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1PXX
Biol. Unit 1
Info
Asym.Unit (389 KB)
Biol.Unit 1 (192 KB)
Biol.Unit 2 (193 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF DICLOFENAC BOUND TO THE CYCLOOXYGENASE ACTIVE SITE OF COX-2
Authors
:
J. R. Kiefer, S. W. Rowlinson, J. J. Prusakiewicz, J. L. Pawlitz, K. R. Ko A. S. Kalgutkar, W. C. Stallings, L. J. Marnett, R. G. Kurumbail
Date
:
07 Jul 03 (Deposition) - 09 Sep 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Cox-2, Cyclooxygenase, Prostaglandin, Diclofenac, Endoperoxide, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. W. Rowlinson, J. R. Kiefer, J. J. Prusakiewicz, J. L. Pawlitz, K. R. Kozak, A. S. Kalgutkar, W. C. Stallings, R. G. Kurumbail, L. J. Marnett
A Novel Mechanism Of Cyclooxygenase-2 Inhibition Involving Interactions With Ser-530 And Tyr-385.
J. Biol. Chem. V. 278 45763 2003
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 15)
Info
All Hetero Components
1a: B-OCTYLGLUCOSIDE (BOGa)
1b: B-OCTYLGLUCOSIDE (BOGb)
2a: 2-[2,6-DICHLOROPHENYL)AMINO]BENZEN... (DIFa)
2b: 2-[2,6-DICHLOROPHENYL)AMINO]BENZEN... (DIFb)
2c: 2-[2,6-DICHLOROPHENYL)AMINO]BENZEN... (DIFc)
2d: 2-[2,6-DICHLOROPHENYL)AMINO]BENZEN... (DIFd)
3a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
3b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
3d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
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)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
4n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4o: N-ACETYL-D-GLUCOSAMINE (NAGo)
4p: N-ACETYL-D-GLUCOSAMINE (NAGp)
4q: N-ACETYL-D-GLUCOSAMINE (NAGq)
4r: N-ACETYL-D-GLUCOSAMINE (NAGr)
4s: N-ACETYL-D-GLUCOSAMINE (NAGs)
4t: N-ACETYL-D-GLUCOSAMINE (NAGt)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BOG
1
Ligand/Ion
B-OCTYLGLUCOSIDE
2
DIF
2
Ligand/Ion
2-[2,6-DICHLOROPHENYL)AMINO]BENZENEACETIC ACID
3
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
4
NAG
10
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(15, 15)
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: CC3 (SOFTWARE)
12: CC5 (SOFTWARE)
13: CC6 (SOFTWARE)
14: CC9 (SOFTWARE)
15: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:38 , PRO A:40 , TYR A:55 , GLU A:67 , ASN A:68
BINDING SITE FOR RESIDUE NAG A 661
02
AC2
SOFTWARE
GLU A:140 , ASN A:144 , TYR A:147 , ARG A:216 , NAG A:672 , HOH A:5048
BINDING SITE FOR RESIDUE NAG A 671
03
AC3
SOFTWARE
ARG A:216 , NAG A:671 , NAG A:673 , ASP B:1239
BINDING SITE FOR RESIDUE NAG A 672
04
AC4
SOFTWARE
NAG A:672
BINDING SITE FOR RESIDUE NAG A 673
05
AC5
SOFTWARE
GLN A:406 , ASN A:410 , ILE A:413
BINDING SITE FOR RESIDUE NAG A 681
06
AC6
SOFTWARE
SER B:1038 , PRO B:1040 , TYR B:1055 , GLU B:1067 , ASN B:1068 , HOH B:5128
BINDING SITE FOR RESIDUE NAG B 1661
07
AC7
SOFTWARE
ASN B:1144 , TYR B:1147 , ARG B:1216 , PHE B:1220 , NAG B:1672
BINDING SITE FOR RESIDUE NAG B 1671
08
AC8
SOFTWARE
ARG B:1216 , NAG B:1671 , NAG B:1673 , HOH B:5102 , HOH B:5168
BINDING SITE FOR RESIDUE NAG B 1672
09
AC9
SOFTWARE
NAG B:1672 , HOH B:5279
BINDING SITE FOR RESIDUE NAG B 1673
10
BC1
SOFTWARE
GLN B:1406 , ASN B:1410 , ILE B:1413
BINDING SITE FOR RESIDUE NAG B 1681
11
CC3
SOFTWARE
GLU A:179 , LEU A:183 , ARG A:185 , ILE A:442 , GLN A:445 , LEU B:1183 , ARG B:1184 , ARG B:1185 , ARG B:1438 , ILE B:1442 , GLU B:1486 , GLU B:1490
BINDING SITE FOR RESIDUE BOG A 703
12
CC5
SOFTWARE
ALA A:199 , PHE A:200 , GLN A:203 , HIS A:207 , PHE A:210 , LYS A:211 , THR A:212 , VAL A:295 , ASN A:382 , TYR A:385 , HIS A:386 , TRP A:387 , HIS A:388 , LEU A:391 , VAL A:447 , GLN A:454
BINDING SITE FOR RESIDUE HEM A 704
13
CC6
SOFTWARE
