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2OYE
Biol. Unit 1
Info
Asym.Unit (96 KB)
Biol.Unit 1 (173 KB)
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(1)
Title
:
INDOMETHACIN-(R)-ALPHA-ETHYL-ETHANOLAMIDE BOUND TO CYCLOOXYGENASE-1
Authors
:
C. A. Harman, R. M. Garavito
Date
:
21 Feb 07 (Deposition) - 24 Jul 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.85
Chains
:
Asym. Unit : P
Biol. Unit 1: P (2x)
Keywords
:
Cox, Pghs, Indomethacin, Nsaid, Heme, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. A. Harman, M. V. Turman, K. R. Kozak, L. J. Marnett, W. L. Smith, R. M. Garavito
Structural Basis Of Enantioselective Inhibition Of Cyclooxygenase-1 By S-Alpha-Substituted Indomethacin Ethanolamides.
J. Biol. Chem. V. 282 28096 2007
[
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Hetero Components
(7, 26)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: B-OCTYLGLUCOSIDE (BOGa)
2b: B-OCTYLGLUCOSIDE (BOGb)
3a: CITRATE ANION (FLCa)
4a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
5a: 2-[1-(4-CHLOROBENZOYL)-5-METHOXY-2... (IM8a)
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)
7a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
4
Ligand/Ion
BETA-D-MANNOSE
2
BOG
4
Ligand/Ion
B-OCTYLGLUCOSIDE
3
FLC
2
Ligand/Ion
CITRATE ANION
4
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
5
IM8
2
Ligand/Ion
2-[1-(4-CHLOROBENZOYL)-5-METHOXY-2-METHYL-1H-INDOL-3-YL]-N-[(1R)-1-(HYDROXYMETHYL)PROPYL]ACETAMIDE
6
NAG
10
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
NDG
2
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
[
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Sites
(13, 13)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO P:40 , TYR P:55 , ASN P:68 , ASP P:584 , NDG P:662
BINDING SITE FOR RESIDUE NAG P 661
02
AC2
SOFTWARE
NAG P:661
BINDING SITE FOR RESIDUE NDG P 662
03
AC3
SOFTWARE
ASN P:144 , SER P:146 , TYR P:147 , LEU P:238 , NAG P:672
BINDING SITE FOR RESIDUE NAG P 671
04
AC4
SOFTWARE
MET P:216 , GLU P:239 , TYR P:242 , NAG P:671 , BMA P:673
BINDING SITE FOR RESIDUE NAG P 672
05
AC5
SOFTWARE
NAG P:672 , BMA P:674 , HOH P:925
BINDING SITE FOR RESIDUE BMA P 673
06
AC6
SOFTWARE
TYR P:242 , BMA P:673 , HOH P:925
BINDING SITE FOR RESIDUE BMA P 674
07
AC7
SOFTWARE
GLY P:278 , PRO P:281 , TYR P:402 , GLN P:406 , ASN P:410 , MET P:413 , NAG P:682
BINDING SITE FOR RESIDUE NAG P 681
08
AC8
SOFTWARE
GLN P:406 , NAG P:681
BINDING SITE FOR RESIDUE NAG P 682
09
AC9
SOFTWARE
SER P:87 , PHE P:88
BINDING SITE FOR RESIDUE BOG P 750
10
BC1
SOFTWARE
PRO P:86 , VAL P:119 , ARG P:120 , LEU P:123 , GLU P:524 , IM8 P:700
BINDING SITE FOR RESIDUE BOG P 751
11
BC2
SOFTWARE
THR P:212 , LYS P:222 , HEM P:601 , HOH P:906 , HOH P:911 , HOH P:924
BINDING SITE FOR RESIDUE FLC P 900
12
BC3
SOFTWARE
TYR P:148 , ALA P:199 , GLN P:203 , HIS P:207 , THR P:212 , LEU P:295 , ASN P:382 , TYR P:385 , HIS P:386 , TRP P:387 , HIS P:388 , MET P:391 , ILE P:444 , VAL P:447 , ASP P:450 , FLC P:900 , HOH P:906
BINDING SITE FOR RESIDUE HEM P 601
13
BC4
SOFTWARE
LEU P:93 , ARG P:120 , VAL P:349 , LEU P:352 , SER P:353 , TYR P:355 , LEU P:384 , TRP P:387 , PHE P:518 , MET P:522 , ILE P:523 , GLU P:524 , GLY P:526 , ALA P:527 , SER P:530 , BOG P:751
BINDING SITE FOR RESIDUE IM8 P 700
[
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SAPs(SNPs)/Variants
(6, 12)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_PGH1_SHEEP_001 (R97H, chain P, )
2: VAR_PGH1_SHEEP_002 (G164G, chain P, )
3: VAR_PGH1_SHEEP_003 (R456Q, chain P, )
4: VAR_PGH1_SHEEP_004 (E520K, chain P, )
5: VAR_PGH1_SHEEP_005 (E520Q, chain P, )
6: VAR_PGH1_SHEEP_006 (M525I, chain P, )
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
---
---
P
R
97
H
2
UniProt
VAR_PGH1_SHEEP_002
*
D
164
G
PGH1_SHEEP
---
---
P
G
164
G
3
UniProt
VAR_PGH1_SHEEP_003
*
R
456
Q
PGH1_SHEEP
---
---
P
R
456
Q
4
UniProt
VAR_PGH1_SHEEP_004
*
E
520
K
PGH1_SHEEP
---
---
P
E
520
K
5
UniProt
VAR_PGH1_SHEEP_005
*
E
520
Q
PGH1_SHEEP
---
---
P
E
520
Q
6
UniProt
VAR_PGH1_SHEEP_006
*
M
525
I
PGH1_SHEEP
---
---
P
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 (P:32-70)
2: PEROXIDASE_3 (P: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
P:32-70
2
PEROXIDASE_3
PS50292
Animal heme peroxidase superfamily profile.
PGH1_SHEEP
110-600
2
P: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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2oyep1 (P:74-584)
2a: SCOP_d2oyep2 (P:32-73)
View:
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Classes
(
)
(
)
Folds
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)
(
)
Superfamilies
(
)
(
)
Families
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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
:
automated matches
(2)
Sheep (Ovis aries) [TaxId: 9940]
(2)
1a
d2oyep1
P:74-584
Class
:
Small proteins
(3458)
Fold
:
Knottins (small inhibitors, toxins, lectins)
(761)
Superfamily
:
EGF/Laminin
(347)
Family
:
automated matches
(19)
Protein domain
:
automated matches
(19)
Sheep (Ovis aries) [TaxId: 9940]
(2)
2a
d2oyep2
P:32-73
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2oyeP02 (P:74-583)
2a: CATH_2oyeP01 (P:33-73)
View:
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Classes
(
)
(
)
Architectures
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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)
Sheep (Ovis aries)
(18)
1a
2oyeP02
P:74-583
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
Sheep (Ovis aries)
(18)
2a
2oyeP01
P:33-73
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_An_peroxidase_2oyeP01 (P: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-2oyeP01
P:142-582
[
close Pfam info
]
Atom Selection
(currently selected atoms:
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Nucleic
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Sidechain
Hetero
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Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain P
Asymmetric Unit 1
Asymmetric Unit 2
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