1WCG - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   APHID MYROSINASE

Authors :   H. Husebye, S. Arzt, W. P. Burmeister, F. V. Haertel, A. Brandt, J. T. Rossiter, A. M. Bones

Date :   15 Nov 04 (Deposition) - 23 Nov 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.10

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

Keywords :   Aphid, Beta-Glucosidase, Myrosinase, Thioglucosidase, Insect, Glucosidase, Beta-Barrel, Hydrolase, Glycosidase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Husebye, S. Arzt, W. P. Burmeister, F. V. Haertel, A. Brandt, J. T. Rossiter, A. M. Bones
Crystal Structure At 1. 1A Resolution Of An Insect Myrosinase From Brevicoryne Brassicae Shows Its Close Relationship To Beta-Glucosidases.
Insect Biochem. Mol. Biol. V. 35 1311 2005
PubMed-ID: 16291087 | Reference-DOI: 10.1016/J.IBMB.2005.07.004

Molecule 1 - THIOGLUCOSIDASE
	Chains	:	A, B
	EC Number	:	3.2.3.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	CODON PLUS
	Organism Common	:	CABBAGE APHID
	Organism Scientific	:	BREVICORYNE BRASSICAE
	Organism Taxid	:	69196
	Synonym	:	MYROSINASE

		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 (1, 5)

No.	Name	Count	Type	Full Name
1	GOL	5	Ligand/Ion	GLYCEROL

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:19 , HIS A:122 , ASN A:166 , GLU A:167 , GLU A:374 , TRP A:416 , GLU A:423 , TRP A:424 , GOL A:1466	BINDING SITE FOR RESIDUE GOL A1465
2	AC2	SOFTWARE	GLU A:167 , GLU A:423 , PHE A:432 , GOL A:1465 , HOH A:2395 , HOH A:2774	BINDING SITE FOR RESIDUE GOL A1466
3	AC3	SOFTWARE	GLN B:19 , HIS B:122 , ASN B:166 , GLU B:167 , GLU B:374 , TRP B:416 , GLU B:423 , TRP B:424 , GOL B:1466	BINDING SITE FOR RESIDUE GOL B1465
4	AC4	SOFTWARE	GLU B:167 , TYR B:309 , TYR B:346 , GLU B:423 , GOL B:1465 , HOH B:2368 , HOH B:2369 , HOH B:2674 , HOH B:2675	BINDING SITE FOR RESIDUE GOL B1466
5	AC5	SOFTWARE	ARG B:312 , THR B:332 , SER B:333 , VAL B:334 , HOH B:2676	BINDING SITE FOR RESIDUE GOL B1467

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

Asymmetric Unit

No.	Residues
1	Ala A:181	-	Pro A:182
2	Trp A:416	-	Ser A:417
3	Ala B:181	-	Pro B:182
4	Trp B:416	-	Ser B:417

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

Asymmetric Unit (1, 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.	MYRO1_BREBR	9-23	2	A:9-23 B:9-23

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F1_2	PS00653	Glycosyl hydrolases family 1 N-terminal signature.	MYRO1_BREBR	9-23	1	A:9-23 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F1_2	PS00653	Glycosyl hydrolases family 1 N-terminal signature.	MYRO1_BREBR	9-23	1	- B:9-23

(no "Exon" information available for 1WCG)

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:462
 aligned with MYRO1_BREBR | Q95X01 from UniProtKB/Swiss-Prot  Length:464

    Alignment length:462
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462  
          MYRO1_BREBR     3 YKFPKDFMFGTSTASYQIEGGWNEDGKGENIWDRLVHTSPEVIKDGTNGDIACDSYHKYKEDVAIIKDLNLKFYRFSISWARIAPSGVMNSLEPKGIAYYNNLINELIKNDIIPLVTMYHWDLPQYLQDLGGWVNPIMSDYFKEYARVLFTYFGDRVKWWITFNEPIAVCKGYSIKAYAPNLNLKTTGHYLAGHTQLIAHGKAYRLYEEMFKPTQNGKISISISGVFFMPKNAESDDDIETAERANQFERGWFGHPVYKGDYPPIMKKWVDQKSKEEGLPWSKLPKFTKDEIKLLKGTADFYALNHYSSRLVTFGSDPNPNFNPDASYVTSVDEAWLKPNETPYIIPVPEGLRKLLIWLKNEYGNPQLLITENGYGDDGQLDDFEKISYLKNYLNATLQAMYEDKCNVIGYTVWSLLDNFEWFYGYSIHFGLVKIDFNDPQRTRTKRESYTYFKNVVSTGKP 464
               SCOP domains d1wcga1 A:3-464 Thioglucosidase                                                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1wcgA00 A:3-464 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeee.hhhhhh..........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhh..eeeee.hhhhhh........hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee...eeee....hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh..........hhhhhhhhh.....eeee...eeeeee........hhhh.eeee.hhhhh..........hhhhhhhhhhhhhhhhh...eeeeee.........hhhhhhhhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhh....eee........eeehhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------GLYCOSYL_HYDROL--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1wcg A   3 YKFPKDFMFGTSTASYQIEGGWNEDGKGENIWDRLVHTSPEVIKDGTNGDIACDSYHKYKEDVAIIKDLNLKFYRFSISWARIAPSGVMNSLEPKGIAYYNNLINELIKNDIIPLVTMYHWDLPQYLQDLGGWVNPIMSDYFKEYARVLFTYFGDRVKWWITFNEPIAVCKGYSIKAYAPNLNLKTTGHYLAGHTQLIAHGKAYRLYEEMFKPTQNGKISISISGVFFMPKNAESDDDIETAERANQFERGWFGHPVYKGDYPPIMKKWVDQKSKEEGLPWSKLPKFTKDEIKLLKGTADFYALNHYSSRLVTFGSDPNPNFNPDASYVTSVDEAWLKPNETPYIIPVPEGLRKLLIWLKNEYGNPQLLITENGYGDDGQLDDFEKISYLKNYLNATLQAMYEDKCNVIGYTVWSLLDNFEWFYGYSIHFGLVKIDFNDPQRTRTKRESYTYFKNVVSTGKP 464
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462

