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3N8W
Asym. Unit
Info
Asym.Unit (397 KB)
Biol.Unit 1 (388 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF R120Q/NATIVE CYCLOOXYGENASE-1 HETERODIMER MUTANT IN COMPLEX WITH FLURBIPROFEN
Authors
:
R. S. Sidhu
Date
:
28 May 10 (Deposition) - 28 Jul 10 (Release) - 01 Sep 10 (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, Flurbiprofen, Merohedral Twinned, Heterodimer Mutant, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. S. Sidhu, J. Y. Lee, C. Yuan, W. L. Smith
Comparison Of Cyclooxygenase-1 Crystal Structures: Cross-Talk Between Monomers Comprising Cyclooxygenase-1 Homodimers
Biochemistry V. 49 7069 2010
[
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Hetero Components
(7, 24)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
2a: B-OCTYLGLUCOSIDE (BOGa)
2b: B-OCTYLGLUCOSIDE (BOGb)
2c: B-OCTYLGLUCOSIDE (BOGc)
3a: FLURBIPROFEN (FLPa)
4a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
4b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
5a: ALPHA-D-MANNOSE (MANa)
5b: ALPHA-D-MANNOSE (MANb)
5c: ALPHA-D-MANNOSE (MANc)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
6b: N-ACETYL-D-GLUCOSAMINE (NAGb)
6c: N-ACETYL-D-GLUCOSAMINE (NAGc)
6d: N-ACETYL-D-GLUCOSAMINE (NAGd)
6e: N-ACETYL-D-GLUCOSAMINE (NAGe)
6f: N-ACETYL-D-GLUCOSAMINE (NAGf)
6g: N-ACETYL-D-GLUCOSAMINE (NAGg)
7a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
7b: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGb)
7c: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGc)
7d: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGd)
7e: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
3
Ligand/Ion
BETA-D-MANNOSE
2
BOG
3
Ligand/Ion
B-OCTYLGLUCOSIDE
3
FLP
1
Ligand/Ion
FLURBIPROFEN
4
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
5
MAN
3
Ligand/Ion
ALPHA-D-MANNOSE
6
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
NDG
5
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
ALA A:199 , ALA A:202 , 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 , HIS A:388 , MET A:391 , ASP A:450 , HOH A:594
BINDING SITE FOR RESIDUE HEM A 801
02
AC2
SOFTWARE
ARG A:120 , VAL A:349 , LEU A:352 , TYR A:355 , TYR A:385 , TRP A:387 , GLY A:526 , ALA A:527 , SER A:530
BINDING SITE FOR RESIDUE FLP A 701
03
AC3
SOFTWARE
TYR A:55 , PRO A:67 , ASN A:68 , NDG A:662
BINDING SITE FOR RESIDUE NAG A 661
04
AC4
SOFTWARE
NAG A:661 , HOH A:668
BINDING SITE FOR RESIDUE NDG A 662
05
AC5
SOFTWARE
TYR A:402 , GLN A:406 , ASN A:410 , SER A:412 , MET A:413 , ASP A:416 , NAG A:682 , ILE B:279 , PRO B:281
BINDING SITE FOR RESIDUE NAG A 681
06
AC6
SOFTWARE
TYR A:402 , GLN A:406 , ASP A:416 , NAG A:681 , BMA A:683 , GLN B:282 , HOH B:639
BINDING SITE FOR RESIDUE NAG A 682
07
AC7
SOFTWARE
GLN A:400 , HOH A:586 , HOH A:632 , NAG A:682
BINDING SITE FOR RESIDUE BMA A 683
08
AC8
SOFTWARE
GLU A:140 , ASN A:144 , TYR A:147 , NDG A:672 , HOH B:600
BINDING SITE FOR RESIDUE NAG A 671
09
AC9
SOFTWARE
MET A:216 , NAG A:671 , BMA A:673
BINDING SITE FOR RESIDUE NDG A 672
10
BC1
SOFTWARE
NDG A:672 , MAN A:674
BINDING SITE FOR RESIDUE BMA A 673
11
BC2
SOFTWARE
BMA A:673 , MAN A:675 , GLN B:243
BINDING SITE FOR RESIDUE MAN A 674
12
BC3
SOFTWARE
MAN A:674 , GLN B:243 , PRO B:270
BINDING SITE FOR RESIDUE MAN A 675
13
BC4
SOFTWARE
PRO A:86 , ILE A:89 , VAL A:119 , ARG A:120 , LEU A:123 , GLU A:524
BINDING SITE FOR RESIDUE BOG A 751
14
BC5
SOFTWARE
ALA B:199 , ALA B:202 , GLN B:203 , THR B:206 , HIS B:207 , PHE B:210 , THR B:212 , ASN B:382 , TYR B:385 , HIS B:386 , HIS B:388 , MET B:391 , VAL B:447 , HOH B:607
BINDING SITE FOR RESIDUE HEM B 601
15
BC6
SOFTWARE
TYR B:55 , ASN B:68 , HOH B:677 , NDG B:1662
BINDING SITE FOR RESIDUE NAG B 1661
16
BC7
SOFTWARE
NAG B:1661
BINDING SITE FOR RESIDUE NDG B 1662
17
BC8
SOFTWARE
PRO A:280 , GLN A:282 , TYR B:402 , GLN B:406 , ASN B:410 , SER B:412 , MET B:413 , ASP B:416 , TYR B:417 , NAG B:1682
BINDING SITE FOR RESIDUE NDG B 1681
18
BC9
SOFTWARE
GLN B:400 , GLN B:406 , ASP B:416 , HOH B:664 , NDG B:1681 , MAN B:1683
BINDING SITE FOR RESIDUE NAG B 1682
19
CC1
SOFTWARE
NAG B:1682
BINDING SITE FOR RESIDUE MAN B 1683
20
CC2
SOFTWARE
GLU B:140 , ASN B:144 , TYR B:147 , HOH B:598 , HOH B:621 , NDG B:1672
BINDING SITE FOR RESIDUE NAG B 1671
21
CC3
SOFTWARE
LEU A:238 , MET B:216 , NAG B:1671 , BMA B:1673
BINDING SITE FOR RESIDUE NDG B 1672
22
CC4
SOFTWARE
NDG B:1672
BINDING SITE FOR RESIDUE BMA B 1673
23
CC5
SOFTWARE
SER B:87 , PHE B:88
BINDING SITE FOR RESIDUE BOG B 1750
24
CC6
SOFTWARE
HOH B:14 , ARG B:83 , PRO B:86 , ILE B:89 , VAL B:119 , GLN B:120 , LEU B:123 , GLU B:524
BINDING SITE FOR RESIDUE BOG B 1751
[
close Site info
]
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
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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, 2)
Info
All SCOP Domains
1a: SCOP_d3n8wa2 (A:74-584)
2a: SCOP_d3n8wa1 (A:32-73)
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Classes
(
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(
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Folds
(
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(
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Superfamilies
(
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(
)
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
d3n8wa2
A: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
d3n8wa1
A:32-73
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_An_peroxidase_3n8wB01 (B:142-582)
1b: PFAM_An_peroxidase_3n8wB02 (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-3n8wB01
B:142-582
1b
An_peroxidase-3n8wB02
B:142-582
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]
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