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(-) Description

Title :  FAMILY 1 B-GLUCOSIDASE FROM THERMOTOGA MARITIMA
 
Authors :  T. Gloster, D. L. Zechel, A. B. Boraston, C. M. Boraston, J. M. Macdonald D. M. Tilbrook, R. V. Stick, G. J. Davies
Date :  19 Jun 03  (Deposition) - 25 Nov 03  (Release) - 16 Feb 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hydrolase, Glucoside Hydrolysis, Family Gh1 (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. L. Zechel, A. B. Boraston, T. Gloster, C. M. Boraston, J. M. Macdonald, D. M. Tilbrook, R. V. Stick, G. J. Davies
Iminosugar Glycosidase Inhibitors: Structural And Thermodynamic Dissection Of The Binding Of Isofagomine And 1-Deoxynojirimycin To Beta-Glucosidases
J. Am. Chem. Soc. V. 125 14313 2003
PubMed-ID: 14624580  |  Reference-DOI: 10.1021/JA036833H

(-) Compounds

Molecule 1 - BETA-GLUCOSIDASE A
    ChainsA, B
    EC Number3.2.1.21
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21
    Expression System Taxid511693
    Expression System VectorPET-28A
    Organism ScientificTHERMOTOGA MARITIMA
    Organism Taxid2336
    SynonymGENTIOBIASE, CELLOBIASE, BETA-D-GLUCOSIDE GLUCOHYDROLASE

 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  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1G2F2Ligand/Ion2-DEOXY-2-FLUORO-ALPHA-D-GLUCOPYRANOSE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1G2F1Ligand/Ion2-DEOXY-2-FLUORO-ALPHA-D-GLUCOPYRANOSE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1G2F1Ligand/Ion2-DEOXY-2-FLUORO-ALPHA-D-GLUCOPYRANOSE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:20 , HIS A:121 , ASN A:165 , GLU A:166 , TYR A:295 , GLU A:351 , TRP A:398 , GLU A:405 , TRP A:406 , HOH A:2114 , HOH A:2224BINDING SITE FOR RESIDUE G2F A1446
2AC2SOFTWAREGLN B:20 , HIS B:121 , ASN B:165 , GLU B:166 , TYR B:295 , TRP B:324 , GLU B:351 , TRP B:398 , GLU B:405 , TRP B:406BINDING SITE FOR RESIDUE G2F B1446

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ala A:181 -Pro A:182
2Trp A:398 -Ser A:399
3Ala B:181 -Pro B:182
4Trp B:398 -Ser B:399

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 4)

Asymmetric Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLYCOSYL_HYDROL_F1_2PS00653 Glycosyl hydrolases family 1 N-terminal signature.BGLA_THEMA10-24
 
  2A:10-24
B:10-24
2GLYCOSYL_HYDROL_F1_1PS00572 Glycosyl hydrolases family 1 active site.BGLA_THEMA347-355
 
  2A:347-355
B:347-355
Biological Unit 1 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLYCOSYL_HYDROL_F1_2PS00653 Glycosyl hydrolases family 1 N-terminal signature.BGLA_THEMA10-24
 
  1A:10-24
-
2GLYCOSYL_HYDROL_F1_1PS00572 Glycosyl hydrolases family 1 active site.BGLA_THEMA347-355
 
  1A:347-355
-
Biological Unit 2 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLYCOSYL_HYDROL_F1_2PS00653 Glycosyl hydrolases family 1 N-terminal signature.BGLA_THEMA10-24
 
  1-
B:10-24
2GLYCOSYL_HYDROL_F1_1PS00572 Glycosyl hydrolases family 1 active site.BGLA_THEMA347-355
 
  1-
B:347-355

(-) Exons   (0, 0)

(no "Exon" information available for 1OIN)

