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3KK6
Asym. Unit
Info
Asym.Unit (570 KB)
Biol.Unit 1 (557 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CYCLOOXYGENASE-1 IN COMPLEX WITH CELECOXIB
Authors
:
R. S. Sidhu
Date
:
04 Nov 09 (Deposition) - 15 Dec 09 (Release) - 13 Mar 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Cox-1, Cyclooxygenase, Peroxidase, Prostaglandin, Heme, Celecoxib, Merohedral Twinned, Dioxygenase, Disulfide Bond, Egf-Like Domain, Endoplasmic Reticulum, Fatty Acid Biosynthesis, Glycoprotein, Iron, Lipid Synthesis, Membrane, Metal-Binding, Microsome, Oxidoreductase, Prostaglandin Biosynthesis, Transmembrane
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Rimon, R. S. Sidhu, D. A. Lauver, J. Y. Lee, N. P. Sharma, C. Yuan, R. A. Frieler, R. C. Trievel, B. R. Lucchesi, W. L. Smith
Coxibs Interfere With The Action Of Aspirin By Binding Tightly To One Monomer Of Cyclooxygenase-1.
Proc. Natl. Acad. Sci. Usa V. 107 28 2010
[
close entry info
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Hetero Components
(8, 24)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: B-OCTYLGLUCOSIDE (BOGa)
2b: B-OCTYLGLUCOSIDE (BOGb)
2c: B-OCTYLGLUCOSIDE (BOGc)
2d: B-OCTYLGLUCOSIDE (BOGd)
3a: 4-[5-(4-METHYLPHENYL)-3-(TRIFLUORO... (CELa)
3b: 4-[5-(4-METHYLPHENYL)-3-(TRIFLUORO... (CELb)
4a: CITRATE ANION (FLCa)
5a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
5b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
6a: ALPHA-D-MANNOSE (MANa)
6b: ALPHA-D-MANNOSE (MANb)
6c: ALPHA-D-MANNOSE (MANc)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
7e: N-ACETYL-D-GLUCOSAMINE (NAGe)
7f: N-ACETYL-D-GLUCOSAMINE (NAGf)
7g: N-ACETYL-D-GLUCOSAMINE (NAGg)
8a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
8b: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGb)
8c: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
BOG
4
Ligand/Ion
B-OCTYLGLUCOSIDE
3
CEL
2
Ligand/Ion
4-[5-(4-METHYLPHENYL)-3-(TRIFLUOROMETHYL)-1H-PYRAZOL-1-YL]BENZENESULFONAMIDE
4
FLC
1
Ligand/Ion
CITRATE ANION
5
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
6
MAN
3
Ligand/Ion
ALPHA-D-MANNOSE
7
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
NDG
3
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
[
close Hetero Component info
]
Sites
(24, 24)
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)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:148 , GLN A:203 , HIS A:207 , PHE A:210 , LYS A:211 , THR A:212 , LEU A:295 , ASN A:382 , TYR A:385 , HIS A:386 , TRP A:387 , HIS A:388 , MET A:391 , VAL A:447 , ASP A:450 , FLC A:900
BINDING SITE FOR RESIDUE HEM A 601
02
AC2
SOFTWARE
ASN A:144 , TYR A:147 , NAG A:672
BINDING SITE FOR RESIDUE NAG A 671
03
AC3
SOFTWARE
NAG A:671 , MAN A:673 , LEU B:238
BINDING SITE FOR RESIDUE NAG A 672
04
AC4
SOFTWARE
NAG A:672 , BMA A:674
BINDING SITE FOR RESIDUE MAN A 673
05
AC5
SOFTWARE
MAN A:673 , MAN A:675
BINDING SITE FOR RESIDUE BMA A 674
06
AC6
SOFTWARE
BMA A:674 , HOH B:592
BINDING SITE FOR RESIDUE MAN A 675
07
AC7
SOFTWARE
TYR A:402 , GLN A:406 , ASN A:410 , MET A:413 , ASP A:416 , NDG A:682 , ILE B:279 , PRO B:281
BINDING SITE FOR RESIDUE NAG A 681
08
AC8
SOFTWARE
GLN A:400 , TYR A:402 , GLN A:406 , ASP A:416 , HOH A:599 , NAG A:681
BINDING SITE FOR RESIDUE NDG A 682
09
AC9
SOFTWARE
HIS A:90 , VAL A:116 , GLN A:192 , VAL A:349 , LEU A:352 , SER A:353 , TYR A:355 , LEU A:359 , TRP A:387 , SER A:516 , ILE A:517 , PHE A:518 , MET A:522 , ILE A:523 , GLY A:526 , ALA A:527
BINDING SITE FOR RESIDUE CEL A 701
10
BC1
SOFTWARE
PRO A:86 , LEU A:115 , VAL A:119 , ARG A:120 , GLU A:524
BINDING SITE FOR RESIDUE BOG A 751
11
BC2
SOFTWARE
PRO A:84 , SER A:85 , SER A:87 , PHE A:88 , PHE A:91
BINDING SITE FOR RESIDUE BOG A 754
12
BC3
SOFTWARE
LYS A:211 , THR A:212 , HEM A:601
BINDING SITE FOR RESIDUE FLC A 900
13
BC4
SOFTWARE
ALA B:199 , GLN B:203 , THR B:206 , HIS B:207 , PHE B:210 , LYS B:211 , THR B:212 , ASN B:382 , TYR B:385 , HIS B:386 , TRP B:387 , HIS B:388 , MET B:391 , VAL B:447 , ASP B:450
