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(-) Description

Title :  CRYSTAL STRUCTURE OF ENVIRONMENTAL ISOLATED GH11 IN COMPLEX WITH XYLOBIOSE AND FERULOYL-ARABINO-XYLOTRIOSE
 
Authors :  M. Vardakou, C. Dumon, J. E. Flint, J. W. Murray, P. Christakopoulos, D. P. Weiner, N. Juge, R. J. Lewis, H. J. Gilbert
Date :  12 Nov 07  (Deposition) - 25 Dec 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycoside Hydrolase, Xylanase, Beta Jelly Roll, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Vardakou, C. Dumon, J. W. Murray, P. Christakopoulos, D. P. Weiner, N. Juge, R. J. Lewis, H. J. Gilbert, J. E. Flint
Understanding The Structural Basis For Substrate And Inhibitor Recognition In Eukaryotic Gh11 Xylanases.
J. Mol. Biol. V. 375 1293 2008
PubMed-ID: 18078955  |  Reference-DOI: 10.1016/J.JMB.2007.11.007

(-) Compounds

Molecule 1 - ENXYN11A
    Chains: A
    EC Number: 3.2.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSE420-CHIS
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Other Details: GH11 CATALYTIC DOMAIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1FX31Ligand/Ion5-O-[(2E)-3-(4-HYDROXY-3-METHOXYPHENYL)PROP-2-ENOYL]-ALPHA-L-RIBOFURANOSE
2GOL4Ligand/IonGLYCEROL
3NA1Ligand/IonSODIUM ION
4XYP5Ligand/IonBETA-D-XYLOPYRANOSE

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:115 , TYR A:119 , HIS A:159BINDING SITE FOR RESIDUE NA A1196
02AC2SOFTWAREASN A:48 , TYR A:76 , TYR A:91 , GLN A:140 , TRP A:142 , GLU A:181 , XYP A:1199 , HOH A:2136 , HOH A:2260 , HOH A:2261 , HOH A:2262BINDING SITE FOR RESIDUE XYP A1197
03AC3SOFTWAREASN A:74 , TRP A:99 , XYP A:1199 , HOH A:2139 , HOH A:2263 , HOH A:2264 , HOH A:2265BINDING SITE FOR RESIDUE XYP A1198
04AC4SOFTWAREASN A:74 , TYR A:76 , TRP A:99 , TYR A:183 , XYP A:1197 , XYP A:1198 , FX3 A:1200BINDING SITE FOR RESIDUE XYP A1199
05AC5SOFTWAREASP A:105 , ARG A:126 , VAL A:127 , ASN A:128 , XYP A:1199 , GOL A:1203 , HOH A:2261BINDING SITE FOR RESIDUE FX3 A1200
06AC6SOFTWAREPHE A:69 , ASN A:70 , ASN A:85 , ASN A:128 , GOL A:1204 , HOH A:2193 , HOH A:2266 , HOH A:2267 , HOH A:2270BINDING SITE FOR RESIDUE GOL A1201
07AC7SOFTWAREARG A:100 , PRO A:101 , PRO A:102 , GLY A:103 , TYR A:122 , HOH A:2148BINDING SITE FOR RESIDUE GOL A1202
08AC8SOFTWAREASP A:105 , SER A:147 , LYS A:148 , FX3 A:1200 , HOH A:2268BINDING SITE FOR RESIDUE GOL A1203
09AC9SOFTWAREPHE A:69 , ASN A:70 , SER A:71 , SER A:95 , TRP A:96 , GLY A:97 , VAL A:127 , ASN A:128 , LYS A:148 , VAL A:150 , GOL A:1201 , HOH A:2266 , HOH A:2269 , HOH A:2270BINDING SITE FOR RESIDUE GOL A1204
10BC1SOFTWARETRP A:22 , VAL A:50 , TYR A:80 , TRP A:82 , GLU A:89 , PRO A:130 , SER A:131 , ILE A:132 , TYR A:175 , XYP A:1206 , HOH A:2262 , HOH A:2272BINDING SITE FOR RESIDUE XYP A1205
11BC2SOFTWARETRP A:22 , SER A:131 , ILE A:132 , XYP A:1205 , HOH A:2273 , HOH A:2274 , HOH A:2275BINDING SITE FOR RESIDUE XYP A1206

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:5 -A:32

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asn A:85 -Pro A:86
2Pro A:101 -Pro A:102

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VGD)

(-) Exons   (0, 0)

(no "Exon" information available for 2VGD)

(-) 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:195
                                                                                                                                                                                                                                   
               SCOP domains d2vgda_ A: automated matches                                                                                                                                                                        SCOP domains
               CATH domains 2vgdA00 A:2-196  [code=2.60.120.180, no name defined]                                                                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eeeee..eeeeeee....eeeeee....eeeeeee...eeeeeeee......eeeeeeeee....eeeeeeeeee...eeeeeeeee.....hhhhheeeeeeee..eeeeeeeeeeeee......eeeeeeeeee......eeeehhhhhhhhhhh.....eeeeeeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vgd A   2 AQTCLTSSQTGTNNGFYYSFWKDSPGTVNFCLQSGGRYTSNWSGINNWVGGKGWQTGSRRNITYSGSFNSPGNGYLALYGWTTNPLVEYYVVDSWGSWRPPGSDGTFLGTVNSDGGTYDIYRAQRVNAPSIIGNATFYQYWSVRQSKRVGGTITTGNHFDAWASVGLNLGTHNYQIMATEGYQSSGSSDITVSEG 196
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191
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  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: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2VGD)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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