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4OGB
Biol. Unit 4
Info
Asym.Unit (239 KB)
Biol.Unit 1 (62 KB)
Biol.Unit 2 (61 KB)
Biol.Unit 3 (61 KB)
Biol.Unit 4 (62 KB)
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Title
:
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF PDE4D2 WITH COMPOUND 2
Authors
:
S. C. Feil, M. W. Parker
Date
:
15 Jan 14 (Deposition) - 21 Jan 15 (Release) - 21 Jan 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.03
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Catalytic Mechanism, Camp Hydrolysis, Hydrolase-Inhibitor Complex, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. L. Howard, J. L. Nankervis, S. C. Feil, D. T. Manallack, J. K. Holien, Z. Zhen, I. G. Jennings, B. M. Abbott, M. W. Parker, P. E. Thompson
The Pde Inhibition Profile Of Ly294002 And Tetrahydropyrany Analogues Reveals A Chromone Motif For The Development Of Pde Inhibitors
To Be Published
[
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]
Hetero Components
(4, 14)
Info
All Hetero Components
1a: (2R)-8-(3,4-DIMETHOXYPHENYL)-6-MET... (2SRa)
1b: (2R)-8-(3,4-DIMETHOXYPHENYL)-6-MET... (2SRb)
1c: (2R)-8-(3,4-DIMETHOXYPHENYL)-6-MET... (2SRc)
1d: (2R)-8-(3,4-DIMETHOXYPHENYL)-6-MET... (2SRd)
2a: DIMETHYL SULFOXIDE (DMSa)
2b: DIMETHYL SULFOXIDE (DMSb)
2c: DIMETHYL SULFOXIDE (DMSc)
2d: DIMETHYL SULFOXIDE (DMSd)
2e: DIMETHYL SULFOXIDE (DMSe)
2f: DIMETHYL SULFOXIDE (DMSf)
3a: 1,2-ETHANEDIOL (EDOa)
3aa: 1,2-ETHANEDIOL (EDOaa)
3ab: 1,2-ETHANEDIOL (EDOab)
3ac: 1,2-ETHANEDIOL (EDOac)
3ad: 1,2-ETHANEDIOL (EDOad)
3ae: 1,2-ETHANEDIOL (EDOae)
3af: 1,2-ETHANEDIOL (EDOaf)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
3n: 1,2-ETHANEDIOL (EDOn)
3o: 1,2-ETHANEDIOL (EDOo)
3p: 1,2-ETHANEDIOL (EDOp)
3q: 1,2-ETHANEDIOL (EDOq)
3r: 1,2-ETHANEDIOL (EDOr)
3s: 1,2-ETHANEDIOL (EDOs)
3t: 1,2-ETHANEDIOL (EDOt)
3u: 1,2-ETHANEDIOL (EDOu)
3v: 1,2-ETHANEDIOL (EDOv)
3w: 1,2-ETHANEDIOL (EDOw)
3x: 1,2-ETHANEDIOL (EDOx)
3y: 1,2-ETHANEDIOL (EDOy)
3z: 1,2-ETHANEDIOL (EDOz)
4a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
5a: DI(HYDROXYETHYL)ETHER (PEGa)
5b: DI(HYDROXYETHYL)ETHER (PEGb)
5c: DI(HYDROXYETHYL)ETHER (PEGc)
5d: DI(HYDROXYETHYL)ETHER (PEGd)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
6e: ZINC ION (ZNe)
6f: ZINC ION (ZNf)
6g: ZINC ION (ZNg)
6h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2SR
1
Ligand/Ion
(2R)-8-(3,4-DIMETHOXYPHENYL)-6-METHYL-2-(TETRAHYDRO-2H-PYRAN-4-YL)-2H-CHROMEN-4-OL
2
DMS
2
Ligand/Ion
DIMETHYL SULFOXIDE
3
EDO
8
Ligand/Ion
1,2-ETHANEDIOL
4
EPE
-1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
5
PEG
3
Ligand/Ion
DI(HYDROXYETHYL)ETHER
6
ZN
-1
Ligand/Ion
ZINC ION
[
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]
Sites
(22, 22)
Info
All Sites
01: AC3 (SOFTWARE)
02: AC5 (SOFTWARE)
03: AC8 (SOFTWARE)
04: CC2 (SOFTWARE)
05: CC8 (SOFTWARE)
06: DC6 (SOFTWARE)
07: EC4 (SOFTWARE)
08: EC5 (SOFTWARE)
09: EC6 (SOFTWARE)
10: EC7 (SOFTWARE)
11: EC8 (SOFTWARE)
12: EC9 (SOFTWARE)
13: FC1 (SOFTWARE)
14: FC2 (SOFTWARE)
15: FC3 (SOFTWARE)
16: FC4 (SOFTWARE)
17: FC5 (SOFTWARE)
18: FC6 (SOFTWARE)
19: FC7 (SOFTWARE)
20: FC8 (SOFTWARE)
21: FC9 (SOFTWARE)
22: GC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC3
SOFTWARE
LEU A:132 , LYS A:136 , HOH A:628 , ASP D:394
BINDING SITE FOR RESIDUE EDO A 503
02
AC5
SOFTWARE
