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3LEE
Asym. Unit
Info
Asym.Unit (670 KB)
Biol.Unit 1 (114 KB)
Biol.Unit 2 (115 KB)
Biol.Unit 3 (115 KB)
Biol.Unit 4 (114 KB)
Biol.Unit 5 (115 KB)
Biol.Unit 6 (95 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HUMAN SQUALENE SYNTHASE COMPLEXED WITH BPH-652
Authors
:
Y. -L. Liu, F. -Y. Lin, E. Oldfield
Date
:
14 Jan 10 (Deposition) - 08 Dec 10 (Release) - 08 Dec 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Keywords
:
Transferase, Isoprenoid Synthase Fold, Cholesterol Biosynthesis, Endoplasmic Reticulum, Isoprene Biosynthesis, Lipid Synthesis, Magnesium, Membrane, Multifunctional Enzyme, Nadp, Oxidoreductase, Steroid Biosynthesis, Sterol Biosynthesis, Transmembrane
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. -Y. Lin, C. -I. Liu, Y. -L. Liu, Y. Zhang, K. Wang, R. Cao, A. H. J. Wang, E. Oldfield
Mechanism Of Action (And Inhibition) Of Head-To-Head Terpen Synthases: A Structural Investigation
To Be Published
[
close entry info
]
Hetero Components
(2, 12)
Info
All Hetero Components
1a: (1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHO... (B65a)
1b: (1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHO... (B65b)
1c: (1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHO... (B65c)
1d: (1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHO... (B65d)
1e: (1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHO... (B65e)
1f: (1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHO... (B65f)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
B65
6
Ligand/Ion
(1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHONOBUTANE-1-SULFONICACID
2
MG
6
Ligand/Ion
MAGNESIUM ION
[
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]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HOH A:1 , TYR A:73 , ARG A:77 , ASP A:80 , GLU A:83 , ASP A:84 , VAL A:175 , VAL A:179 , GLN A:212 , MG A:452
BINDING SITE FOR RESIDUE B65 A 451
02
AC2
SOFTWARE
ASP A:80 , GLU A:83 , ASP A:84 , B65 A:451
BINDING SITE FOR RESIDUE MG A 452
03
AC3
SOFTWARE
HOH B:5 , PHE B:54 , TYR B:73 , ARG B:77 , ASP B:80 , ASP B:84 , VAL B:175 , VAL B:179 , MG B:452
BINDING SITE FOR RESIDUE B65 B 451
04
AC4
SOFTWARE
ASP B:80 , GLU B:83 , ASP B:84 , B65 B:451
BINDING SITE FOR RESIDUE MG B 452
05
AC5
SOFTWARE
PHE C:54 , TYR C:73 , ARG C:77 , ASP C:80 , ASP C:84 , VAL C:175 , HOH C:380 , MG C:452
BINDING SITE FOR RESIDUE B65 C 451
06
AC6
SOFTWARE
ASP C:80 , GLU C:83 , ASP C:84 , B65 C:451
BINDING SITE FOR RESIDUE MG C 452
07
AC7
SOFTWARE
TYR D:73 , LEU D:76 , ARG D:77 , ASP D:80 , GLU D:83 , ASP D:84 , VAL D:175 , VAL D:179 , MG D:452
BINDING SITE FOR RESIDUE B65 D 451
08
AC8
SOFTWARE
ASP D:80 , ASP D:84 , HOH D:395 , B65 D:451
BINDING SITE FOR RESIDUE MG D 452
09
AC9
SOFTWARE
PHE E:54 , TYR E:73 , ASP E:80 , GLU E:83 , ASP E:84 , VAL E:175 , VAL E:179 , GLN E:212 , ARG E:228 , HOH E:372 , MG E:452
BINDING SITE FOR RESIDUE B65 E 451
10
BC1
SOFTWARE
GLU E:83 , TYR E:171 , VAL E:175 , B65 E:451
BINDING SITE FOR RESIDUE MG E 452
11
BC2
SOFTWARE
PHE F:54 , LEU F:76 , ARG F:77 , ASP F:80 , VAL F:179 , GLN F:212 , HOH F:377 , MG F:452
BINDING SITE FOR RESIDUE B65 F 451
12
BC3
SOFTWARE
ASP F:80 , GLU F:83 , ASP F:84 , B65 F:451
BINDING SITE FOR RESIDUE MG F 452
[
close Site info
]
SAPs(SNPs)/Variants
(1, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_011786 (K45R, chain A/B/C/D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_011786
K
45
R
FDFT_HUMAN
Polymorphism
11549147
A/B/C/D/E/F
K
45
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: SQUALEN_PHYTOEN_SYN_1 (A:171-186,B:171-186,C:171-186,D:17...)