(-) 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:442
 aligned with BGLA_THEMA | Q08638 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:444
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441    
           BGLA_THEMA     2 NVKKFPEGFLWGVATASYQIEGSPLADGAGMSIWHTFSHTPGNVKNGDTGDVACDHYNRWKEDIEIIEKLGVKAYRFSISWPRILPEGTGRVNQKGLDFYNRIIDTLLEKGITPFVTIYHWDLPFALQLKGGWANREIADWFAEYSRVLFENFGDRVKNWITLNEPWVVAIVGHLYGVHAPGMRDIYVAFRAVHNLLRAHARAVKVFRETVKDGKIGIVFNNGYFEPASEKEEDIRAVRFMHQFNNYPLFLNPIYRGDYPELVLEFAREYLPENYKDDMSEIQEKIDFVGLNYYSGHLVKFDPDAPAKVSFVERDLPKTAMGWEIVPEGIYWILKKVKEEYNPPEVYITENGAAFDDVVSEDGRVHDQNRIDYLKAHIGQAWKAIQEGVPLKGYFVWSLLDNFEWAEGYSKRFGIVYVDYSTQKRIVKDSGYWYSNVVKNNGLE 445
               SCOP domains d1oina_ A: Beta-glucosidase A                                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1oinA00 A:2-445 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee.....eeeee.hhhhhh...hhhhh..hhhhhhhh....hhhhh......hhhhhhhhhhhhhhhhh..eeeee.hhhhhh.......hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee...eeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhh....eeeee...eeeeee..--...eeee..............hhhhhhhhhhhhhhhh...eeeeee...............hhhhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhh....eeee....eeeehhhhhhhhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------GLYCOSYL_HYDROL----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1oin A   2 NVKKFPEGFLWGVATASYQIEGSPLADGAGMSIWHTFSHTPGNVKNGDTGDVACDHYNRWKEDIEIIEKLGVKAYRFSISWPRILPEGTGRVNQKGLDFYNRIIDTLLEKGITPFVTIYHWDLPFALQLKGGWANREIADWFAEYSRVLFENFGDRVKNWITLNEPWVVAIVGHLYGVHAPGMRDIYVAFRAVHNLLRAHARAVKVFRETVKDGKIGIVFNNGYFEPASEKEEDIRAVRFMHQFNNYPLFLNPIYRGDYPELVLEFAREYLPENYKDDMSEIQEKIDFVGLNYYSGHLVKFDP--PAKVSFVERDLPKTAMGWEIVPEGIYWILKKVKEEYNPPEVYITENGAAFDDVVSEDGRVHDQNRIDYLKAHIGQAWKAIQEGVPLKGYFVWSLLDNFEWAEGYSKRFGIVYVDYSTQKRIVKDSGYWYSNVVKNNGLE 445
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301  |  | 311       321       331       341       351       361       371       381       391       401       411       421       431       441    
                                                                                                                                                                                                                                                                                                                                        304  |                                                                                                                                          
                                                                                                                                                                                                                                                                                                                                           307                                                                                                                                          

Chain B from PDB  Type:PROTEIN  Length:443
 aligned with BGLA_THEMA | Q08638 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:444
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441    
           BGLA_THEMA     2 NVKKFPEGFLWGVATASYQIEGSPLADGAGMSIWHTFSHTPGNVKNGDTGDVACDHYNRWKEDIEIIEKLGVKAYRFSISWPRILPEGTGRVNQKGLDFYNRIIDTLLEKGITPFVTIYHWDLPFALQLKGGWANREIADWFAEYSRVLFENFGDRVKNWITLNEPWVVAIVGHLYGVHAPGMRDIYVAFRAVHNLLRAHARAVKVFRETVKDGKIGIVFNNGYFEPASEKEEDIRAVRFMHQFNNYPLFLNPIYRGDYPELVLEFAREYLPENYKDDMSEIQEKIDFVGLNYYSGHLVKFDPDAPAKVSFVERDLPKTAMGWEIVPEGIYWILKKVKEEYNPPEVYITENGAAFDDVVSEDGRVHDQNRIDYLKAHIGQAWKAIQEGVPLKGYFVWSLLDNFEWAEGYSKRFGIVYVDYSTQKRIVKDSGYWYSNVVKNNGLE 445
               SCOP domains d1oinb_ B: Beta-glucosidase A                                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1oinB00 B:2-445 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                 CATH domains
           Pfam domains (1) Glyco_hydro_1-1oinB01 B:2-444                                                                                                                                                                                                                                                                                                                                                                                                                              - Pfam domains (1)
           Pfam domains (2) Glyco_hydro_1-1oinB02 B:2-444                                                                                                                                                                                                                                                                                                                                                                                                                              - Pfam domains (2)
         Sec.struct. author ..ee.....eeeee.hhhhhh...hhhhh..hhhhhhhh....hhhhh......hhhhhhhhhhhhhhhhh..eeeee.hhhhhh.......hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh-..eeeeee...eeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhh....eeeee...eeeeee...hhh.eeee..............hhhhhhhhhhhhhhhh...eeeeee...............hhhhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhh....eeee....eeeehhhhhhhhhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------GLYCOSYL_HYDROL----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1oin B   2 NVKKFPEGFLWGVATASYQIEGSPLADGAGMSIWHTFSHTPGNVKNGDTGDVACDHYNRWKEDIEIIEKLGVKAYRFSISWPRILPEGTGRVNQKGLDFYNRIIDTLLEKGITPFVTIYHWDLPFALQLKGGWANREIADWFAEYSRVLFENFGDRVKNWITLNEPWVVAIVGHLYGVHAPGMRDIYVAFRAVHNLLRAHARAVKVFRETV-DGKIGIVFNNGYFEPASEKEEDIRAVRFMHQFNNYPLFLNPIYRGDYPELVLEFAREYLPENYKDDMSEIQEKIDFVGLNYYSGHLVKFDPDAPAKVSFVERDLPKTAMGWEIVPEGIYWILKKVKEEYNPPEVYITENGAAFDDVVSEDGRVHDQNRIDYLKAHIGQAWKAIQEGVPLKGYFVWSLLDNFEWAEGYSKRFGIVYVDYSTQKRIVKDSGYWYSNVVKNNGLE 445
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211| |    221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441    
                                                                                                                                                                                                                                            212 |                                                                                                                                                                                                                                       
                                                                                                                                                                                                                                              214                                                                                                                                                                                                                                       