LYS A:255 , GLN A:256 , GLU D:182 , DMS D:504
BINDING SITE FOR RESIDUE EDO A 505
03
AC8
SOFTWARE
LYS A:239 , GLN A:242 , GLU A:243 , HOH A:608 , ASN C:216 , GLN D:242
BINDING SITE FOR RESIDUE EDO A 508
04
CC2
SOFTWARE
GLN A:258 , ASN B:214 , EDO B:507 , HOH B:625 , SER D:294 , SER D:295
BINDING SITE FOR RESIDUE EDO B 506
05
CC8
SOFTWARE
GLU B:349 , ARG B:350 , ASP D:140 , ILE D:143 , THR D:144
BINDING SITE FOR RESIDUE DMS B 512
06
DC6
SOFTWARE
LYS C:262 , ASP C:266 , ASN D:224 , ASP D:225
BINDING SITE FOR RESIDUE EDO C 507
07
EC4
SOFTWARE
PHE B:211 , THR B:215 , ARG B:350 , THR D:148 , HIS D:152 , GLU D:243 , HOH D:691
BINDING SITE FOR RESIDUE EDO D 501
08
EC5
SOFTWARE
HIS D:160 , MET D:273 , LEU D:319 , PHE D:340 , MET D:357 , SER D:368 , GLN D:369 , PHE D:372 , ILE D:376
BINDING SITE FOR RESIDUE 2SR D 502
09
EC6
SOFTWARE
THR D:178 , TRP D:384 , VAL D:388 , ASP D:391 , PEG D:515 , PEG D:516 , HOH D:671
BINDING SITE FOR RESIDUE EDO D 503
10
EC7
SOFTWARE
EDO A:505 , SER D:177 , GLU D:182
BINDING SITE FOR RESIDUE DMS D 504
11
EC8
SOFTWARE
VAL D:120 , HIS D:123
BINDING SITE FOR RESIDUE EDO D 505
12
EC9
SOFTWARE
ASP D:266 , GLN D:311 , PEG D:507
BINDING SITE FOR RESIDUE EDO D 506
13
FC1
SOFTWARE
ASP C:225 , HOH C:628 , LYS D:262 , ASP D:266 , EDO D:506 , HOH D:670
BINDING SITE FOR RESIDUE PEG D 507
14
FC2
SOFTWARE
GLU D:150 , ASP D:151 , TYR D:153 , ASN D:162 , EDO D:510
BINDING SITE FOR RESIDUE DMS D 508
15
FC3
SOFTWARE
ASP D:266 , LYS D:275 , GLN D:311
BINDING SITE FOR RESIDUE EDO D 509
16
FC4
SOFTWARE
ASN D:115 , ALA D:155 , ASN D:161 , ASN D:162 , ILE D:163 , DMS D:508
BINDING SITE FOR RESIDUE EDO D 510
17
FC5
SOFTWARE
GLU D:128 , HIS D:173 , SER D:177
BINDING SITE FOR RESIDUE EDO D 511
18
FC6
SOFTWARE
HIS D:164 , HIS D:200 , ASP D:201 , ASP D:318 , HOH D:711 , HOH D:712
BINDING SITE FOR RESIDUE ZN D 512
19
FC7
SOFTWARE
ASP D:201 , HOH D:606 , HOH D:623 , HOH D:662 , HOH D:711 , HOH D:713
BINDING SITE FOR RESIDUE ZN D 513
20
FC8
SOFTWARE
THR A:134 , ASN A:251 , GLN A:256 , PRO D:179 , ASP D:391 , HOH D:717
BINDING SITE FOR RESIDUE EDO D 514
21
FC9
SOFTWARE
THR A:134 , HOH A:661 , ASP D:391 , EDO D:503 , PEG D:516 , HOH D:717
BINDING SITE FOR RESIDUE PEG D 515
22
GC1
SOFTWARE
LYS D:101 , TRP D:102 , VAL D:174 , ASP D:394 , ILE D:395 , EDO D:503 , PEG D:515 , HOH D:615
BINDING SITE FOR RESIDUE PEG D 516
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Sorry, no Info available
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Exons
(0, 0)
Info
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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
(0, 0)
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CATH Domains
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Sorry, no Info available
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Pfam Domains
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Info
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Sorry, no Info available
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Chain D
Asymmetric Unit 1
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Asym.Unit (239 KB)
Header - Asym.Unit
Biol.Unit 1 (62 KB)
Header - Biol.Unit 1
Biol.Unit 2 (61 KB)
Header - Biol.Unit 2
Biol.Unit 3 (61 KB)
Header - Biol.Unit 3
Biol.Unit 4 (62 KB)
Header - Biol.Unit 4
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