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.
PLEASE WAIT...
Getting 'Exon' information from database.
3NT1
Asym. Unit
Info
Asym.Unit (400 KB)
Biol.Unit 1 (392 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
HIGH RESOLUTION STRUCTURE OF NAPROXEN:COX-2 COMPLEX.
Authors
:
K. C. Duggan, J. Musee, M. J. Walters, J. M. Harp, J. R. Kiefer, J. A. Oates L. J. Marnett
Date
:
02 Jul 10 (Deposition) - 01 Sep 10 (Release) - 17 Nov 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.73
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Prostaglandin H2 Synthase, Cyclooxygenase-2, Naproxen, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. C. Duggan, M. J. Walters, J. Musee, J. M. Harp, J. R. Kiefer, J. A. Oates, L. J. Marnett
Molecular Basis For Cyclooxygenase Inhibition By The Non-Steroidal Anti-Inflammatory Drug Naproxen.
J. Biol. Chem. V. 285 34950 2010
[
close entry info
]
Hetero Components
(5, 18)
Info
All Hetero Components
1a: B-OCTYLGLUCOSIDE (BOGa)
1b: B-OCTYLGLUCOSIDE (BOGb)
1c: B-OCTYLGLUCOSIDE (BOGc)
1d: B-OCTYLGLUCOSIDE (BOGd)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
3a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
3b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
5a: (2S)-2-(6-METHOXYNAPHTHALEN-2-YL)P... (NPSa)
5b: (2S)-2-(6-METHOXYNAPHTHALEN-2-YL)P... (NPSb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BOG
4
Ligand/Ion
B-OCTYLGLUCOSIDE
2
CL
2
Ligand/Ion
CHLORIDE ION
3
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
4
NAG
8
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
NPS
2
Ligand/Ion
(2S)-2-(6-METHOXYNAPHTHALEN-2-YL)PROPANOIC ACID
[
close Hetero Component info
]
Sites
(18, 18)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:38 , TYR A:55 , GLU A:67 , ASN A:68 , HOH A:624
BINDING SITE FOR RESIDUE NAG A 661
02
AC2
SOFTWARE
GLU A:140 , ASN A:144 , TYR A:147 , ARG A:216 , HOH A:659 , NAG A:672 , HOH A:830 , HOH A:841 , HOH A:842
BINDING SITE FOR RESIDUE NAG A 671
03
AC3
SOFTWARE
ARG A:216 , NAG A:671
BINDING SITE FOR RESIDUE NAG A 672
04
AC4
SOFTWARE
GLN A:406 , ASN A:410 , SER A:412 , ILE A:413 , HOH A:931 , HOH A:971
BINDING SITE FOR RESIDUE NAG A 681
05
AC5
SOFTWARE
LYS A:180 , ARG A:184 , ARG A:185 , ARG A:438 , GLU A:486 , GLU A:490 , HOH A:933 , GLU B:179 , ILE B:442 , GLN B:445
BINDING SITE FOR RESIDUE BOG A 3
06
AC6
SOFTWARE
ARG A:120 , VAL A:349 , LEU A:352 , TYR A:355 , TYR A:385 , TRP A:387 , ALA A:527 , LEU A:531
BINDING SITE FOR RESIDUE NPS A 5
07
AC7
SOFTWARE
TYR A:148 , ALA A:199 , PHE A:200 , GLN A:203 , HIS A:207 , PHE A:210 , LYS A:211 , THR A:212 , HIS A:214 , ASN A:382 , TYR A:385 , HIS A:386 , HIS A:388 , LEU A:391 , VAL A:447 , HOH A:943
BINDING SITE FOR RESIDUE HEM A 619
08
AC8
SOFTWARE
LYS A:83 , PRO A:84 , PRO A:86 , ILE A:92 , SER A:119 , ARG A:120 , HOH A:847 , HOH A:907 , HOH A:908 , HOH A:1060
BINDING SITE FOR RESIDUE BOG A 6
09
AC9
SOFTWARE
ASN A:87 , HOH A:627 , HOH A:843
BINDING SITE FOR RESIDUE BOG A 620
10
BC1
SOFTWARE
PHE A:205 , TYR A:385 , SER A:530
BINDING SITE FOR RESIDUE CL A 1
11
BC2
SOFTWARE
GLU B:140 , ASN B:144 , TYR B:147 , ARG B:216 , NAG B:672 , HOH B:677 , HOH B:829
BINDING SITE FOR RESIDUE NAG B 671
12
BC3
SOFTWARE
ARG B:216 , NAG B:671
BINDING SITE FOR RESIDUE NAG B 672
13
BC4
SOFTWARE
GLN B:406 , ASN B:410 , SER B:412 , ILE B:413
BINDING SITE FOR RESIDUE NAG B 681
14
BC5
SOFTWARE
ARG B:120 , VAL B:349 , LEU B:352 , TYR B:355 , TYR B:385 , TRP B:387 , ALA B:527
BINDING SITE FOR RESIDUE NPS B 4
15
BC6
SOFTWARE
LYS B:83 , PRO B:84 , PRO B:86 , VAL B:89 , TYR B:115 , SER B:119 , ARG B:120 , HOH B:953 , HOH B:955 , HOH B:957 , HOH B:1068 , HOH B:1104
BINDING SITE FOR RESIDUE BOG B 3
16
BC7
SOFTWARE
ALA B:199 , PHE B:200 , GLN B:203 , HIS B:207 , PHE B:210 , LYS B:211 , THR B:212 , HIS B:214 , ASN B:382 , TYR B:385 , HIS B:386 , HIS B:388 , LEU B:391 , VAL B:447 , HOH B:984 , HOH B:1002
BINDING SITE FOR RESIDUE HEM B 619
17
BC8
SOFTWARE
TYR B:55 , GLU B:67 , ASN B:68 , HOH B:1006 , HOH B:1035
BINDING SITE FOR RESIDUE NAG B 9
18
BC9
SOFTWARE
PHE B:205 , TYR B:385 , SER B:530
BINDING SITE FOR RESIDUE CL B 1
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PEROXIDASE_3 (A:110-583,B:110-583)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PEROXIDASE_3
PS50292
Animal heme peroxidase superfamily profile.
PGH2_MOUSE
96-598
2
A:110-583
B:110-583
[
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.
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 A
Chain B
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 (400 KB)
Header - Asym.Unit
Biol.Unit 1 (392 KB)
Header - Biol.Unit 1
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
3NT1
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help