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Asym./Biol. Unit (Jmol Viewer)

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

Title :   STRUCTURE OF HUMAN OSC IN COMPLEX WITH LANOSTEROL

Authors :   R. Thoma, T. Schulz-Gasch, B. D'Arcy, J. Benz, J. Aebi, H. Dehmlow, M. Hennig, A. Ruf

Date :   19 Aug 04 (Deposition) - 29 Oct 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym./Biol. Unit : A

Keywords :   Cyclase, Cholesterol, Lanosterol, Monotopic Membrane Protein, B-Octyl-Glucoside, Isomerase, Steroid Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Thoma, T. Schulz-Gasch, B. D'Arcy, J. Benz, J. Aebi, H. Dehmlow, M. Hennig, M. Stihle, A. Ruf
Insight Into Steroid Scaffold Formation From The Structure Of Human Oxidosqualene Cyclase
Nature V. 432 118 2004
PubMed-ID: 15525992 | Reference-DOI: 10.1038/NATURE02993
(for further references see the PDB file header)

Molecule 1 - LANOSTEROL SYNTHASE
	Chains	:	A
	EC Number	:	5.4.99.7
	Engineered	:	YES
	Expression System	:	PICHIA PASTORIS
	Expression System Plasmid	:	PPICZB
	Expression System Strain	:	GS115
	Expression System Taxid	:	4922
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	OXIDOSQUALENE--LANOSTEROL CYCLASE, OXIDO SQUALENE CYCLASE, 2,3-EPOXYSQUALENE--LANOSTEROL CYCLASE, OSC

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 9)

No.	Name	Count	Type	Full Name
1	BOG	8	Ligand/Ion	B-OCTYLGLUCOSIDE
2	LAN	1	Ligand/Ion	LANOSTEROL

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:298	BINDING SITE FOR RESIDUE BOG A1732
2	AC2	SOFTWARE	LEU A:274 , ARG A:277 , ASN A:301 , LEU A:302 , HIS A:305 , HIS A:306 , HOH A:2958 , HOH A:2959	BINDING SITE FOR RESIDUE BOG A1733
3	AC3	SOFTWARE	TRP A:291 , LEU A:511	BINDING SITE FOR RESIDUE BOG A1734
4	AC4	SOFTWARE	PRO A:288 , HIS A:289 , SER A:290 , TRP A:291 , ARG A:294 , BOG A:1737 , HOH A:2960 , HOH A:2961	BINDING SITE FOR RESIDUE BOG A1735
5	AC5	SOFTWARE	HIS A:306	BINDING SITE FOR RESIDUE BOG A1736
6	AC6	SOFTWARE	TRP A:291 , BOG A:1735	BINDING SITE FOR RESIDUE BOG A1737
7	AC7	SOFTWARE	MET A:215 , LEU A:515 , HOH A:2421	BINDING SITE FOR RESIDUE BOG A1739
8	AC8	SOFTWARE	TYR A:98 , TRP A:192 , TRP A:230 , HIS A:232 , TRP A:387 , PHE A:444 , ASP A:455 , THR A:502 , TYR A:503 , TRP A:581 , PHE A:696 , ASN A:697 , TYR A:704 , HOH A:2603 , HOH A:2814	BINDING SITE FOR RESIDUE LAN A1740

(no "SS Bond" information available for 1W6K)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:12	-	Pro A:13
2	Val A:583	-	Cys A:584

Asymmetric/Biological Unit (7, 7)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_024648	R	175	Q	ERG7_HUMAN	Polymorphism	2839158	A	R	175	Q
2	UniProt	VAR_052057	H	310	R	ERG7_HUMAN	Polymorphism	34115287	A	H	310	R
3	UniProt	VAR_075664	W	581	R	ERG7_HUMAN	Disease (CTRCT44)	864622780	A	W	581	R
4	UniProt	VAR_075665	G	588	S	ERG7_HUMAN	Disease (CTRCT44)	561449819	A	G	588	S
5	UniProt	VAR_052058	R	614	W	ERG7_HUMAN	Polymorphism	35785446	A	R	614	W
6	UniProt	VAR_021522	L	642	V	ERG7_HUMAN	Polymorphism	2254524	A	V	642	V
7	UniProt	VAR_052059	P	688	L	ERG7_HUMAN	Polymorphism	17293705	A	P	688	L

