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(-) Description

Title :  THE IMPORTANCE OF CH-PI STACKING INTERACTIONS BETWEEN CARBOHYDRATE AND AROMATIC RESIDUES IN TRUNCATED FIBROBACTER SUCCINOGENES 1,3-1,4-BETA-D-GLUCANASE
 
Authors :  L. C. Tsai, C. H. Hsiao
Date :  09 Apr 09  (Deposition) - 21 Apr 10  (Release) - 21 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  1, 3-1, 4-Beta-D-Glucanase, Ch-Pi Stacking Interactions, Tris Inhibition, Hydrolase, Glycosidase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. C. Tsai, C. H. Hsiao, H. C. Huang
The Importance Of Ch-Pi Stacking Interactions Between Carbohydrate And Aromatic Residues In Truncated Fibrobacter Succinogenes 1, 3-1, 4-Beta-D-Glucanase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BETA-GLUCANASE
    Chains: A
    EC Number: 3.2.1.73
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET26B(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: BACTEROIDES SUCCINOGENES
    Organism Scientific: FIBROBACTER SUCCINOGENES
    Organism Taxid: 833
    Synonym: ENDO-BETA-1,3-1,4 GLUCANASE, 1,3-1,4-BETA-D-GLUCAN 4-GLUCANOHYDROLASE, MIXED LINKAGE BETA-GLUCANASE, LICHENASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CA3Ligand/IonCALCIUM ION
3TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:164 , ASN A:189 , GLY A:222 , HOH A:466 , HOH A:467 , HOH A:479BINDING SITE FOR RESIDUE CA A 401
2AC2SOFTWARELEU A:15 , PHE A:152 , GLU A:154 , HOH A:482 , HOH A:502 , HOH A:612BINDING SITE FOR RESIDUE CA A 402
3AC3SOFTWARELYS A:200 , ASP A:202 , HOH A:420 , HOH A:617 , HOH A:669 , HOH A:672BINDING SITE FOR RESIDUE CA A 403
4AC4SOFTWAREPHE A:40 , GLU A:56 , GLU A:60 , ASN A:139 , TRP A:141 , PHE A:205 , ACT A:406 , HOH A:516 , HOH A:540 , HOH A:559 , HOH A:653BINDING SITE FOR RESIDUE TRS A 404
5AC5SOFTWAREPHE A:193 , LYS A:200 , ILE A:217 , SER A:219 , HOH A:416 , HOH A:537BINDING SITE FOR RESIDUE ACT A 405
6AC6SOFTWAREGLU A:47 , PHE A:205 , TRS A:404 , HOH A:559 , HOH A:622BINDING SITE FOR RESIDUE ACT A 406
7AC7SOFTWARETRP A:148BINDING SITE FOR RESIDUE ACT A 407

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3H0O)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:91 -Pro A:92
2Leu A:157 -Pro A:158

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3H0O)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GH16_1PS01034 Glycosyl hydrolases family 16 active sites.GUB_FIBSS79-89  1A:56-66

(-) Exons   (0, 0)

(no "Exon" information available for 3H0O)

(-) 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:240
 aligned with GUB_FIBSS | P17989 from UniProtKB/Swiss-Prot  Length:349

    Alignment length:240
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266
            GUB_FIBSS    27 AKDFSGAELYTLEEVQYGKFEARMKMAAASGTVSSMFLYQNGSEIADGRPWVEVDIEVLGKNPGSFQSNIITGKAGAQKTSEKHHAVSPAADQAFHTYGLEWTPNYVRWTVDGQEVRKTEGGQVSNLTGTQGLRFNLWSSESAAWVGQFDESKLPLFQFINWVKVYKYTPGQGEGGSDFTLDWTDNFDTFDGSRWGKGDWTFDGNRVDLTDKNIYSRDGMLILALTRKGQESFNGQVPRD 266
               SCOP domains d3h0oa_ A: automated matches                                                                                                                                                                                                                     SCOP domains
               CATH domains 3h0oA00 A:4-243  [code=2.60.120.200, no name defined]                                                                                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeee......eeeeeeee......eeeeeeee.............eeeeeee.....eeeeeeeeee..eee...eeee.........eeeeeee....eeeee..eeeeee.hhhhhh.....eeeeeeee..hhhhhh..hhhhh.eeeeeeeeeeeee....hhhhh.eeeeeee.........eee.........eee....eeee..eeeeeeee............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------------------------GH16_1     --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3h0o A   4 AKDFSGAELYTLEEVQYGKFEARMKMAAASGTVSSMFLYQNGSEIADGRPWVEVDIEVLGKNPGSFQSNIITGKAGAQKTSEKHHAVSPAADQAFHTYGLEWTPNYVRWTVDGQEVRKTEGGQVSNLTGTQGLRFNLWSSESAAWVGQFDESKLPLFQFINWVKVYKYTPGQGEGGSDFTLDWTDNFDTFDGSRWGKGDFTFDGNRVDLTDKNIYSRDGMLILALTRKGQESFNGQVPRD 243
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243
   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  (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 3H0O)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GUB_FIBSS | P17989)
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: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:0042972    licheninase activity    Catalysis of the hydrolysis of (1->4)-beta-D-glucosidic linkages in beta-D-glucans containing (1->3) and (1->4) bonds.
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: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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  3h0o
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  GUB_FIBSS | P17989
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  3.2.1.73
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 Related Entries

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

UniProtKB/Swiss-Prot
        GUB_FIBSS | P17989: 1mve 1zm1 2r49 3axd 3axe 3hr9

(-) Related Entries Specified in the PDB File

1mve WILE TYPE
1zm1 COMPLEX STRUCTURE WITH PRODUCT
3hr9 MUTANT F40I