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1DDX
Biol. Unit 1
Info
Asym.Unit (380 KB)
Biol.Unit 1 (189 KB)
Biol.Unit 2 (189 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A MIXTURE OF ARACHIDONIC ACID AND PROSTAGLANDIN BOUND TO THE CYCLOOXYGENASE ACTIVE SITE OF COX-2: PROSTAGLANDIN STRUCTURE
Authors
:
J. R. Kiefer, J. L. Pawlitz, K. T. Moreland, R. A. Stegeman, J. K. Gierse, A. M. Stevens, D. C. Goodwin, S. W. Rowlinson, L. J. Marnett, W. C. Stall R. G. Kurumbail
Date
:
11 Nov 99 (Deposition) - 16 May 00 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Cox-2, Cyclooxygenase, Prostaglandin, Arachidonate, Endoperoxide, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. R. Kiefer, J. L. Pawlitz, K. T. Moreland, R. A. Stegeman, W. F. Hood, J. K. Gierse, A. M. Stevens, D. C. Goodwin, S. W. Rowlinson, L. J. Marnett, W. C. Stallings, R. G. Kurumbail
Structural Insights Into The Stereochemistry Of The Cyclooxygenase Reaction.
Nature V. 405 97 2000
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 12)
Info
All Hetero Components
1a: B-OCTYLGLUCOSIDE (BOGa)
1b: B-OCTYLGLUCOSIDE (BOGb)
1c: B-OCTYLGLUCOSIDE (BOGc)
1d: B-OCTYLGLUCOSIDE (BOGd)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
2c: N-ACETYL-D-GLUCOSAMINE (NAGc)
2d: N-ACETYL-D-GLUCOSAMINE (NAGd)
2e: N-ACETYL-D-GLUCOSAMINE (NAGe)
2f: N-ACETYL-D-GLUCOSAMINE (NAGf)
2g: N-ACETYL-D-GLUCOSAMINE (NAGg)
2h: N-ACETYL-D-GLUCOSAMINE (NAGh)
2i: N-ACETYL-D-GLUCOSAMINE (NAGi)
2j: N-ACETYL-D-GLUCOSAMINE (NAGj)
2k: N-ACETYL-D-GLUCOSAMINE (NAGk)
2l: N-ACETYL-D-GLUCOSAMINE (NAGl)
2m: N-ACETYL-D-GLUCOSAMINE (NAGm)
2n: N-ACETYL-D-GLUCOSAMINE (NAGn)
2o: N-ACETYL-D-GLUCOSAMINE (NAGo)
2p: N-ACETYL-D-GLUCOSAMINE (NAGp)
3a: 7-[6-(3-HYDROPEROXY-OCT-1-ENYL)-2,... (PGXa)
3b: 7-[6-(3-HYDROPEROXY-OCT-1-ENYL)-2,... (PGXb)
3c: 7-[6-(3-HYDROPEROXY-OCT-1-ENYL)-2,... (PGXc)
3d: 7-[6-(3-HYDROPEROXY-OCT-1-ENYL)-2,... (PGXd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BOG
2
Ligand/Ion
B-OCTYLGLUCOSIDE
2
NAG
8
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
3
PGX
2
Ligand/Ion
7-[6-(3-HYDROPEROXY-OCT-1-ENYL)-2,3-DIOXA-BICYCLO[2.2.1]HEPT-5-YL]-HEPT-5-ENOIC ACID
[
close Hetero Component info
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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: BC8 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC3 (SOFTWARE)
12: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:40 , TYR A:55 , ASN A:68 , NAG A:662
BINDING SITE FOR RESIDUE NAG A 661
02
AC2
SOFTWARE
NAG A:661
BINDING SITE FOR RESIDUE NAG A 662
03
AC3
SOFTWARE
ASN A:144 , SER A:146 , TYR A:147 , ARG A:216
BINDING SITE FOR RESIDUE NAG A 671
04
AC4
SOFTWARE
GLN A:406 , ASN A:410 , GLU A:416
BINDING SITE FOR RESIDUE NAG A 681
05
AC5
SOFTWARE
PRO B:1040 , TYR B:1055 , ASN B:1068 , NAG B:1662
BINDING SITE FOR RESIDUE NAG B 1661
06
AC6
SOFTWARE
NAG B:1661
BINDING SITE FOR RESIDUE NAG B 1662
07
AC7
SOFTWARE
ASN B:1144 , SER B:1146 , TYR B:1147 , ARG B:1216
BINDING SITE FOR RESIDUE NAG B 1671
08
AC8
SOFTWARE
GLN B:1406 , ASN B:1410 , GLU B:1416
BINDING SITE FOR RESIDUE NAG B 1681
09
BC8
SOFTWARE
THR A:88 , TYR A:91
BINDING SITE FOR RESIDUE BOG A 702
10
BC9
SOFTWARE
THR B:1088 , PHE B:1096
BINDING SITE FOR RESIDUE BOG B 1702
11
CC3
SOFTWARE
PHE A:205 , PHE A:209 , TYR A:348 , VAL A:349 , LEU A:352 , SER A:353 , PHE A:381 , LEU A:384 , TYR A:385 , TRP A:387 , GLY A:526 , SER A:530 , GLY A:533 , LEU A:534
BINDING SITE FOR RESIDUE PGX A 701
12
CC4
SOFTWARE
PHE B:1205 , THR B:1206 , PHE B:1209 , PHE B:1210 , VAL B:1228 , TYR B:1348 , VAL B:1349 , LEU B:1352 , LEU B:1384 , TYR B:1385 , TRP B:1387 , VAL B:1523 , GLY B:1526 , ALA B:1527 , SER B:1530 , GLY B:1533 , LEU B:1534 , HOH B:4074
BINDING SITE FOR RESIDUE PGX 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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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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All Exon Boundaries
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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_d1ddxa1 (A:74-583)
1b: SCOP_d1ddxb1 (B:1074-1583)
1c: SCOP_d1ddxc1 (C:2074-2583)
1d: SCOP_d1ddxd1 (D:3074-3583)
2a: SCOP_d1ddxa2 (A:33-73)
2b: SCOP_d1ddxb2 (B:1033-1073)
2c: SCOP_d1ddxc2 (C:2033-2073)
2d: SCOP_d1ddxd2 (D:3033-3073)
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(
)
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
d1ddxa1
A:74-583
1b
d1ddxb1
B:1074-1583
1c
d1ddxc1
C:2074-2583
1d
d1ddxd1
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
d1ddxa2
A:33-73
2b
d1ddxb2
B:1033-1073
2c
d1ddxc2
C:2033-2073
2d
d1ddxd2
D:3033-3073
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1ddxA02 (A:74-583)
1b: CATH_1ddxB02 (B:1074-1583)
1c: CATH_1ddxC02 (C:2074-2583)
1d: CATH_1ddxD02 (D:3074-3583)
2a: CATH_1ddxA01 (A:33-73)
2b: CATH_1ddxB01 (B:1033-1073)
2c: CATH_1ddxC01 (C:2033-2073)
2d: CATH_1ddxD01 (D:3033-3073)
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Topologies
(
)
(
)
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
1ddxA02
A:74-583
1b
1ddxB02
B:1074-1583
1c
1ddxC02
C:2074-2583
1d
1ddxD02
D:3074-3583
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
House mouse (Mus musculus)
(18)
2a
1ddxA01
A:33-73
2b
1ddxB01
B:1033-1073
2c
1ddxC01
C:2033-2073
2d
1ddxD01
D:3033-3073
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Protein & NOT PROSITE
Chain A
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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