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TERPENE_SYNTHASES	PS01074	Terpene synthases signature.	ERG7_HUMAN	574-588	1	A:574-588

Asymmetric/Biological Unit (21, 21)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1b	ENST00000397728	1b	ENSE00001894078	chr21:47648736-47648646	91	ERG7_HUMAN	1-5	5	0	-	-
1.1g	ENST00000397728	1g	ENSE00001051162	chr21:47648513-47648348	166	ERG7_HUMAN	5-60	56	1	A:6-60 (gaps)	55
1.2a	ENST00000397728	2a	ENSE00001051190	chr21:47647604-47647466	139	ERG7_HUMAN	61-107	47	1	A:61-107	47
1.3b	ENST00000397728	3b	ENSE00001051172	chr21:47642652-47642544	109	ERG7_HUMAN	107-143	37	1	A:107-143	37
1.4	ENST00000397728	4	ENSE00001051171	chr21:47641889-47641768	122	ERG7_HUMAN	143-184	42	1	A:143-184	42
1.5	ENST00000397728	5	ENSE00001051153	chr21:47639486-47639390	97	ERG7_HUMAN	184-216	33	1	A:184-216	33
1.6	ENST00000397728	6	ENSE00002168345	chr21:47636438-47636303	136	ERG7_HUMAN	216-261	46	1	A:216-261	46
1.7	ENST00000397728	7	ENSE00001051176	chr21:47635707-47635599	109	ERG7_HUMAN	262-298	37	1	A:262-298	37
1.8	ENST00000397728	8	ENSE00001051158	chr21:47635212-47635094	119	ERG7_HUMAN	298-337	40	1	A:298-337	40
1.9	ENST00000397728	9	ENSE00001051181	chr21:47633749-47633652	98	ERG7_HUMAN	338-370	33	1	A:338-370	33
1.10	ENST00000397728	10	ENSE00001296974	chr21:47632966-47632939	28	ERG7_HUMAN	370-379	10	1	A:370-379	10
1.11	ENST00000397728	11	ENSE00001051175	chr21:47630658-47630602	57	ERG7_HUMAN	380-398	19	1	A:380-398	19
1.12	ENST00000397728	12	ENSE00001051174	chr21:47629539-47629468	72	ERG7_HUMAN	399-422	24	1	A:399-422	24
1.13	ENST00000397728	13	ENSE00001051179	chr21:47628215-47628165	51	ERG7_HUMAN	423-439	17	1	A:423-439	17
1.14	ENST00000397728	14	ENSE00001285727	chr21:47627491-47627342	150	ERG7_HUMAN	440-489	50	1	A:440-489	50
1.15	ENST00000397728	15	ENSE00001051185	chr21:47626682-47626586	97	ERG7_HUMAN	490-522	33	1	A:490-522	33
1.16	ENST00000397728	16	ENSE00001051152	chr21:47625855-47625750	106	ERG7_HUMAN	522-557	36	1	A:522-557	36
1.17b	ENST00000397728	17b	ENSE00001051183	chr21:47616181-47616116	66	ERG7_HUMAN	557-579	23	1	A:557-579	23
1.18	ENST00000397728	18	ENSE00001051157	chr21:47615670-47615590	81	ERG7_HUMAN	579-606	28	1	A:579-606	28
1.19a	ENST00000397728	19a	ENSE00001051167	chr21:47614575-47614405	171	ERG7_HUMAN	606-663	58	1	A:606-663	58
1.20c	ENST00000397728	20c	ENSE00001051182	chr21:47611873-47611795	79	ERG7_HUMAN	663-689	27	1	A:663-689	27
1.21d	ENST00000397728	21d	ENSE00001891108	chr21:47611149-47609039	2111	ERG7_HUMAN	690-732	43	1	A:690-732	43

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
	(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:725
 aligned with ERG7_HUMAN | P48449 from UniProtKB/Swiss-Prot  Length:732

