SOFTWAREHIS A:487 , NAG A:612 , MAN A:613 , FUC A:614 , NAG A:616 , HOH A:837BINDING SITE FOR RESIDUE MAN A 615
07AC7SOFTWARETYR A:425 , THR A:438 , HIS A:487 , PRO A:502 , GLU A:503 , MAN A:615BINDING SITE FOR RESIDUE NAG A 616
08AC8SOFTWARETHR A:598 , ASN A:600 , NAG A:618 , FUC A:620 , HOH A:766 , HOH A:888BINDING SITE FOR RESIDUE NAG A 617
09AC9SOFTWARENAG A:617 , BMA A:619 , FUC A:620BINDING SITE FOR RESIDUE NAG A 618
10BC1SOFTWAREARG A:566 , NAG A:618 , HOH A:890BINDING SITE FOR RESIDUE BMA A 619
11BC2SOFTWARENAG A:617 , NAG A:618BINDING SITE FOR RESIDUE FUC A 620
12BC3SOFTWAREASP A:95 , ARG A:158 , LYS A:206 , HIS A:207 , MET A:250 , TYR A:253 , ASP A:285 , TRP A:286 , ARG A:291 , TRP A:430 , TRP A:434 , GLU A:491BINDING SITE FOR RESIDUE IDD A 621
13BC4SOFTWAREALA A:464 , GLU A:465BINDING SITE FOR RESIDUE GOL A 622

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:151 -A:159
2A:513 -A:518

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Ala A:145 -Pro A:146
2Lys A:206 -His A:207
3Phe A:208 -Val A:209
4Thr A:294 -Pro A:295
5Val A:317 -Pro A:318
6Leu A:404 -Pro A:405
7Glu A:503 -Pro A:504
8Leu A:578 -Pro A:579

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1LQ2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1LQ2)

(-) Exons   (0, 0)

(no "Exon" information available for 1LQ2)

(-) 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:602
 aligned with Q9XEI3_HORVV | Q9XEI3 from UniProtKB/TrEMBL  Length:630

    Alignment length:602
                                    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       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625  
         Q9XEI3_HORVV    26 DYVLYKDATKPVEDRVADLLGRMTLAEKIGQMTQIERLVATPDVLRDNFIGSLLSGGGSVPRKGATAKEWQDMVDGFQKACMSTRLGIPMIYGIDAVHGQNNVYGATIFPHNVGLGATRDPYLVKRIGEATALEVRATGIQYAFAPCIAVCRDPRWGRCYESYSEDRRIVQSMTELIPGLQGDVPKDFTSGMPFVAGKNKVAACAKHFVGDGGTVDGINENNTIINREGLMNIHMPAYKNAMDKGVSTVMISYSSWNGVKMHANQDLVTGYLKDTLKFKGFVISDWEGIDRITTPAGSDYSYSVKASILAGLDMIMVPNNYQQFISILTGHVNGGVIPMSRIDDAVTRILRVKFTMGLFENPYADPAMAEQLGKQEHRDLAREAARKSLVLLKNGKTSTDAPLLPLPKKAPKILVAGSHADNLGYQCGGWTIEWQGDTGRTTVGTTILEAVKAAVDPSTVVVFAENPDAEFVKSGGFSYAIVAVGEHPYTETKGDNLNLTIPEPGLSTVQAVCGGVRCATVLISGRPVVVQPLLAASDALVAAWLPGSEGQGVTDALFGDFGFTGRLPRTWFKSVDQLPMNVGDAHYDPLFRLGYGLTTNAT 627
               SCOP domains d1lq2a1 A:1-388 Beta-D-glucan exohydrolase, N-terminal domain                                                                                                                                                                                                                                                                                                                                       d1lq2a2 A:389-602 Beta-D-glucan exohydrolase, C-terminal domain                                                                                                                                                        SCOP domains
               CATH domains 1lq2A01 A:1-373  [code=3.20.20.300, no name defined]                                                                                                                                                                                                                                                                                                                                 1lq2A02 A:374-602  [code=3.40.50.1700, no name defined]                                                                                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh...hhhhhhhhhhh...hhhhhhhheeee.hhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhhh.......eeee................hhhhhhh..hhhhhhhhhhhhhhhhhh....ee..............hhhhh...hhhhhhhh.hhhhhhhh.....................eeeee.hhhhhhhhh...ee..hhhhhhhh.hhhhhhhhhh...eeee...ee..ee...hhhhhh...........eee.....hhhhh.....hhhhhhhhhhhhh...ee...hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh........hhhhhhhh.hhhhhhhhhhhhhhhheeeee.................eeeee.....hhhhhhh.................hhhhhhhh......eeeee...hhhhhhhh....eeeeee....hhhhhh.........hhhhhhhhhh...eeeeee......hhhhhhhh.eeee.......hhhhhhhhh............................................ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lq2 A   1 DYVLYKDATKPVEDRVADLLGRMTLAEKIGQMTQIERLVATPDVLRDNFIGSLLSGGGSVPRKGATAKEWQDMVDGFQKACMSTRLGIPMIYGIDAVHGQNNVYGATIFPHNVGLGATRDPYLVKRIGEATALEVRATGIQYAFAPCIAVCRDPRWGRCYESYSEDRRIVQSMTELIPGLQGDVPKDFTSGMPFVAGKNKVAACAKHFVGDGGTVDGINENNTIINREGLMNIHMPAYKNAMDKGVSTVMISYSSWNGVKMHANQDLVTGYLKDTLKFKGFVISDWEGIDRITTPAGSDYSYSVKASILAGLDMIMVPNKYQQFISILTGHVNGGVIPMSRIDDAVTRILRVKFTMGLFENPYADPAMAEQLGKQEHRDLAREAARKSLVLLKNGKTSTDAPLLPLPKKAPKILVAGSHADNLGYQCGGWTIEWQGDTGRTTVGTTILEAVKAAVDPSTVVVFAENPDAEFVKSGGFSYAIVAVGEHPYTETKGDNLNLTIPEPGLSTVQAVCGGVRCATVLISGRPVVVQPLLAASDALVAAWLPGSEGQGVTDALFGDFGFTGRLPRTWFKSVDQLPMNVGDAHYDPLFRLGYGLTTNAT 602
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600
   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  (2, 2)

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

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1LQ2)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9XEI3_HORVV | Q9XEI3)
molecular function
    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:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
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.

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  1lq2
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  3.2.1.58
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 Related Entries

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

UniProtKB/TrEMBL
        Q9XEI3_HORVV | Q9XEI3: 1ex1 1ieq 1iev 1iew 1iex 1j8v 1x38 1x39 3wlh 3wli 3wlj 3wlk 3wll 3wlm 3wln 3wlo 3wlp 3wlq 3wlr 3wls 3wlt

(-) Related Entries Specified in the PDB File

1ieq CATALYTIC MECHANISMS AND REACTIONS INTERMEDIATES ALONG THE HYDROLYTIC PATHWAY OF A PLANT BETA-D-GLUCAN GLUCOHYDROLASE