   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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (BGLA_THEMA | Q08638)
molecular function
    GO:0008422    beta-glucosidase activity    Catalysis of the hydrolysis of terminal, non-reducing beta-D-glucose residues with release of beta-D-glucose.
    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:0102483    scopolin beta-glucosidase activity    Catalysis of the reaction: H2O + scopolin <=> beta-D-glucose + scopoletin
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:0030245    cellulose catabolic process    The chemical reactions and pathways resulting in the breakdown of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
    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.
    GO:0000272    polysaccharide catabolic process    The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.

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  1oin
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 Related Entries

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

UniProtKB/Swiss-Prot
        BGLA_THEMA | Q086381od0 1oif 1oim 1uz1 1w3j 2cbu 2cbv 2ces 2cet 2j75 2j77 2j78 2j79 2j7b 2j7c 2j7d 2j7e 2j7f 2j7g 2j7h 2jal 2vrj 2wbg 2wc3 2wc4 4gxp 5n6s 5n6t

(-) Related Entries Specified in the PDB File

1od0 FAMILY 1 B-GLUCOSIDASE FROM THERMOTOGA MARITIMA
1oif FAMILY 1 B-GLUCOSIDASE FROM THERMOTOGA MARITIMA
1oim FAMILY 1 B-GLUCOSIDASE FROM THERMOTOGA MARITIMA
1uz1 FAMILY 1 B-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH GLUCO-ISOFAGOMINE LACTAM
1w3j FAMILY 1 B-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH TETRAHYDROOXAZINE
2cbu BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH CASTANOSPERMINE
2cbv BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH CALYSTEGINE B2
2ces BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH GLUCOIMIDAZOLE
2cet BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH PHENETHYL-SUBSTITUTED GLUCOIMIDAZOLE
2j75 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH NOEUROMYCIN
2j77 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH DEOXYNOJIRIMYCIN
2j78 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH GLUCO-HYDROXIMOLACTAM
2j79 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH GALACTO-HYDROXIMOLACTAM
2j7b BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH GLUCO-TETRAZOLE
2j7c BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH PHENYLAMINOMETHYL-DERIVED GLUCOIMIDAZOLE
2j7d BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH METHOXYCARBONYL-SUBSTITUTED GLUCOIMIDAZOLE
2j7e BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH METHYL ACETATE-SUBSTITUTED GLUCOIMIDAZOLE
2j7f BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH CARBOXYLATE-SUBSTITUTED GLUCOIMIDAZOLE
2j7g BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH METHYL ACETIC ACID-SUBSTITUTED GLUCOIMIDAZOLE
2j7h BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH AZAFAGOMINE
2jal BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH CYCLOPHELLITOL
2vrj BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH N-OCTYL-5-DEOXY-6-OXA-N-(THIO) CARBAMOYLCALYSTEGINE
2wbg STRUCTURE OF FAMILY 1 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH 3-IMINO-2-OXA-(+)- CASTANOSPERMINE
2wc3 STRUCTURE OF FAMILY 1 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH 3-IMINO-2-OXA-(+)-8-EPI- CASTANOSPERMINE
2wc4 STRUCTURE OF FAMILY 1 BETA-GLUCOSIDASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH 3-IMINO-2-THIA-(+)- CASTANOSPERMINE