    Alignment length:727
                                    15        25        35        45        55        65        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       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       
           ERG7_HUMAN     6 CLRRRGGPYKTEPATDLGRWRLNCERGRQTWTYLQDERAGREQTGLEAYALGLDTKNYFKDLPKAHTAFEGALNGMTFYVGLQAEDGHWTGDYGGPLFLLPGLLITCHVARIPLPAGYREEIVRYLRSVQLPDGGWGLHIEDKSTVFGTALNYVSLRILGVGPDDPDLVRARNILHKKGGAVAIPSWGKFWLAVLNVYSWEGLNTLFPEMWLFPDWAPAHPSTLWCHCRQVYLPMSYCYAVRLSAAEDPLVQSLRQELYVEDFASIDWLAQRNNVAPDELYTPHSWLLRVVYALLNLYEHHHSAHLRQRAVQKLYEHIVADDRFTKSISIGPISKTINMLVRWYVDGPASTAFQEHVSRIPDYLWMGLDGMKMQGTNGSQIWDTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNPPDYQKYYRQMRKGGFSFSTLDCGWIVSDCTAEALKAVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATYETKRGGHLLELLNPSEVFGDIMIDYTYVECTSAVMQALKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWGVCFTYGTWFGLEAFACMGQTYRDGTACAEVSRACDFLLSRQMADGGWGEDFESCEERRYLQSAQSQIHNTCWAMMGLMAVRHPDIEAQERGVRCLLEKQLPNGDWPQENIAGVFNKSCAISYTSYRNIFPIWALGRFSQLYPERALAGHP 732
               SCOP domains d1w6ka1 A:6-99,A:379-732 Lanosterol   synthase                                                d1w6ka2 A:100-378 Lanosterol synthase                                                                                                                                                                                                                                                  d1w6ka1 A:6-99,A:379-732 Lanosterol synthase                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------1w6kA02 A:72-97,A:383-732 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------1w6kA02 A:72-97,A:383-732  [code=1.50.10.20, no name defined]                                                                                                                                                                                                                                                                                                  CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Prenyltrans-1w6kA01 A:610-658                    -------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Prenyltrans-1w6kA02 A:610-658                    -------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Prenyltrans-1w6kA03 A:610-658                    -------------------------------------------------------------------------- Pfam domains (3)
         Sec.struct. author ...............hhh.eeeeee..eeeeee...--.....hhhhhhhhh..............hhhhhhhhhhhhhhh................hhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhh...hhhhhhh......hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh.....hhhhh.hhhhh...hhhhh....hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.eeee..eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhh..................hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh................hhhhhhhh.............hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh...........hhhhhhh........hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh............eee...eee...hhhhhhhhhhhhhhhhhh..hhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------Q--------------------------------------------------------------------------------------------------------------------------------------R------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R------S-------------------------W---------------------------V---------------------------------------------L-------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TERPENE_SYNTHAS------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1g  PDB: A:6-60 (gaps) UniProt: 5-60            Exon 1.2a  PDB: A:61-107 UniProt: 61-107       -----------------------------------Exon 1.4  PDB: A:143-184 UniProt: 143-184 -------------------------------Exon 1.6  PDB: A:216-261 UniProt: 216-261     Exon 1.7  PDB: A:262-298             -----------------------------------------------------------------------Exon 1.10 Exon 1.11          Exon 1.12  PDB: A:399-42Exon 1.13        Exon 1.14  PDB: A:440-489 UniProt: 440-489        Exon 1.15  PDB: A:490-522        ----------------------------------Exon 1.17b             --------------------------Exon 1.19a  PDB: A:606-663 UniProt: 606-663               --------------------------Exon 1.21d  PDB: A:690-732 UniProt: 690-732 Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------------Exon 1.3b  PDB: A:107-143            ----------------------------------------Exon 1.5  PDB: A:184-216         ---------------------------------------------------------------------------------Exon 1.8  PDB: A:298-337                Exon 1.9  PDB: A:338-370         -------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.16  PDB: A:522-557           ---------------------Exon 1.18  PDB: A:579-606   --------------------------------------------------------Exon 1.20c  PDB: A:663-689 ------------------------------------------- Transcript 1 (2)
                 1w6k A   6 CLRRRGGPYKTEPATDLGRWRLNCERGRQTWTYLQD--AGREQTGLEAYALGLDTKNYFKDLPKAHTAFEGALNGMTFYVGLQAEDGHWTGDYGGPLFLLPGLLITCHVARIPLPAGYREEIVRYLRSVQLPDGGWGLHIEDKSTVFGTALNYVSLRILGVGPDDPDLVRARNILHKKGGAVAIPSWGKFWLAVLNVYSWEGLNTLFPEMWLFPDWAPAHPSTLWCHCRQVYLPMSYCYAVRLSAAEDPLVQSLRQELYVEDFASIDWLAQRNNVAPDELYTPHSWLLRVVYALLNLYEHHHSAHLRQRAVQKLYEHIVADDRFTKSISIGPISKTINMLVRWYVDGPASTAFQEHVSRIPDYLWMGLDGMKMQGTNGSQIWDTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNPPDYQKYYRQMRKGGFSFSTLDCGWIVSDCTAEALKAVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATYETKRGGHLLELLNPSEVFGDIMIDYTYVECTSAVMQALKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWGVCFTYGTWFGLEAFACMGQTYRDGTACAEVSRACDFLLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPDIEAQERGVRCLLEKQLPNGDWPQENIAGVFNKSCAISYTSYRNIFPIWALGRFSQLYPERALAGHP 732
                                    15        25        35     |  45        55        65        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       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       
                                                              41 44

