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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF PLANT EXOHYDROLASE
 
Authors :  V. A. Streltsov, S. Luang, M. Hrmova
Date :  12 Nov 13  (Deposition) - 25 Mar 15  (Release) - 25 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta Barrel, Hydrolase, Grain Development, Mutant, Enzyme Function Initiative, Tim Barrel/Beta Sheet, N-Glycosylation, Plant Apoplast (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. A. Streltsov, S. Luang, J. R. Ketudat-Cairns, M. Raab, I. Tvaroska, S. Fort, J. Jimenez-Barbero, A. Peisley, J. N. Varghese, M. Hrmova
A Landscape Of The Product And Substrate Trajectories In A Glycoside Hydrolase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BETA-D-GLUCAN EXOHYDROLASE ISOENZYME EXOI
    Chains: A
    EC Number: 3.2.1.-
    Engineered: YES
    Expression System: KOMAGATAELLA PASTORIS
    Expression System Plasmid: PPICZALPHABNH8/DEST
    Expression System Strain: SMD11680H
    Expression System Taxid: 4922
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 26-630
    Mutation: YES
    Organism Common: BARLEY,TWO-ROWED BARLEY
    Organism Scientific: HORDEUM VULGARE SUBSP. VULGARE
    Organism Taxid: 112509

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 20)

Asymmetric/Biological Unit (5, 20)
No.NameCountTypeFull Name
1GOL14Ligand/IonGLYCEROL
2GS11Ligand/Ion1-THIO-BETA-D-GLUCOPYRANOSE
3MGL1Ligand/IonO1-METHYL-GLUCOSE
4NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SO41Ligand/IonSULFATE ION

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:305 , VAL A:336 , GLY A:476 , HOH A:1000 , HOH A:1428 , HOH A:1474BINDING SITE FOR RESIDUE GOL A 704
02AC2SOFTWAREPRO A:295 , ALA A:296 , HOH A:1567BINDING SITE FOR RESIDUE GOL A 705
03AC3SOFTWAREASP A:75 , TYR A:363 , GOL A:716 , HOH A:1180BINDING SITE FOR RESIDUE GOL A 706
04AC4SOFTWAREARG A:119 , ILE A:169 , ARG A:566 , LEU A:593 , HOH A:1469BINDING SITE FOR RESIDUE GOL A 707
05AC5SOFTWAREARG A:386 , LYS A:387 , PHE A:561 , HOH A:864BINDING SITE FOR RESIDUE GOL A 708
06AC6SOFTWAREGLU A:486 , TYR A:489 , GLY A:494 , ASN A:496 , ARG A:526 , HOH A:983BINDING SITE FOR RESIDUE GOL A 709
07AC7SOFTWAREPRO A:338 , MET A:339 , SER A:340 , HOH A:808 , HOH A:823 , HOH A:1477 , HOH A:1549BINDING SITE FOR RESIDUE SO4 A 710
08AC8SOFTWAREARG A:22 , THR A:24 , HOH A:1127 , HOH A:1188 , HOH A:1507 , HOH A:1536BINDING SITE FOR RESIDUE GOL A 711
09AC9SOFTWARELYS A:279 , ARG A:351 , HOH A:1093BINDING SITE FOR RESIDUE GOL A 712
10BC1SOFTWARELYS A:277 , LYS A:279 , HOH A:1563BINDING SITE FOR RESIDUE GOL A 713
11BC2SOFTWARETHR A:602BINDING SITE FOR RESIDUE GOL A 714
12BC3SOFTWAREARG A:167 , ARG A:168 , ASN A:232 , HOH A:1321BINDING SITE FOR RESIDUE GOL A 715
13BC4SOFTWARETYR A:363 , ALA A:364 , GOL A:706 , HOH A:811 , HOH A:1004 , HOH A:1079BINDING SITE FOR RESIDUE GOL A 716
14BC5SOFTWAREASN A:333 , ARG A:378 , GLY A:444 , THR A:445 , GLU A:549 , HOH A:1453BINDING SITE FOR RESIDUE GOL A 717
15BC6SOFTWARELEU A:590 , PHE A:591 , ARG A:592 , TYR A:595 , HOH A:923 , HOH A:1571BINDING SITE FOR RESIDUE GOL A 718
16BC7SOFTWAREGLU A:220 , ASN A:221 , SER A:255 , HOH A:1034 , HOH A:1473BINDING SITE FOR MONO-SACCHARIDE NAG A 701 BOUND TO ASN A 221
17BC8SOFTWAREASP A:495 , ASN A:496 , ASN A:498 , THR A:500 , HOH A:1208BINDING SITE FOR MONO-SACCHARIDE NAG A 702 BOUND TO ASN A 498
18BC9SOFTWARETHR A:41 , ASN A:600 , HOH A:888 , HOH A:1390BINDING SITE FOR MONO-SACCHARIDE NAG A 703 BOUND TO ASN A 600
19CC1SOFTWAREGLY A:56 , GLY A:57 , ASP A:95 , ARG A:158 , LYS A:206 , HIS A:207 , MET A:250 , TYR A:253 , ASP A:285 , TRP A:286 , GLU A:491 , HOH A:801 , HOH A:802 , HOH A:803 , HOH A:804 , HOH A:805 , HOH A:806 , HOH A:807 , HOH A:910BINDING SITE FOR DI-SACCHARIDE GS1 A 719 AND MGL A 720

