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4OGB
Biol. Unit 3
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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(1)
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
[
close entry info
]
Hetero Components
(3, 11)
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
-1
Ligand/Ion
DIMETHYL SULFOXIDE
3
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
4
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
5
PEG
-1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(18, 18)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC4 (SOFTWARE)
03: AC8 (SOFTWARE)
04: BC5 (SOFTWARE)
05: CC9 (SOFTWARE)
06: DC1 (SOFTWARE)
07: DC2 (SOFTWARE)
08: DC3 (SOFTWARE)
09: DC4 (SOFTWARE)
10: DC5 (SOFTWARE)
11: DC6 (SOFTWARE)
12: DC7 (SOFTWARE)
13: DC8 (SOFTWARE)
14: DC9 (SOFTWARE)
15: EC1 (SOFTWARE)
16: EC2 (SOFTWARE)
17: EC3 (SOFTWARE)
18: FC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
GLU A:218 , LYS C:239
BINDING SITE FOR RESIDUE EDO A 502
02
AC4
SOFTWARE
GLU A:150 , ASP A:151 , TYR A:153 , HOH A:640 , ARG C:346
BINDING SITE FOR RESIDUE PEG A 504
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
BC5
SOFTWARE
HIS A:152 , GLU A:243 , SER C:217 , ARG C:350
BINDING SITE FOR RESIDUE EDO A 514
05
CC9
SOFTWARE
THR C:148 , HIS C:152 , GLU C:243
BINDING SITE FOR RESIDUE EDO C 501
06
DC1
SOFTWARE
HIS C:160 , MET C:273 , LEU C:319 , MET C:357 , GLN C:369 , PHE C:372
BINDING SITE FOR RESIDUE 2SR C 502
07
DC2
SOFTWARE
ASN C:115 , ALA C:155 , ASN C:161 , ASN C:162 , ILE C:163 , ARG C:335
BINDING SITE FOR RESIDUE EDO C 503
08
DC3
SOFTWARE
HIS B:389 , PRO B:390 , THR C:134 , PHE C:135 , ASN C:251 , GLN C:256
BINDING SITE FOR RESIDUE EDO C 504
09
DC4
SOFTWARE
PRO B:179 , LEU C:188 , LYS C:255
BINDING SITE FOR RESIDUE EDO C 505
10
DC5
SOFTWARE
HIS C:105 , VAL C:106 , PHE C:107 , ARG C:108 , GLU C:111 , GLN C:327 , LEU C:328 , GLN C:331
BINDING SITE FOR RESIDUE EPE C 506
11
DC6
SOFTWARE
LYS C:262 , ASP C:266 , ASN D:224 , ASP D:225
BINDING SITE FOR RESIDUE EDO C 507
12
DC7
SOFTWARE
ASP C:266 , LEU C:269 , LYS C:275 , GLN C:311
BINDING SITE FOR RESIDUE EDO C 508
13
DC8
SOFTWARE
ASN C:115 , GLU C:150 , ASP C:151 , TYR C:153 , ASN C:162
BINDING SITE FOR RESIDUE EDO C 509
14
DC9
SOFTWARE
HIS C:164 , HIS C:200 , ASP C:201 , ASP C:318 , HOH C:601 , HOH C:666
BINDING SITE FOR RESIDUE ZN C 510
15
EC1
SOFTWARE
ASP C:201 , HOH C:602 , HOH C:613 , HOH C:664 , HOH C:665 , HOH C:666
BINDING SITE FOR RESIDUE ZN C 511
16
EC2
SOFTWARE
LEU C:219 , MET C:222 , TYR C:223
BINDING SITE FOR RESIDUE EDO C 512
17
EC3
SOFTWARE
LEU C:175 , THR C:178 , TRP C:384 , ASP C:391 , ALA C:392
BINDING SITE FOR RESIDUE EDO C 513
18
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
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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)
Info
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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.
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SCOP Domains
(0, 0)
Info
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CATH Domains
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Pfam Domains
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Atom Selection
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)
Protein
Nucleic
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain C
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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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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set fontsize 20
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Show PDB file:
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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