1H49 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE INACTIVE DOUBLE MUTANT OF THE MAIZE BETA-GLUCOSIDASE ZMGLU1-E191D-F198V IN COMPLEX WITH DIMBOA-GLUCOSIDE

Authors :   M. Czjzek, J. Moriniere, L. Verdoucq, D. R. Bevan, B. Henrissat, A. Ese

Date :   25 Feb 03 (Deposition) - 11 Mar 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Hydrolase, Glycoside Hydrolase, Beta-Glucosidase, Family 1, Retention Of The Anomeric Configuration, Inactive Mutant E191D (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Verdoucq, M. Czjzek, J. Moriniere, D. R. Bevan, A. Esen
Mutational And Structural Analysis Of Aglycone Specificity In Maize And Sorghum Beta-Glucosidases
J. Biol. Chem. V. 278 25055 2003
PubMed-ID: 12684498 | Reference-DOI: 10.1074/JBC.M301978200
(for further references see the PDB file header)

Molecule 1 - BETA-GLUCOSIDASE
	Cell	:	PLYS S CELLS
	Chains	:	A, B
	EC Number	:	3.2.1.21
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-21A
	Expression System Taxid	:	562
	Fragment	:	BETA-GLUCOSIDASE, RESIDUES 55-566
	Mutation	:	YES
	Organism Common	:	MAIZE
	Organism Scientific	:	ZEA MAYS
	Organism Taxid	:	4577
	Other Details	:	IN COMPLEX WITH THE LIGAND DIMBOA-GLUCOSIDE
	Strain	:	CV. MUTIN
	Synonym	:	CHLOROPLAST PRECURSOR, GENTIOBIASE, CELLOBIASE, BETA-D-GLUCOSIDE GLUCOHYDROLASE, GLU1
	Tissue	:	COLEOPTILE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	BGC	2	Ligand/Ion	BETA-D-GLUCOSE
2	HBO	2	Ligand/Ion	2,4-DIHYDROXY-7-(METHYLOXY)-2H-1,4-BENZOXAZIN-3(4H)-ONE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	BGC	1	Ligand/Ion	BETA-D-GLUCOSE
2	HBO	1	Ligand/Ion	2,4-DIHYDROXY-7-(METHYLOXY)-2H-1,4-BENZOXAZIN-3(4H)-ONE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	BGC	1	Ligand/Ion	BETA-D-GLUCOSE
2	HBO	1	Ligand/Ion	2,4-DIHYDROXY-7-(METHYLOXY)-2H-1,4-BENZOXAZIN-3(4H)-ONE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:38 , ASP A:191 , GLU A:406 , TRP A:457 , GLU A:464 , TRP A:465 , HBO A:1502 , HOH A:2213 , HOH A:2214 , HOH A:2215	BINDING SITE FOR RESIDUE BGC A1503
2	AC2	SOFTWARE	GLN B:38 , ASN B:190 , ASP B:191 , GLU B:406 , TRP B:457 , GLU B:464 , TRP B:465 , HBO B:1502 , HOH B:2254 , HOH B:2273 , HOH B:2274 , HOH B:2275 , HOH B:2276	BINDING SITE FOR RESIDUE BGC B1503
3	AC3	SOFTWARE	ASP A:191 , THR A:194 , VAL A:198 , PHE A:466 , BGC A:1503 , HOH A:2212 , HOH A:2213	BINDING SITE FOR RESIDUE HBO A1502
4	AC4	SOFTWARE	THR B:194 , TRP B:378 , BGC B:1503 , HOH B:2255 , HOH B:2272 , HOH B:2274 , HOH B:2275	BINDING SITE FOR RESIDUE HBO B1502

Asymmetric Unit

No.	Residues
1	A:210	-	A:216
2	B:210	-	B:216

Asymmetric Unit

No.	Residues
1	Ala A:206	-	Pro A:207
2	Ala B:206	-	Pro B:207

(no "SAP(SNP)/Variant" information available for 1H49)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F1_2	PS00653	Glycosyl hydrolases family 1 N-terminal signature.	HGGL1_MAIZE	82-96	2	A:28-42 B:28-42
2	GLYCOSYL_HYDROL_F1_1	PS00572	Glycosyl hydrolases family 1 active site.	HGGL1_MAIZE	456-464	2	A:402-410 B:402-410

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F1_2	PS00653	Glycosyl hydrolases family 1 N-terminal signature.	HGGL1_MAIZE	82-96	1	A:28-42 -
2	GLYCOSYL_HYDROL_F1_1	PS00572	Glycosyl hydrolases family 1 active site.	HGGL1_MAIZE	456-464	1	A:402-410 -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F1_2	PS00653	Glycosyl hydrolases family 1 N-terminal signature.	HGGL1_MAIZE	82-96	1	- B:28-42
2	GLYCOSYL_HYDROL_F1_1	PS00572	Glycosyl hydrolases family 1 active site.	HGGL1_MAIZE	456-464	1	- B:402-410