(-) 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 3WLT)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3WLT)

(-) 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:606
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhh...hhhhhhhhhhh..hhhhhhhhheeee.hhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhhh.......eeee................hhhhhhhh.hhhhhhhhhhhhhhhhhhh...ee..............hhhhh...hhhhhhhh.hhhhhhhh.....................eeeee.hhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhh...eeee...ee..ee...hhhhhh...........eee.....hhhhh.....hhhhhhhhhhhhh...ee...hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh........hhhhhhhh.hhhhhhhhhhhhhhhheeeee.................eeeee.....hhhhhhh.................hhhhhhhhhh....eeeee...hhhhhhhh....eeeeee....hhhhhh.........hhhhhhhhhh...eeeeee......hhhhhhhh.eeee.......hhhhhhhhh...............hhhhh........................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3wlt A  -3 HHAADYVLYKDATKPVEDRVADLLGRMTLAEKIGQMTQIERLVATPDVLRDNFIGSLLSGGGSVPRKGATAKEWQDMVDGFQKACMSTRLGIPMIYGIDAVHGQNNVYGATIFPHNVGLGATRDPYLVKRIGEATALEVRATGIQYAFAPCIAVCRDPRWGRCYESYSEDRRIVQSMTELIPGLQGDVPKDFTSGMPFVAGKNKVAACAKHFVGDGGTVDGINENNTIINREGLMNIHMPAYKNAMDKGVSTVMISYSSWNGVKMHANQDLVTGYLKDTLKFKGFVISDWEGIDRITTPAGSDYSYSVKASILAGLDMIMVPNKYQQFISILTGHVNGGVIPMSRIDDAVTRILRVKFTMGLFENPYADPAMAEQLGKQEHRDLAREAARKSLVLLKNGKTSTDAPLLPLPKKAPKILVAGSHADNLGYQCGGWTIEAQGDTGRTTVGTTILEAVKAAVDPSTVVVFAENPDAEFVKSGGFSYAIVAVGEHPYTETKGDNLNLTIPEPGLSTVQAVCGGVRCATVLISGRPVVVQPLLAASDALVAAWLPGSEGQGVTDALFGDFGFTGRLPRTWFKSVDQLPMNVGDAHYDPLFRLGYGLTTNAT 602
                                     6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596
   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 3WLT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:145 - Pro A:146   [ RasMol ]  
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    Leu A:404 - Pro A:405   [ RasMol ]  
    Leu A:578 - Pro A:579   [ RasMol ]  
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    Phe A:208 - Val A:209   [ RasMol ]  
    Thr A:294 - Pro A:295   [ RasMol ]  
    Val A:317 - Pro A:318   [ RasMol ]  
 

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  3wlt
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  Q9XEI3_HORVV | Q9XEI3
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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 1lq2 1x38 1x39 3wlh 3wli 3wlj 3wlk 3wll 3wlm 3wln 3wlo 3wlp 3wlq 3wlr 3wls

(-) Related Entries Specified in the PDB File

1ex1 1ieq 1iev 1iew 1iex 1j8v 3wlh 3wli 3wlj 3wlk 3wll 3wlm 3wln 3wlo 3wlp 3wlq 3wlr 3wls