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(-) Description

Title :  STRUCTURE OF A BETA-1,3-GLUCAN BINDING CBM6 FROM BACILLUS HALODURANS
 
Authors :  A. B. Boraston, A. L. Van Bueren
Date :  18 Oct 04  (Deposition) - 03 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.59
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Carbohydrate-Binding Module, Lectin, Beta-Glucan, Carbohydrate Binding, Glycoside Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. L. Van Bueren, C. Moreland, H. J. Gilbert, A. B. Boraston
Family 6 Carbohydrate Binding Modules Recognize The Non-Reducing End Of Beta-1, 3-Linked Glucans By Presenting A Unique Ligand Binding Surface
J. Biol. Chem. V. 280 530 2005
PubMed-ID: 15501830  |  Reference-DOI: 10.1074/JBC.M410113200

(-) Compounds

Molecule 1 - BH0236 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: CBM, RESIDUES 790-925
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 86665
    Synonym: BHCBM6

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2NA6Ligand/IonSODIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NA-1Ligand/IonSODIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NA-1Ligand/IonSODIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:16 , GLU A:18 , ASP A:38 , ASN A:134 , HOH A:2028BINDING SITE FOR RESIDUE NA A1141
2AC2SOFTWAREGLY A:25 , TRP A:42 , ASN A:44 , ASP A:47 , THR B:84BINDING SITE FOR RESIDUE NA A1142
3AC3SOFTWAREASP A:90 , HOH A:2051 , HOH A:2123 , HOH A:2149 , HOH A:2150BINDING SITE FOR RESIDUE NA A1143
4AC4SOFTWAREGLN B:16 , GLU B:18 , ASP B:38 , ASN B:134 , HOH B:2037BINDING SITE FOR RESIDUE NA B1141
5AC5SOFTWARETHR A:84 , GLY B:25 , TRP B:42 , ASN B:44 , ASP B:47BINDING SITE FOR RESIDUE NA B1142
6AC6SOFTWAREASP B:90 , HOH B:2062 , HOH B:2127 , HOH B:2149 , HOH B:2150BINDING SITE FOR RESIDUE NA B1143
7AC7SOFTWAREGLU A:29 , GLY A:41 , TRP A:42 , TRP A:99 , ASP A:129 , ASN A:132 , HOH A:2052 , HOH A:2171BINDING SITE FOR RESIDUE GOL A1144
8AC8SOFTWAREGLU B:29 , GLY B:41 , TRP B:42 , TRP B:99 , ASP B:129 , ASN B:132 , HOH B:2065 , HOH B:2173BINDING SITE FOR RESIDUE GOL B1144

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1W9S)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1W9S)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W9S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1W9S)

(-) Exons   (0, 0)

(no "Exon" information available for 1W9S)

(-) Sequences/Alignments

Asymmetric 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:134
 aligned with Q9KG76_BACHD | Q9KG76 from UniProtKB/TrEMBL  Length:1020

    Alignment length:134
                                   799       809       819       829       839       849       859       869       879       889       899       909       919    
         Q9KG76_BACHD   790 DLKNPYERIQAEAYDAMSGIQTEGTDDDGGGDNIGWINDGDWVKYERVHFERDASSIEVRVASDTPGGRIEIRTGSPTGTLLGDVQVPNTGGWQQWQTVTGNVQIQPGTYDVYLVFKGSPEYDLMNVNWFVFRA 923
               SCOP domains d1w9sa_ A: Hypothetical protein BH0236                                                                                                 SCOP domains
               CATH domains 1w9sA00 A:7-140 Galactose-binding domain-like                                                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........ee.....eee..eeee.......eeee......eeeeeeeee...eeeeeeeeee....eeeeeee......eeeeeee....eeeeeeeeeeeeee..eeeeeeeeee........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w9s A   7 DLKNPYERIQAEAYDAMSGIQTEGTDDDGGGDNIGWINDGDWVKYERVHFERDASSIEVRVASDTPGGRIEIRTGSPTGTLLGDVQVPNTGGWQQWQTVTGNVQIQPGTYDVYLVFKGSPEYDLMNVNWFVFRA 140
                                    16        26        36        46        56        66        76        86        96       106       116       126       136    


Chain B from PDB  Type:PROTEIN  Length:134
 aligned with Q9KG76_BACHD | Q9KG76 from UniProtKB/TrEMBL  Length:1020

    Alignment length:134
                                   799       809       819       829       839       849       859       869       879       889       899       909       919    
         Q9KG76_BACHD   790 DLKNPYERIQAEAYDAMSGIQTEGTDDDGGGDNIGWINDGDWVKYERVHFERDASSIEVRVASDTPGGRIEIRTGSPTGTLLGDVQVPNTGGWQQWQTVTGNVQIQPGTYDVYLVFKGSPEYDLMNVNWFVFRA 923
               SCOP domains d1w9sb_ B: Hypothetical protein BH0236                                                                                                 SCOP domains
               CATH domains 1w9sB00 B:7-140 Galactose-binding domain-like                                                                                          CATH domains
           Pfam domains (1) ---------CBM_6-1w9sB01 B:16-140                                                                                                        Pfam domains (1)
           Pfam domains (2) ---------CBM_6-1w9sB02 B:16-140                                                                                                        Pfam domains (2)
         Sec.struct. author ........ee.....eee..eeee.......eeee......eeeeeeeee...eeeeeeeeee....eeeeeee......eeeeeee....eeeeeeeeeeeeee..eeeeeeeeee........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w9s B   7 DLKNPYERIQAEAYDAMSGIQTEGTDDDGGGDNIGWINDGDWVKYERVHFERDASSIEVRVASDTPGGRIEIRTGSPTGTLLGDVQVPNTGGWQQWQTVTGNVQIQPGTYDVYLVFKGSPEYDLMNVNWFVFRA 140
                                    16        26        36        46        56        66        76        86        96       106       116       126       136
   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, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: GBD (153)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9KG76_BACHD | Q9KG76)
molecular function
    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:0052861    glucan endo-1,3-beta-glucanase activity, C-3 substituted reducing group    Catalysis of the endohydrolysis of (1->3)-linkages in beta-D-glucans when the glucose residue whose reducing group is involved in the linkage to be hydrolysed is itself substituted at C-3.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9KG76_BACHD | Q9KG76: 5t49 5t4a 5t4c 5t4g 5upi 5upm 5upn 5upo 5v1w
UniProtKB/TrEMBL
        Q9KG76_BACHD | Q9KG76: 1w9t 1w9w

(-) Related Entries Specified in the PDB File

1w9t STRUCTURE OF A BETA-1,3-GLUCAN BINDING CBM6 FROM BACILLUS HALODURANS IN COMPLEX WITH XYLOBIOSE
1w9w STRUCTURE OF A BETA-1,3-GLUCAN BINDING CBM6 FROM BACILLUS HALODURANS IN COMPLEX WITH LAMINARIHEXAOSE