4GWE - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   W116L-OYE1 COMPLEXED WITH (R)-CARVONE

Authors :   Y. A. Pompeu, J. D. Stewart

Date :   02 Sep 12 (Deposition) - 03 Oct 12 (Release) - 09 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.45

Chains :   Asym./Biol. Unit : A

Keywords :   Reductase, Enantioselectivity, Flipped Binding, Carvone, Enoate Reductase, Oye, Old Yellow Enzyme, Biocatalysis, Atomic Resolution, Tim Barrel, Alpha/Beta Barrel, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. A. Pompeu, B. Sullivan, J. D. Stewart
X‑ Ray Crystallography Reveals How Subtle Changes Control The Orientation Of Substrate Binding In An Alkene Reductase
Acs Catalysis V. 3 2376 2013
PubMed: search | Reference-DOI: 10.1021/CS400622E

Molecule 1 - NADPH DEHYDROGENASE 1
	Chains	:	A
	EC Number	:	1.6.99.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET
	Expression System Strain	:	BL21(DE3) GOLD
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	OYE1
	Mutation	:	YES
	Organism Common	:	LAGER YEAST
	Organism Scientific	:	SACCHAROMYCES PASTORIANUS
	Organism Taxid	:	27292
	Synonym	:	OLD YELLOW ENZYME 1

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (6, 9)

No.	Name	Count	Type	Full Name
1	07V	1	Ligand/Ion	(5R)-2-METHYL-5-(PROP-1-EN-2-YL)CYCLOHEX-2-EN-1-ONE
2	1PE	2	Ligand/Ion	PENTAETHYLENE GLYCOL
3	CL	1	Ligand/Ion	CHLORIDE ION
4	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
5	MG	2	Ligand/Ion	MAGNESIUM ION
6	NA	2	Ligand/Ion	SODIUM ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:34 , PRO A:35 , LEU A:36 , THR A:37 , GLY A:72 , GLN A:114 , HIS A:191 , ASN A:194 , ARG A:243 , GLY A:324 , ASN A:325 , GLY A:347 , ARG A:348 , PHE A:374 , TYR A:375 , 07V A:409 , HOH A:542 , HOH A:553 , HOH A:564 , HOH A:607	BINDING SITE FOR RESIDUE FMN A 401
2	AC2	SOFTWARE	HOH A:624 , HOH A:731 , HOH A:781 , HOH A:798	BINDING SITE FOR RESIDUE MG A 402
3	AC3	SOFTWARE	HOH A:613 , HOH A:760 , HOH A:825 , HOH A:895 , HOH A:933 , HOH A:934	BINDING SITE FOR RESIDUE MG A 403
4	AC4	SOFTWARE	ASP A:51 , TRP A:52 , ASP A:358 , GLU A:389 , NA A:408 , HOH A:901 , HOH A:1040	BINDING SITE FOR RESIDUE 1PE A 404
5	AC5	SOFTWARE	TRP A:396 , 1PE A:406 , HOH A:671	BINDING SITE FOR RESIDUE NA A 405
6	AC6	SOFTWARE	ASP A:370 , HIS A:380 , ASP A:384 , PRO A:386 , NA A:405	BINDING SITE FOR RESIDUE 1PE A 406
7	AC7	SOFTWARE	ASP A:83 , ASN A:126	BINDING SITE FOR RESIDUE CL A 407
8	AC8	SOFTWARE	TRP A:52 , 1PE A:404 , HOH A:901	BINDING SITE FOR RESIDUE NA A 408
9	AC9	SOFTWARE	THR A:37 , HIS A:191 , ASN A:194 , TYR A:196 , PHE A:250 , PRO A:295 , PHE A:296 , TYR A:375 , FMN A:401	BINDING SITE FOR RESIDUE 07V A 409

(no "SS Bond" information available for 4GWE)

Asymmetric/Biological Unit

No.	Residues
1	His A:43	-	Pro A:44

(no "SAP(SNP)/Variant" information available for 4GWE)

(no "PROSITE Motif" information available for 4GWE)

(no "Exon" information available for 4GWE)

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
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Chain A from PDB  Type:PROTEIN  Length:398
                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4gwea_ A: Old yellow enzyme (OYE)                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhh.eee..eee...ee...................hhhhhhhhhh.....eee...ee.hhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhhh....ee.......hhhhhhhhhhh....ee.hhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhh............hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....eeeee.....................hhhhhhh...eeee.....hhhhhhhhh....eeee.hhhhhhh.hhhhhhhhh......hhhhh............hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gwe A   1 SFVKDFKPQALGDTNLFKPIKIGNNELLHRAVIPPLTRMRALHPGNIPNRDWAVEYYTQRAQRPGTMIITEGAFISPQAGGYDNAPGVWSEEQMVEWTKIFNAIHEKKSFVWVQLLVLGWAAFPDNLARDGLRYDSASDNVFMDAEQEAKAKKANNPQHSLTKDEIKQYIKEYVQAAKNSIAAGADGVEIHSANGYLLNQFLDPHSNTRTDEYGGSIENRARFTLEVVDALVEAIGHEKVGLRLSPYGVFNSMSGGAETGIVAQYAYVAGELEKRAKAGKRLAFVHLVEPRVTNPFLTEGEGEYEGGSNDFVYSIWKGPVIRAGNFALHPEVVREEVKDKRTLIGYGRFFISNPDLVDRLEKGLPLNKYDRDTFYQMSAHGYIDYPTYEEALKLGWDK 398
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: TIM beta/alpha-barrel (3956)

Superfamily: FMN-linked oxidoreductases (290)

Family: FMN-linked oxidoreductases (242)

Protein domain: Old yellow enzyme (OYE) (20)

Lager yeast (Saccharomyces pastorianus) [TaxId: 27292] (18)

d4gwea_

(no "CATH Domain" information available for 4GWE)

(no "Pfam Domain" information available for 4GWE)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		07V	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		1PE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Sites
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		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		His A:43 - Pro A:44	[ RasMol ]

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	4gwe
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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	1.6.99.1
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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 9)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

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