4H4I - JenaLib

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Biol. Unit 1 - sites (Jmol Viewer)

Title :   OYE1-W116V COMPLEXED WITH THE DISMUTATION PRODUCT OF (S)-CARVONE

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

Date :   17 Sep 12 (Deposition) - 09 Oct 13 (Release) - 06 Nov 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.25

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

Keywords :   Carvone, Dismutation, Enantioselectivity, Enantiocomplementary, Flipped Binding, Alpha/Beta Barrel, Tim Barrel, Nad(P)H Oxidoreductase, Nad(P)H, Fmn, 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 Th 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)
	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 Unit	:	A
Biological Unit 1 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 17)

No.	Name	Count	Type	Full Name
1	0WV	1	Ligand/Ion	2-METHYL-5-(PROP-1-EN-2-YL)PHENOL
2	1PE	5	Ligand/Ion	PENTAETHYLENE GLYCOL
3	CL	2	Ligand/Ion	CHLORIDE ION
4	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
5	MG	3	Ligand/Ion	MAGNESIUM ION
6	NA	5	Ligand/Ion	SODIUM ION

Biological Unit 1 (3, 14)

No.	Name	Count	Type	Full Name
1	0WV	2	Ligand/Ion	2-METHYL-5-(PROP-1-EN-2-YL)PHENOL
2	1PE	10	Ligand/Ion	PENTAETHYLENE GLYCOL
3	CL	-1	Ligand/Ion	CHLORIDE ION
4	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
5	MG	-1	Ligand/Ion	MAGNESIUM ION
6	NA	-1	Ligand/Ion	SODIUM ION

Asymmetric Unit (17, 17)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HOH A:914 , HOH A:1052 , HOH A:1088 , HOH A:1089 , HOH A:1123 , HOH A:1124	BINDING SITE FOR RESIDUE MG A 401
02	AC2	SOFTWARE	THR A:37 , TYR A:82 , HIS A:191 , ASN A:194 , TYR A:196 , TYR A:375 , FMN A:412	BINDING SITE FOR RESIDUE 0WV A 402
03	AC3	SOFTWARE	1PE A:409 , HOH A:916	BINDING SITE FOR RESIDUE NA A 403
04	AC4	SOFTWARE	ASP A:51 , TRP A:52 , ASP A:358 , GLU A:389 , NA A:408 , HOH A:1126	BINDING SITE FOR RESIDUE 1PE A 404
05	AC5	SOFTWARE	GLU A:305 , GLY A:307 , SER A:308 , ASP A:310 , TYR A:313 , ARG A:322 , ASP A:339 , NA A:417 , HOH A:974 , HOH A:1036	BINDING SITE FOR RESIDUE 1PE A 405
06	AC6	SOFTWARE	HOH A:1017 , HOH A:1043 , HOH A:1051 , HOH A:1129	BINDING SITE FOR RESIDUE MG A 406
07	AC7	SOFTWARE	GLN A:9 , ALA A:10 , 1PE A:410	BINDING SITE FOR RESIDUE NA A 407
08	AC8	SOFTWARE	TRP A:52 , 1PE A:404	BINDING SITE FOR RESIDUE NA A 408
09	AC9	SOFTWARE	PHE A:123 , PHE A:296 , NA A:403 , HOH A:769	BINDING SITE FOR RESIDUE 1PE A 409
10	BC1	SOFTWARE	PRO A:8 , GLN A:9 , ALA A:10 , HIS A:43 , ASP A:83 , ARG A:334 , LYS A:362 , GLY A:363 , NA A:407	BINDING SITE FOR RESIDUE 1PE A 410
11	BC2	SOFTWARE	GLU A:336 , HOH A:1015 , HOH A:1036 , HOH A:1060 , HOH A:1092	BINDING SITE FOR RESIDUE MG A 411
12	BC3	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 , PRO A:295 , GLY A:324 , ASN A:325 , GLY A:347 , ARG A:348 , PHE A:374 , 0WV A:402 , HOH A:503 , HOH A:504 , HOH A:506 , HOH A:515	BINDING SITE FOR RESIDUE FMN A 412
13	BC4	SOFTWARE	LYS A:4 , LYS A:368	BINDING SITE FOR RESIDUE CL A 413
14	BC5	SOFTWARE	1PE A:415	BINDING SITE FOR RESIDUE NA A 414
15	BC6	SOFTWARE	ASP A:370 , HIS A:380 , ASP A:384 , NA A:414 , HOH A:820	BINDING SITE FOR RESIDUE 1PE A 415
16	BC7	SOFTWARE	ASP A:83 , ASN A:126	BINDING SITE FOR RESIDUE CL A 416
17	BC8	SOFTWARE	1PE A:405	BINDING SITE FOR RESIDUE NA A 417

(no "SS Bond" information available for 4H4I)

Asymmetric Unit

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

(no "SAP(SNP)/Variant" information available for 4H4I)

(no "PROSITE Motif" information available for 4H4I)

(no "Exon" information available for 4H4I)

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:399
                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4h4ia_ 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............hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h4i A   1 SFVKDFKPQALGDTNLFKPIKIGNNELLHRAVIPPLTRMRALHPGNIPNRDWAVEYYTQRAQRPGTMIITEGAFISPQAGGYDNAPGVWSEEQMVEWTKIFNAIHEKKSFVWVQLVVLGWAAFPDNLARDGLRYDSASDNVFMDAEQEAKAKKANNPQHSLTKDEIKQYIKEYVQAAKNSIAAGADGVEIHSANGYLLNQFLDPHSNTRTDEYGGSIENRARFTLEVVDALVEAIGHEKVGLRLSPYGVFNSMSGGAETGIVAQYAYVAGELEKRAKAGKRLAFVHLVEPRVTNPFLTEGEGEYEGGSNDFVYSIWKGPVIRAGNFALHPEVVREEVKDKRTLIGYGRFFISNPDLVDRLEKGLPLNKYDRDTFYQMSAHGYIDYPTYEEALKLGWDKK 399
                                    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 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)

d4h4ia_

(no "CATH Domain" information available for 4H4I)

(no "Pfam Domain" information available for 4H4I)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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		1PE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Cis Peptide Bonds
		His A:43 - Pro A:44	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	4h4i
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	OYE1_SACPS \| Q02899
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	1.6.99.1
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 17)

Sites (17, 17)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (1, 1)

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Gene Ontology (7, 7)

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