PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
3FG1
Biol. Unit 3
Info
Asym.Unit (516 KB)
Biol.Unit 1 (136 KB)
Biol.Unit 2 (131 KB)
Biol.Unit 3 (135 KB)
Biol.Unit 4 (130 KB)
Biol.Unit 5 (504 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF DELTA413-417:GS LOX
Authors
:
D. B. Neau, M. E. Newcomer
Date
:
04 Dec 08 (Deposition) - 18 Aug 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: A,B,C,D (1x)
Keywords
:
Lipoxygenase, Arichidonic Metabolism, Dioxygenase, Fatty Acid Biosynthesis, Heme, Iron, Lipid Synthesis, Lyase, Membrane, Metal- Binding, Multifunctional Enzyme, Oxidoreductase, Oxylipin Biosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. B. Neau, N. C. Gilbert, S. G. Bartlett, W. Boeglin, A. R. Brash, M. E. Newcomer
The 1. 85 A Structure Of An 8R-Lipoxygenase Suggests A General Model For Lipoxygenase Product Specificity.
Biochemistry V. 48 7906 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 13)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
1e: ACETIC ACID (ACYe)
1f: ACETIC ACID (ACYf)
1g: ACETIC ACID (ACYg)
1h: ACETIC ACID (ACYh)
1i: ACETIC ACID (ACYi)
1j: ACETIC ACID (ACYj)
1k: ACETIC ACID (ACYk)
1l: ACETIC ACID (ACYl)
1m: ACETIC ACID (ACYm)
1n: ACETIC ACID (ACYn)
1o: ACETIC ACID (ACYo)
1p: ACETIC ACID (ACYp)
1q: ACETIC ACID (ACYq)
1r: ACETIC ACID (ACYr)
1s: ACETIC ACID (ACYs)
1t: ACETIC ACID (ACYt)
1u: ACETIC ACID (ACYu)
1v: ACETIC ACID (ACYv)
1w: ACETIC ACID (ACYw)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
2h: CALCIUM ION (CAh)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
3c: CHLORIDE ION (CLc)
3d: CHLORIDE ION (CLd)
3e: CHLORIDE ION (CLe)
3f: CHLORIDE ION (CLf)
4a: FE (II) ION (FE2a)
4b: FE (II) ION (FE2b)
4c: FE (II) ION (FE2c)
4d: FE (II) ION (FE2d)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
5e: GLYCEROL (GOLe)
5f: GLYCEROL (GOLf)
5g: GLYCEROL (GOLg)
5h: GLYCEROL (GOLh)
5i: GLYCEROL (GOLi)
5j: GLYCEROL (GOLj)
5k: GLYCEROL (GOLk)
5l: GLYCEROL (GOLl)
5m: GLYCEROL (GOLm)
5n: GLYCEROL (GOLn)
5o: GLYCEROL (GOLo)
5p: GLYCEROL (GOLp)
5q: GLYCEROL (GOLq)
5r: GLYCEROL (GOLr)
5s: GLYCEROL (GOLs)
5t: GLYCEROL (GOLt)
5u: GLYCEROL (GOLu)
5v: GLYCEROL (GOLv)
5w: GLYCEROL (GOLw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
6
Ligand/Ion
ACETIC ACID
2
CA
-1
Ligand/Ion
CALCIUM ION
3
CL
-1
Ligand/Ion
CHLORIDE ION
4
FE2
1
Ligand/Ion
FE (II) ION
5
GOL
6
Ligand/Ion
GLYCEROL
[
close Hetero Component info
]
Sites
(19, 19)
Info
All Sites
01: DC6 (SOFTWARE)
02: DC9 (SOFTWARE)
03: EC1 (SOFTWARE)
04: EC2 (SOFTWARE)
05: EC3 (SOFTWARE)
06: EC4 (SOFTWARE)
07: EC5 (SOFTWARE)
08: EC6 (SOFTWARE)
09: EC7 (SOFTWARE)
10: EC8 (SOFTWARE)
11: EC9 (SOFTWARE)
12: FC1 (SOFTWARE)
13: FC2 (SOFTWARE)
14: FC3 (SOFTWARE)
15: FC4 (SOFTWARE)
16: FC5 (SOFTWARE)
17: FC6 (SOFTWARE)
18: FC7 (SOFTWARE)
19: FC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
DC6
SOFTWARE
GLU B:572 , ASN B:573 , TRP B:574 , ASP B:575 , ASP B:579 , HOH B:1699 , HOH B:1853 , HOH B:2048 , ARG C:585
BINDING SITE FOR RESIDUE GOL B 2307
02
DC9
SOFTWARE
HOH C:260 , HIS C:757 , HIS C:762 , HIS C:943 , ASN C:947 , ILE C:1066
BINDING SITE FOR RESIDUE FE2 C 1500
03
EC1
SOFTWARE
HIS C:387 , GLY C:389 , ASP C:452 , ASP C:454 , HOH C:1228