Chain B from PDB  Type:PROTEIN  Length:462
 aligned with MYRO1_BREBR | Q95X01 from UniProtKB/Swiss-Prot  Length:464

    Alignment length:462
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462  
          MYRO1_BREBR     3 YKFPKDFMFGTSTASYQIEGGWNEDGKGENIWDRLVHTSPEVIKDGTNGDIACDSYHKYKEDVAIIKDLNLKFYRFSISWARIAPSGVMNSLEPKGIAYYNNLINELIKNDIIPLVTMYHWDLPQYLQDLGGWVNPIMSDYFKEYARVLFTYFGDRVKWWITFNEPIAVCKGYSIKAYAPNLNLKTTGHYLAGHTQLIAHGKAYRLYEEMFKPTQNGKISISISGVFFMPKNAESDDDIETAERANQFERGWFGHPVYKGDYPPIMKKWVDQKSKEEGLPWSKLPKFTKDEIKLLKGTADFYALNHYSSRLVTFGSDPNPNFNPDASYVTSVDEAWLKPNETPYIIPVPEGLRKLLIWLKNEYGNPQLLITENGYGDDGQLDDFEKISYLKNYLNATLQAMYEDKCNVIGYTVWSLLDNFEWFYGYSIHFGLVKIDFNDPQRTRTKRESYTYFKNVVSTGKP 464
               SCOP domains d1wcgb_ B: Thioglucosidase                                                                                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1wcgB00 B:3-464 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                                                                   CATH domains
           Pfam domains (1) Glyco_hydro_1-1wcgB01 B:3-464                                                                                                                                                                                                                                                                                                                                                                                                                                                  Pfam domains (1)
           Pfam domains (2) Glyco_hydro_1-1wcgB02 B:3-464                                                                                                                                                                                                                                                                                                                                                                                                                                                  Pfam domains (2)
         Sec.struct. author .......eeeee.hhhhhh..........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhh..eeeee.hhhhhh........hhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee...eeee....hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh..........hhhhhhhhh.....eeee...eeeeee........hhhh.eeee.hhhhh..........hhhhhhhhhhhhhhhhh...eeeeee.........hhhhhhhhhhhhhhhhhhhhh....eeeeeee......hhhhhhhh....eee........eeehhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------GLYCOSYL_HYDROL--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1wcg B   3 YKFPKDFMFGTSTASYQIEGGWNEDGKGENIWDRLVHTSPEVIKDGTNGDIACDSYHKYKEDVAIIKDLNLKFYRFSISWARIAPSGVMNSLEPKGIAYYNNLINELIKNDIIPLVTMYHWDLPQYLQDLGGWVNPIMSDYFKEYARVLFTYFGDRVKWWITFNEPIAVCKGYSIKAYAPNLNLKTTGHYLAGHTQLIAHGKAYRLYEEMFKPTQNGKISISISGVFFMPKNAESDDDIETAERANQFERGWFGHPVYKGDYPPIMKKWVDQKSKEEGLPWSKLPKFTKDEIKLLKGTADFYALNHYSSRLVTFGSDPNPNFNPDASYVTSVDEAWLKPNETPYIIPVPEGLRKLLIWLKNEYGNPQLLITENGYGDDGQLDDFEKISYLKNYLNATLQAMYEDKCNVIGYTVWSLLDNFEWFYGYSIHFGLVKIDFNDPQRTRTKRESYTYFKNVVSTGKP 464
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462

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(

)

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: Thioglucosidase (1)

Cabbage aphid (Brevicoryne brassicae) [TaxId: 69196] (1)

1a	d1wcga1	A:3-464
1b	d1wcgb_	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)

Cabbage aphid (Brevicoryne brassicae) (1)

1a	1wcgA00	A:3-464
1b	1wcgB00	B:3-464

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Glyco_hydro_tim (488)

Family: Glyco_hydro_1 (36)

Brevicoryne brassicae (Cabbage aphid) (1)

1a	Glyco_hydro_1-1wcgB01	B:3-464
1b	Glyco_hydro_1-1wcgB02	B:3-464

Asymmetric Unit(hide GO term definitions)

Chain A,B (MYRO1_BREBR | Q95X01)

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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0019137	thioglucosidase activity	Catalysis of the reaction: a thioglucoside + H2O = a thiol + a sugar.
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.

Asymmetric Unit
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	Cis Peptide Bonds
		Ala A:181 - Pro A:182	[ RasMol ]
		Ala B:181 - Pro B:182	[ RasMol ]
		Trp A:416 - Ser A:417	[ RasMol ]
		Trp B:416 - Ser B:417	[ RasMol ]

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	1wcg
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	3.2.3.1
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Description

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Ligands, Modified Residues, Ions (1, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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