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: All alpha proteins (14657)

Fold: alpha/alpha toroid (324)

Superfamily: Terpenoid cyclases/Protein prenyltransferases (151)

Family: Terpene synthases (18)

Protein domain: Lanosterol synthase (2)

Human (Homo sapiens) [TaxId: 9606] (2)

1a	d1w6ka1	A:6-99,A:379-732
1b	d1w6ka2	A:100-378

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Alpha/alpha barrel (251)

Topology: Glycosyltransferase (233)

Homologous Superfamily: [code=1.50.10.20, no name defined] (105)

Human (Homo sapiens) (23)

1w6kA02

A:72-97,A:383-732

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: 6_Hairpin (120)

Family: Prenyltrans (49)

Homo sapiens (Human) (7)

1a	Prenyltrans-1w6kA01	A:610-658
1b	Prenyltrans-1w6kA02	A:610-658
1c	Prenyltrans-1w6kA03	A:610-658

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (ERG7_HUMAN | P48449)

molecular function
	GO:0016866	intramolecular transferase activity	Catalysis of the transfer of a functional group from one position to another within a single molecule.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	GO:0000250	lanosterol synthase activity	Catalysis of the reaction: (S)-2,3-epoxysqualene = lanosterol. This is a cyclization reaction that forms the sterol nucleus.
biological process
	GO:0006695	cholesterol biosynthetic process	The chemical reactions and pathways resulting in the formation of cholesterol, cholest-5-en-3 beta-ol, the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
	GO:0006629	lipid metabolic process	The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
	GO:0031647	regulation of protein stability	Any process that affects the structure and integrity of a protein, altering the likelihood of its degradation or aggregation.
	GO:0006694	steroid biosynthetic process	The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification.
cellular component
	GO:0005783	endoplasmic reticulum	The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
	GO:0005789	endoplasmic reticulum membrane	The lipid bilayer surrounding the endoplasmic reticulum.
	GO:0005811	lipid droplet	An intracellular non-membrane-bounded organelle comprising a matrix of coalesced lipids surrounded by a phospholipid monolayer. May include associated proteins.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Gly A:12 - Pro A:13	[ RasMol ]
		Val A:583 - Cys A:584	[ RasMol ]

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	1w6k
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	5.4.99.7
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	ERG7_HUMAN \| P48449	:	1w6j

1w6j	STRUCTURE OF HUMAN OSC IN COMPLEX WITH RO 48-8071

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 9)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (7, 7)

PROSITE Motifs (1, 1)

Exons (21, 21)

Sequences/Alignments

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SCOP Domains (1, 2)

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Pfam Domains (1, 3)

Gene Ontology (11, 11)

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Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File