2: SQUALEN_PHYTOEN_SYN_2 (A:207-232,B:207-232,C:207-232,D:20...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SQUALEN_PHYTOEN_SYN_1
PS01044
Squalene and phytoene synthases signature 1.
FDFT_HUMAN
171-186
6
A:171-186
B:171-186
C:171-186
D:171-186
E:171-186
F:171-186
2
SQUALEN_PHYTOEN_SYN_2
PS01045
Squalene and phytoene synthases signature 2.
FDFT_HUMAN
207-232
6
A:207-232
B:207-232
C:207-232
D:207-232
E:207-232
F:207-216
[
close PROSITE info
]
Exons
(7, 42)
Info
All Exons
Exon 1.5e (A:37-66 | B:37-66 | C:37-66 | D:37...)
Exon 1.6c (A:66-127 | B:66-127 | C:66-127 | D...)
Exon 1.7b (A:128-170 | B:128-170 | C:128-170 ...)
Exon 1.8c (A:171-234 | B:171-234 | C:171-234 ...)
Exon 1.9b (A:235-293 | B:235-293 | C:235-293 ...)
Exon 1.10d (A:294-344 (gaps) | B:294-344 (gaps...)
Exon 1.11j (A:345-370 | B:345-370 | C:345-370 ...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2a/1.5e
2: Boundary 1.5e/1.6c
3: Boundary 1.6c/1.7b
4: Boundary 1.7b/1.8c
5: Boundary 1.8c/1.9b
6: Boundary 1.9b/1.10d
7: Boundary 1.10d/1.11j
8: Boundary 1.11j/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.2a
ENST00000220584
2a
ENSE00002161242
chr8:
11660120-11660440
321
FDFT_HUMAN
1-33
33
0
-
-
1.5e
ENST00000220584
5e
ENSE00001087004
chr8:
11666303-11666400
98
FDFT_HUMAN
34-66
33
6
A:37-66
B:37-66
C:37-66
D:37-66
E:37-66
F:38-66
30
30
30
30
30
29
1.6c
ENST00000220584
6c
ENSE00001087006
chr8:
11667176-11667359
184
FDFT_HUMAN
66-127
62
6
A:66-127
B:66-127
C:66-127
D:66-127
E:66-127
F:66-127
62
62
62
62
62
62
1.7b
ENST00000220584
7b
ENSE00001087005
chr8:
11679259-11679387
129
FDFT_HUMAN
128-170
43
6
A:128-170
B:128-170
C:128-170
D:128-170
E:128-170
F:128-170
43
43
43
43
43
43
1.8c
ENST00000220584
8c
ENSE00001087009
chr8:
11683533-11683724
192
FDFT_HUMAN
171-234
64
6
A:171-234
B:171-234
C:171-234
D:171-234
E:171-234
F:171-216
64
64
64
64
64
46
1.9b
ENST00000220584
9b
ENSE00001087008
chr8:
11687753-11687929
177
FDFT_HUMAN
235-293
59
6
A:235-293
B:235-293
C:235-293
D:235-293
E:235-293
F:265-293
59
59
59
59
59
29
1.10d
ENST00000220584
10d
ENSE00001087003
chr8:
11689027-11689179
153
FDFT_HUMAN
294-344
51
6
A:294-344 (gaps)
B:294-344 (gaps)
C:294-344 (gaps)
D:294-344 (gaps)
E:294-344 (gaps)
F:294-344 (gaps)
51
51
51
51
51
51
1.11j
ENST00000220584
11j
ENSE00001323254
chr8:
11695897-11696818
922
FDFT_HUMAN
345-417
73
6
A:345-370
B:345-370
C:345-370
D:345-369
E:345-369
F:345-370
26
26
26
25
25
26
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_SQS_PSY_3leeF01 (F:47-303)
1b: PFAM_SQS_PSY_3leeF02 (F:47-303)
1c: PFAM_SQS_PSY_3leeF03 (F:47-303)
1d: PFAM_SQS_PSY_3leeF04 (F:47-303)
1e: PFAM_SQS_PSY_3leeF05 (F:47-303)
1f: PFAM_SQS_PSY_3leeF06 (F:47-303)
View:
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Clans
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(
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Organisms
(
)
(
)
Clan
:
no clan defined [family: SQS_PSY]
(7)
Family
:
SQS_PSY
(7)
Homo sapiens (Human)
(1)
1a
SQS_PSY-3leeF01
F:47-303
1b
SQS_PSY-3leeF02
F:47-303
1c
SQS_PSY-3leeF03
F:47-303
1d
SQS_PSY-3leeF04
F:47-303
1e
SQS_PSY-3leeF05
F:47-303
1f
SQS_PSY-3leeF06
F:47-303
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