BINDING SITE FOR RESIDUE CA C 1501
04
EC2
SOFTWARE
HOH C:114 , HOH C:142 , GLU C:424 , HOH C:1108 , HOH D:226 , ASN D:1028 , HOH D:1121
BINDING SITE FOR RESIDUE CA C 1502
05
EC3
SOFTWARE
PHE C:605 , GLN C:608 , PHE C:609 , GLU C:748 , HIS C:953 , ASN C:959
BINDING SITE FOR RESIDUE ACY C 2201
06
EC4
SOFTWARE
HIS C:534 , SER C:548 , GLN C:552
BINDING SITE FOR RESIDUE ACY C 2202
07
EC5
SOFTWARE
PHE C:1003 , TYR C:1009 , GLU C:1058
BINDING SITE FOR RESIDUE ACY C 2203
08
EC6
SOFTWARE
LEU C:562 , GLY C:565 , SER C:566 , THR C:569 , ALA C:991 , HOH C:2008
BINDING SITE FOR RESIDUE ACY C 2204
09
EC7
SOFTWARE
HOH C:154 , GLN C:753 , SER C:814 , TYR C:954 , ALA C:962 , ALA C:993 , VAL C:997
BINDING SITE FOR RESIDUE ACY C 2205
10
EC8
SOFTWARE
ASP C:578 , HIS C:581 , ALA C:596 , TRP C:599 , HIS C:600 , HOH C:2252
BINDING SITE FOR RESIDUE ACY C 2207
11
EC9
SOFTWARE
ASP C:1032 , GLU C:1035 , HOH C:1146 , HOH C:2551 , ALA D:392 , ASP D:411 , LYS D:412 , GLY D:413 , HOH D:1110
BINDING SITE FOR RESIDUE GOL C 2301
12
FC1
SOFTWARE
ASN C:573 , ASP C:575 , SER C:576 , ASP C:579 , HOH C:2130 , HOH C:2554 , HOH C:2555
BINDING SITE FOR RESIDUE GOL C 2302
13
FC2
SOFTWARE
ASN C:636 , LEU C:639 , ASP C:640 , ARG C:641 , GLY C:642 , LYS C:643 , ASN C:644
BINDING SITE FOR RESIDUE GOL C 2303
14
FC3
SOFTWARE
GLY C:876 , ILE C:879 , ALA C:880 , GLU C:926 , LYS C:929 , HOH C:1127 , HOH C:2519
BINDING SITE FOR RESIDUE GOL C 2304
15
FC4
SOFTWARE
ALA C:392 , ASP C:411 , LYS C:412 , GLY C:413 , HOH C:1139 , HOH C:1213 , HOH C:1287 , HOH C:1901 , ASP D:1032 , GLU D:1035
BINDING SITE FOR RESIDUE GOL C 2305
16
FC5
SOFTWARE
LYS B:890 , GLN B:896 , SER B:921 , PHE B:922 , GLU B:923 , LEU C:624 , SER C:626 , HOH C:1107 , HOH C:1149
BINDING SITE FOR RESIDUE GOL C 2307
17
FC6
SOFTWARE
ALA C:490 , TRP C:1018 , GLU C:1019 , ASP C:1020
BINDING SITE FOR RESIDUE CL C 2401
18
FC7
SOFTWARE
THR C:405 , ASP C:406 , PHE C:431
BINDING SITE FOR RESIDUE CL C 2402
19
FC8
SOFTWARE
HOH C:357 , ASN C:1028 , HOH D:181 , HOH D:255 , GLU D:424 , HOH D:1085 , HOH D:1122
BINDING SITE FOR RESIDUE CA C 1067
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 4)
Info
All PROSITE Patterns/Profiles
1: PLAT (C:374-493)
2: LIPOXYGENASE_3 (C:491-1066)
3: LIPOXYGENASE_1 (C:752-766)
4: LIPOXYGENASE_2 (C:779-789)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PLAT
PS50095
PLAT domain profile.
AOSL_PLEHO
374-493
1
-
-
C:374-493
-
2
LIPOXYGENASE_3
PS51393
Lipoxygenase iron-binding catalytic domain profile.
AOSL_PLEHO
491-1066
1
-
-
C:491-1066
-
3
LIPOXYGENASE_1
PS00711
Lipoxygenases iron-binding region signature 1.
AOSL_PLEHO
752-766
1
-
-
C:752-766
-
4
LIPOXYGENASE_2
PS00081
Lipoxygenases iron-binding region signature 2.
AOSL_PLEHO
779-789
1
-
-
C:779-789
-
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain C
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (516 KB)
Header - Asym.Unit
Biol.Unit 1 (136 KB)
Header - Biol.Unit 1
Biol.Unit 2 (131 KB)
Header - Biol.Unit 2
Biol.Unit 3 (135 KB)
Header - Biol.Unit 3
Biol.Unit 4 (130 KB)
Header - Biol.Unit 4
Biol.Unit 5 (504 KB)
Header - Biol.Unit 5
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3FG1
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
