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5K1I
Asym. Unit
Info
Asym.Unit (884 KB)
Biol.Unit 1 (114 KB)
Biol.Unit 2 (115 KB)
Biol.Unit 3 (113 KB)
Biol.Unit 4 (115 KB)
Biol.Unit 5 (113 KB)
Biol.Unit 6 (116 KB)
Biol.Unit 7 (114 KB)
Biol.Unit 8 (115 KB)
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Title
:
PDE4 CRYSTAL STRUCTURE IN COMPLEX WITH SMALL MOLECULE INHIBITOR
Authors
:
V. Segarra, B. Hernandez, N. Ferrer-Miralles, I. Korndoerfer, J. Ayma
Date
:
18 May 16 (Deposition) - 21 Dec 16 (Release) - 21 Dec 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.61
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Keywords
:
Phosphodiesterases, Inhibitor, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Gracia, M. A. Buil, J. Castro, P. Eichhorn, M. Ferrer, A. Gavalda, B. Hernandez, V. Segarra, M. D. Lehner, I. Moreno, L. Pages, R. S. Roberts, J. Serrat, S. Sevilla, J. Taltavull, M. Andres, J. Cabedo, D. Vilella, E. Calama, C. Carcasona, M. Miralpeix
Biphenyl Pyridazinone Derivatives As Inhaled Pde4 Inhibitors: Structural Biology And Structure-Activity Relationships.
J. Med. Chem. V. 59 10479 2016
[
close entry info
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTa)
1b: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTb)
1c: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTc)
1d: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTd)
1e: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTe)
1f: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTf)
1g: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTg)
1h: 4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENY... (6PTh)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
6PT
8
Ligand/Ion
4-[(5-ACETYL-2-ETHYL-3-OXO-6-PHENYL-2,3-DIHYDROPYRIDAZIN-4-YL)AMINO]BENZOIC ACID
2
MG
8
Ligand/Ion
MAGNESIUM ION
3
ZN
8
Ligand/Ion
ZINC ION
[
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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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:159 , MET A:273 , LEU A:319 , ASN A:321 , TRP A:332 , ILE A:336 , MET A:337 , PHE A:340 , SER A:368 , GLN A:369 , PHE A:372
binding site for residue 6PT A 1001
02
AC2
SOFTWARE
HIS A:164 , HIS A:200 , ASP A:201 , ASP A:318
binding site for residue ZN A 1002
03
AC3
SOFTWARE
HIS A:200 , ASP A:201
binding site for residue MG A 1003
04
AC4
SOFTWARE
TYR B:159 , MET B:273 , LEU B:319 , ASN B:321 , TRP B:332 , THR B:333 , ILE B:336 , MET B:337 , PHE B:340 , MET B:357 , GLN B:369 , PHE B:372
binding site for residue 6PT B 1001
05
AC5
SOFTWARE
HIS B:164 , HIS B:200 , ASP B:201 , ASP B:318
binding site for residue ZN B 1002
06
AC6
SOFTWARE
ASP B:201 , HIS B:233
binding site for residue MG B 1003
07
AC7
SOFTWARE
TYR C:159 , MET C:273 , LEU C:319 , ASN C:321 , ILE C:336 , MET C:337 , PHE C:340 , MET C:357 , GLN C:369 , PHE C:372 , HOH C:1102 , HOH C:1106
binding site for residue 6PT C 1001
08
AC8
SOFTWARE
HIS C:164 , HIS C:200 , ASP C:201 , ASP C:318
binding site for residue ZN C 1002
09
AC9
SOFTWARE
ASP C:201
binding site for residue MG C 1003
10
AD1
SOFTWARE
TYR D:159 , MET D:273 , ASN D:321 , TRP D:332 , ILE D:336 , MET D:337 , PHE D:340 , GLN D:369 , PHE D:372 , HOH D:1108
binding site for residue 6PT D 1001
11
AD2
SOFTWARE
HIS D:164 , HIS D:200 , ASP D:201 , ASP D:318
binding site for residue ZN D 1002
12
AD3
SOFTWARE
ASP D:201
binding site for residue MG D 1003
13
AD4
SOFTWARE
TYR E:159 , MET E:273 , LEU E:319 , ASN E:321 , ILE E:336 , MET E:337 , PHE E:340 , SER E:368 , GLN E:369 , PHE E:372
binding site for residue 6PT E 1001
14
AD5
SOFTWARE
HIS E:164 , HIS E:200 , ASP E:201 , ASP E:318 , MG E:1003
binding site for residue ZN E 1002
15
AD6
SOFTWARE
ASP E:201 , ZN E:1002
binding site for residue MG E 1003
16
AD7
SOFTWARE
TYR F:159 , MET F:273 , LEU F:319 , ASN F:321 , TRP F:332 , ILE F:336 , PHE F:340 , MET F:357 , SER F:368 , GLN F:369 , PHE F:372
binding site for residue 6PT F 1001
17
AD8
SOFTWARE
HIS F:164 , HIS F:200 , ASP F:201 , ASP F:318
binding site for residue ZN F 1002
18
AD9
SOFTWARE
ASP F:201
binding site for residue MG F 1003
19
AE1
SOFTWARE
TYR G:159 , MET G:273 , LEU G:319 , ASN G:321 , TRP G:332 , ILE G:336 , MET G:337 , PHE G:340 , GLN G:369 , PHE G:372
binding site for residue 6PT G 1001
20
AE2
SOFTWARE
HIS G:164 , HIS G:200 , ASP G:201 , ASP G:318
binding site for residue ZN G 1002
21
AE3
SOFTWARE
ASP G:201
binding site for residue MG G 1003
22
AE4
SOFTWARE
TYR H:159 , MET H:273 , LEU H:319 , ASN H:321 , THR H:333 , MET H:337 , PHE H:340 , MET H:357 , GLN H:369 , PHE H:372 , HOH H:1101 , HOH H:1105
binding site for residue 6PT H 1001
23
AE5
SOFTWARE
HIS H:164 , HIS H:200 , ASP H:201 , ASP H:318
binding site for residue ZN H 1002
24
AE6
SOFTWARE
ASP H:201
binding site for residue MG H 1003
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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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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show SS bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (884 KB)
Header - Asym.Unit
Biol.Unit 1 (114 KB)
Header - Biol.Unit 1
Biol.Unit 2 (115 KB)
Header - Biol.Unit 2
Biol.Unit 3 (113 KB)
Header - Biol.Unit 3
Biol.Unit 4 (115 KB)
Header - Biol.Unit 4
Biol.Unit 5 (113 KB)
Header - Biol.Unit 5
Biol.Unit 6 (116 KB)
Header - Biol.Unit 6
Biol.Unit 7 (114 KB)
Header - Biol.Unit 7
Biol.Unit 8 (115 KB)
Header - Biol.Unit 8
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