(no "Exon" information available for 1H49)

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
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Chain A from PDB  Type:PROTEIN  Length:491
 aligned with HGGL1_MAIZE | P49235 from UniProtKB/Swiss-Prot  Length:566

    Alignment length:491
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555 
          HGGL1_MAIZE    66 MLSPSEIPQRDWFPSDFTFGAATSAYQIEGAWNEDGKGESNWDHFCHNHPERILDGSNSDIGANSYHMYKTDVRLLKEMGMDAYRFSISWPRILPKGTKEGGINPDGIKYYRNLINLLLENGIEPYVTIFHWDVPQALEEKYGGFLDKSHKSIVEDYTYFAKVCFDNFGDKVKNWLTFNEPQTFTSFSYGTGVFAPGRCSPGLDCAYPTGNSLVEPYTAGHNILLAHAEAVDLYNKHYKRDDTRIGLAFDVMGRVPYGTSFLDKQAEERSWDINLGWFLEPVVRGDYPFSMRSLARERLPFFKDEQKEKLAGSYNMLGLNYYTSRFSKNIDISPNYSPVLNTDDAYASQEVNGPDGKPIGPPMGNPWIYMYPEGLKDLLMIMKNKYGNPPIYITENGIGDVDTKETPLPMEAALNDYKRLDYIQRHIATLKESIDLGSNVQGYFAWSLLDNFEWFAGFTERYGIVYVDRNNNCTRYMKESAKWLKEFNTAK 556
               SCOP domains d1h49a_ A: Plant beta-glucosidase (myrosinase)                                                                                                                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1h49A00 A:12-502 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.hhhhh....eeeee.hhhhhh..........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh...eeeee.hhhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh...hhhhhhhhh....eeeeeeeeeeeeee..........hhhhhh..........................hhhhhhhhhhhhhh.....eeeee....ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhh..ee...eeee.....eeeehhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------GLYCOSYL_HYDROL-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_-------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h49 A  12 MLSPSEIPQRDWFPSDFTFGAATSAYQIEGAWNEDGKGESNWDHFCHNHPERILDGSNSDIGANSYHMYKTDVRLLKEMGMDAYRFSISWPRILPKGTKEGGINPDGIKYYRNLINLLLENGIEPYVTIFHWDVPQALEEKYGGFLDKSHKSIVEDYTYFAKVCFDNFGDKVKNWLTFNDPQTFTSVSYGTGVFAPGRCSPGLDCAYPTGNSLVEPYTAGHNILLAHAEAVDLYNKHYKRDDTRIGLAFDVMGRVPYGTSFLDKQAEERSWDINLGWFLEPVVRGDYPFSMRSLARERLPFFKDEQKEKLAGSYNMLGLNYYTSRFSKNIDISPNYSPVLNTDDAYASQEVNGPDGKPIGPPMGNPWIYMYPEGLKDLLMIMKNKYGNPPIYITENGIGDVDTKETPLPMEAALNDYKRLDYIQRHIATLKESIDLGSNVQGYFAWSLLDNFEWFAGFTERYGIVYVDRNNNCTRYMKESAKWLKEFNTAK 502
                                    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       451       461       471       481       491       501

Chain B from PDB  Type:PROTEIN  Length:491
 aligned with HGGL1_MAIZE | P49235 from UniProtKB/Swiss-Prot  Length:566