TYR B:1148 , ALA B:1199 , PHE B:1200 , ALA B:1202 , GLN B:1203 , HIS B:1207 , PHE B:1210 , THR B:1212 , VAL B:1295 , ASN B:1382 , TYR B:1385 , HIS B:1386 , TRP B:1387 , HIS B:1388 , LEU B:1391 , VAL B:1447 , GLN B:1454
BINDING SITE FOR RESIDUE HEM B 1601
14
CC9
SOFTWARE
TYR A:348 , VAL A:349 , LEU A:352 , TYR A:385 , TRP A:387 , MET A:522 , GLY A:526 , ALA A:527 , SER A:530 , HOH A:5210
BINDING SITE FOR RESIDUE DIF A 701
15
DC1
SOFTWARE
TYR B:1348 , VAL B:1349 , LEU B:1352 , TYR B:1385 , TRP B:1387 , MET B:1522 , GLY B:1526 , ALA B:1527 , SER B:1530
BINDING SITE FOR RESIDUE DIF B 1701
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PEROXIDASE_3 (A:110-583,B:1110-1583)
;
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:1110-1583
-
-
[
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Exons
(0, 0)
Info
All Exons
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1pxxa1 (A:74-583)
1b: SCOP_d1pxxb1 (B:1074-1583)
1c: SCOP_d1pxxc1 (C:2074-2583)
1d: SCOP_d1pxxd1 (D:3074-3583)
2a: SCOP_d1pxxa2 (A:33-73)
2b: SCOP_d1pxxb2 (B:1033-1073)
2c: SCOP_d1pxxc2 (C:2033-2073)
2d: SCOP_d1pxxd2 (D:3033-3073)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Heme-dependent peroxidases
(402)
Superfamily
:
Heme-dependent peroxidases
(402)
Family
:
Myeloperoxidase-like
(44)
Protein domain
:
Prostaglandin H2 synthase
(34)
Mouse (Mus musculus) [TaxId: 10090]
(11)
1a
d1pxxa1
A:74-583
1b
d1pxxb1
B:1074-1583
1c
d1pxxc1
C:2074-2583
1d
d1pxxd1
D:3074-3583
Class
:
Small proteins
(3458)
Fold
:
Knottins (small inhibitors, toxins, lectins)
(761)
Superfamily
:
EGF/Laminin
(347)
Family
:
EGF-type module
(304)
Protein domain
:
Prostaglandin H2 synthase-1, EGF-like module
(34)
Mouse (Mus musculus) [TaxId: 10090]
(11)
2a
d1pxxa2
A:33-73
2b
d1pxxb2
B:1033-1073
2c
d1pxxc2
C:2033-2073
2d
d1pxxd2
D:3033-3073
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1pxxA02 (A:74-583)
1b: CATH_1pxxB02 (B:1074-1583)
1c: CATH_1pxxC02 (C:2074-2583)
1d: CATH_1pxxD02 (D:3074-3583)
2a: CATH_1pxxA01 (A:35-73)
2b: CATH_1pxxC01 (C:2033-2073)
2c: CATH_1pxxD01 (D:3033-3073)
2d: CATH_1pxxB01 (B:1033-1073)
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)
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)
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)
(
)
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(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Myeloperoxidase, subunit C
(39)
Homologous Superfamily
:
Myeloperoxidase, subunit C
(39)
House mouse (Mus musculus)
(8)
1a
1pxxA02
A:74-583
1b
1pxxB02
B:1074-1583
1c
1pxxC02
C:2074-2583
1d
1pxxD02
D:3074-3583
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
House mouse (Mus musculus)
(18)
2a
1pxxA01
A:35-73
2b
1pxxC01
C:2033-2073
2c
1pxxD01
D:3033-3073
2d
1pxxB01
B:1033-1073
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_An_peroxidase_1pxxD01 (D:3218-3582)
1b: PFAM_An_peroxidase_1pxxD02 (D:3218-3582)
1c: PFAM_An_peroxidase_1pxxD03 (D:3218-3582)
1d: PFAM_An_peroxidase_1pxxD04 (D:3218-3582)
1e: PFAM_An_peroxidase_1pxxD05 (D:3218-3582)
1f: PFAM_An_peroxidase_1pxxD06 (D:3218-3582)
1g: PFAM_An_peroxidase_1pxxD07 (D:3218-3582)
1h: PFAM_An_peroxidase_1pxxD08 (D:3218-3582)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: An_peroxidase]
(45)
Family
:
An_peroxidase
(45)
Mus musculus (Mouse)
(11)
1a
An_peroxidase-1pxxD01
D:3218-3582
1b
An_peroxidase-1pxxD02
D:3218-3582
1c
An_peroxidase-1pxxD03
D:3218-3582
1d
An_peroxidase-1pxxD04
D:3218-3582
1e
An_peroxidase-1pxxD05
D:3218-3582
1f
An_peroxidase-1pxxD06
D:3218-3582
1g
An_peroxidase-1pxxD07
D:3218-3582
1h
An_peroxidase-1pxxD08
D:3218-3582
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]
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Asym.Unit (389 KB)
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