BINDING SITE FOR RESIDUE HEM B 601
14
BC5
SOFTWARE
TYR B:55 , ASN B:68 , NDG B:1662
BINDING SITE FOR RESIDUE NAG B 1661
15
BC6
SOFTWARE
HOH B:31 , TYR B:38 , NAG B:1661
BINDING SITE FOR RESIDUE NDG B 1662
16
BC7
SOFTWARE
ASN B:144 , TYR B:147 , NAG B:1672
BINDING SITE FOR RESIDUE NAG B 1671
17
BC8
SOFTWARE
MET B:216 , HOH B:588 , NAG B:1671 , MAN B:1673
BINDING SITE FOR RESIDUE NAG B 1672
18
BC9
SOFTWARE
HOH B:589 , NAG B:1672 , BMA B:1674
BINDING SITE FOR RESIDUE MAN B 1673
19
CC1
SOFTWARE
MAN B:1673
BINDING SITE FOR RESIDUE BMA B 1674
20
CC2
SOFTWARE
PRO A:281 , TYR B:402 , GLN B:406 , ASN B:410 , MET B:413 , ASP B:416 , NDG B:1682
BINDING SITE FOR RESIDUE NAG B 1681
21
CC3
SOFTWARE
HOH B:4 , TYR B:402 , NAG B:1681
BINDING SITE FOR RESIDUE NDG B 1682
22
CC4
SOFTWARE
HIS B:90 , VAL B:116 , GLN B:192 , VAL B:349 , LEU B:352 , SER B:353 , TYR B:355 , LEU B:359 , TRP B:387 , SER B:516 , ILE B:517 , PHE B:518 , MET B:522 , ILE B:523 , GLY B:526 , ALA B:527 , SER B:530
BINDING SITE FOR RESIDUE CEL B 1701
23
CC5
SOFTWARE
ARG B:83 , ILE B:89 , ARG B:120 , GLY B:471 , GLU B:524 , HOH B:617
BINDING SITE FOR RESIDUE BOG B 1751
24
CC6
SOFTWARE
TRP B:77 , GLY B:96 , ARG B:97 , TRP B:98
BINDING SITE FOR RESIDUE BOG B 1752
[
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]
SAPs(SNPs)/Variants
(6, 12)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_PGH1_SHEEP_001 (R97H, chain A/B, )
2: VAR_PGH1_SHEEP_002 (G164G, chain A/B, )
3: VAR_PGH1_SHEEP_003 (R456Q, chain A/B, )
4: VAR_PGH1_SHEEP_004 (E520K, chain A/B, )
5: VAR_PGH1_SHEEP_005 (E520Q, chain A/B, )
6: VAR_PGH1_SHEEP_006 (M525I, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_PGH1_SHEEP_001
*
R
97
H
PGH1_SHEEP
---
---
A/B
R
97
H
2
UniProt
VAR_PGH1_SHEEP_002
*
D
164
G
PGH1_SHEEP
---
---
A/B
G
164
G
3
UniProt
VAR_PGH1_SHEEP_003
*
R
456
Q
PGH1_SHEEP
---
---
A/B
R
456
Q
4
UniProt
VAR_PGH1_SHEEP_004
*
E
520
K
PGH1_SHEEP
---
---
A/B
E
520
K
5
UniProt
VAR_PGH1_SHEEP_005
*
E
520
Q
PGH1_SHEEP
---
---
A/B
E
520
Q
6
UniProt
VAR_PGH1_SHEEP_006
*
M
525
I
PGH1_SHEEP
---
---
A/B
M
525
I
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: EGF_3 (A:32-70,B:32-70)
2: PEROXIDASE_3 (A:110-584,B:110-584)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EGF_3
PS50026
EGF-like domain profile.
PGH1_SHEEP
32-70
2
A:32-70
B:32-70
2
PEROXIDASE_3
PS50292
Animal heme peroxidase superfamily profile.
PGH1_SHEEP
110-600
2
A:110-584
B:110-584
[
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]
Exons
(0, 0)
Info
All Exons
View:
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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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3kk6a2 (A:74-584)
1b: SCOP_d3kk6b2 (B:74-584)
2a: SCOP_d3kk6a1 (A:32-73)
2b: SCOP_d3kk6b1 (B:32-73)
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(
)
(
)
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)
Sheep (Ovis aries) [TaxId: 9940]
(23)
1a
d3kk6a2
A:74-584
1b
d3kk6b2
B:74-584
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)
Sheep (Ovis aries) [TaxId: 9940]
(23)
2a
d3kk6a1
A:32-73
2b
d3kk6b1
B:32-73
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_3kk6A02 (A:74-583)
1b: CATH_3kk6B02 (B:74-583)
2a: CATH_3kk6A01 (A:33-73)
2b: CATH_3kk6B01 (B:33-73)
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Myeloperoxidase, subunit C
(39)
Homologous Superfamily
:
Myeloperoxidase, subunit C
(39)
Domestic sheep,lambs,wild sheep (Ovis aries)
(1)
1a
3kk6A02
A:74-583
1b
3kk6B02
B:74-583
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
Domestic sheep,lambs,wild sheep (Ovis aries)
(1)
2a
3kk6A01
A:33-73
2b
3kk6B01
B:33-73
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_An_peroxidase_3kk6B01 (B:142-582)
1b: PFAM_An_peroxidase_3kk6B02 (B:142-582)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: An_peroxidase]
(45)
Family
:
An_peroxidase
(45)
Ovis aries (Sheep)
(15)
1a
An_peroxidase-3kk6B01
B:142-582
1b
An_peroxidase-3kk6B02
B:142-582
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