    Alignment length:491
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555 
          HGGL1_MAIZE    66 MLSPSEIPQRDWFPSDFTFGAATSAYQIEGAWNEDGKGESNWDHFCHNHPERILDGSNSDIGANSYHMYKTDVRLLKEMGMDAYRFSISWPRILPKGTKEGGINPDGIKYYRNLINLLLENGIEPYVTIFHWDVPQALEEKYGGFLDKSHKSIVEDYTYFAKVCFDNFGDKVKNWLTFNEPQTFTSFSYGTGVFAPGRCSPGLDCAYPTGNSLVEPYTAGHNILLAHAEAVDLYNKHYKRDDTRIGLAFDVMGRVPYGTSFLDKQAEERSWDINLGWFLEPVVRGDYPFSMRSLARERLPFFKDEQKEKLAGSYNMLGLNYYTSRFSKNIDISPNYSPVLNTDDAYASQEVNGPDGKPIGPPMGNPWIYMYPEGLKDLLMIMKNKYGNPPIYITENGIGDVDTKETPLPMEAALNDYKRLDYIQRHIATLKESIDLGSNVQGYFAWSLLDNFEWFAGFTERYGIVYVDRNNNCTRYMKESAKWLKEFNTAK 556
               SCOP domains d1h49b_ B: Plant beta-glucosidase (myrosinase)                                                                                                                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1h49B00 B:12-502 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhh....eeeee.hhhhhh..........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh...eeeee.hhhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh...hhhhhhhhh....eeeeeeeeeeeeee..........hhhhhh.........................hhhhhhhhhhhhhhh.....eeeee....ee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhh.ee...eeee.....eeeehhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------GLYCOSYL_HYDROL-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_-------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h49 B  12 MLSPSEIPQRDWFPSDFTFGAATSAYQIEGAWNEDGKGESNWDHFCHNHPERILDGSNSDIGANSYHMYKTDVRLLKEMGMDAYRFSISWPRILPKGTKEGGINPDGIKYYRNLINLLLENGIEPYVTIFHWDVPQALEEKYGGFLDKSHKSIVEDYTYFAKVCFDNFGDKVKNWLTFNDPQTFTSVSYGTGVFAPGRCSPGLDCAYPTGNSLVEPYTAGHNILLAHAEAVDLYNKHYKRDDTRIGLAFDVMGRVPYGTSFLDKQAEERSWDINLGWFLEPVVRGDYPFSMRSLARERLPFFKDEQKEKLAGSYNMLGLNYYTSRFSKNIDISPNYSPVLNTDDAYASQEVNGPDGKPIGPPMGNPWIYMYPEGLKDLLMIMKNKYGNPPIYITENGIGDVDTKETPLPMEAALNDYKRLDYIQRHIATLKESIDLGSNVQGYFAWSLLDNFEWFAGFTERYGIVYVDRNNNCTRYMKESAKWLKEFNTAK 502
                                    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       451       461       471       481       491       501

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: TIM beta/alpha-barrel (3956)

Superfamily: (Trans)glycosidases (1191)

Family: Family 1 of glycosyl hydrolase (102)

Protein domain: Plant beta-glucosidase (myrosinase) (30)

Maize (Zea mays), zmglu1 [TaxId: 4577] (9)

1a	d1h49a_	A:
1b	d1h49b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Glycosidases (843)

Maize (Zea mays) (2)

1a	1h49A00	A:12-502
1b	1h49B00	B:12-502

(no "Pfam Domain" information available for 1H49)

Asymmetric Unit(hide GO term definitions)

Chain A,B (HGGL1_MAIZE | P49235)

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:0009736	cytokinin-activated signaling pathway	A series of molecular signals generated by the binding of a cytokinin to a receptor, and ending with regulation of a downstream cellular process, e.g. transcription.
	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.
cellular component
	GO:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	GO:0009536	plastid	Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

Asymmetric Unit
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	Cis Peptide Bonds
		Ala A:206 - Pro A:207	[ RasMol ]
		Ala B:206 - Pro B:207	[ RasMol ]

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	1h49
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UniProtKB/Swiss-Prot
	HGGL1_MAIZE \| P49235	:	1e1e 1e1f 1e4l 1e4n 1e55 1e56 1hxj 1v08

1e1e	CRYSTAL STRUCTURE OF A MONOCOT (MAIZE ZMGLU1 ) BETA-GLUCOSIDASE
1e1f	CRYSTAL STRUCTURE OF A MONOCOT (MAIZE ZMGLU1 ) BETA-GLUCOSIDASE IN COMPLEX WITH P- NITROPHENYL-BETA-D-THIOGLUCOSIDE
1e4l	CRYSTAL STRUCTURE OF THE INACTIVE MUTANT MONOCOT(MAIZE ZMGLU1) BETA-GLUCOSIDASE ZM GLU191ASP
1e4n	CRYSTAL STRUCTURE OF THE INACTIVE MUTANT MONOCOT(MAIZE ZMGLU1) BETA-GLUCOSIDASE ZMGLU E191D IN COMPLEX WITHTHE NATURAL AGLYCONE DIMBOA
1e55	CRYSTAL STRUCTURE OF THE INACTIVE MUTANT MONOCOT(MAIZE ZMGLU1) BETA-GLUCOSIDASE ZMGLUE191D IN COMPLEX WITHTHE COMPETITIVE INHIBITOR DHURRIN
1e56	CRYSTAL STRUCTURE OF THE INACTIVE MUTANT MONOCOT(MAIZE ZMGLU1) BETA-GLUCOSIDASE ZMGLUE191D IN COMPLEX WITHTHE NATURAL SUBSTRATE DIMBOA-BETA-D-GLUCOSIDE
1hxj	CRYSTAL STRUCTURE OF THE MAIZE ZM-P60.1 BETA-GLUCOSIDASE

Description

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Chains, Units

Ligands, Modified Residues, Ions (2, 4)

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SS Bonds (2, 2)

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SAPs(SNPs)/Variants (0, 0)

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SCOP Domains (1, 2)

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