PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3OAD
Asym. Unit
Info
Asym.Unit (117 KB)
Biol.Unit 1 (58 KB)
Biol.Unit 2 (58 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
DESIGN AND OPTIMIZATION OF NEW PIPERIDINES AS RENIN INHIBITORS
Authors
:
L. Prade
Date
:
05 Aug 10 (Deposition) - 03 Nov 10 (Release) - 03 Nov 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.17
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Protease, Blood, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
O. Corminboeuf, O. Bezencon, C. Grisostomi, L. Remen, S. Richard-Bildstein, D. Bur, L. Prade, P. Hess, P. Strickner, W. Fischli, B. Steiner, A. Treiber
Design And Optimization Of New Piperidines As Renin Inhibitors.
Bioorg. Med. Chem. Lett. V. 20 6286 2010
[
close entry info
]
Hetero Components
(2, 4)
Info
All Hetero Components
1a: (3S,4R)-N-[2-CHLORO-5-(2-METHOXYET... (LPOa)
1b: (3S,4R)-N-[2-CHLORO-5-(2-METHOXYET... (LPOb)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
LPO
2
Ligand/Ion
(3S,4R)-N-[2-CHLORO-5-(2-METHOXYETHYL)BENZYL]-N-CYCLOPROPYL-4-{6-[2-(2,6-DICHLORO-4-METHYLPHENOXY)ETHOXY]PYRIDIN-3-YL}-4-HYDROXYPIPERIDINE-3-CARBOXAMIDE
2
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN C:5 , HOH C:191
BINDING SITE FOR RESIDUE NAG C 166
2
AC2
SOFTWARE
ASN A:75 , THR A:77
BINDING SITE FOR RESIDUE NAG A 166
3
AC3
SOFTWARE
THR A:18 , GLN A:19 , TYR A:20 , VAL A:36 , ASP A:38 , GLY A:40 , TRP A:45 , VAL A:46 , HIS A:61 , TYR A:83 , VAL A:111 , PHE A:119 , PHE A:124 , ASP A:125 , VAL A:127 , ASP B:226 , THR B:227 , GLY B:228 , ALA B:229 , SER B:230
BINDING SITE FOR RESIDUE LPO A 167
4
AC4
SOFTWARE
THR C:18 , GLN C:19 , TYR C:20 , ASP C:38 , GLY C:40 , TRP C:45 , HIS C:61 , LEU C:81 , TYR C:83 , VAL C:111 , MET C:114 , PRO C:118 , PHE C:119 , PHE C:124 , ASP C:125 , VAL C:127 , HOH C:195 , ASP D:226 , THR D:227 , GLY D:228 , SER D:230
BINDING SITE FOR RESIDUE LPO C 167
[
close Site info
]
SAPs(SNPs)/Variants
(4, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_035088 (D38N, chain A/C, )
2: VAR_029171 (Q94K, chain A/C, )
3: VAR_020376 (G151R, chain A/C, )
4: VAR_035087 (R164K, chain A/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_035088
D
104
N
RENI_HUMAN
Disease (RTD)
---
A/C
D
38
N
2
UniProt
VAR_029171
Q
160
K
RENI_HUMAN
Polymorphism
11571083
A/C
Q
94
K
3
UniProt
VAR_020376
G
217
R
RENI_HUMAN
Polymorphism
11571117
A/C
G
151
R
4
UniProt
VAR_035087
R
230
K
RENI_HUMAN
Disease (RTD)
---
A/C
R
164
K
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: PEPTIDASE_A1 (A:20-165,C:20-165)
2: ASP_PROTEASE (A:35-46,C:35-46|B:223-234,D:223-23...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PEPTIDASE_A1
PS51767
Peptidase family A1 domain profile.
RENI_HUMAN
86-403
2
A:20-165
C:20-165
2
ASP_PROTEASE
PS00141
Eukaryotic and viral aspartyl proteases active site.
RENI_HUMAN
101-112
289-300
4
A:35-46
C:35-46
B:223-234
D:223-234
[
close PROSITE info
]
Exons
(9, 18)
Info
All Exons
Exon 1.2 (A:4-17 | - | C:1-17 | -)
Exon 1.3 (A:18-59 | - | C:18-59 | -)
Exon 1.4 (A:59-98 | - | C:59-98 | -)
Exon 1.5 (A:99-164 | - | C:99-164 | -)
Exon 1.6 (A:164-165 | - | C:164-165 | -)
Exon 1.7 (- | B:171-207 | - | D:171-207)
Exon 1.8 (- | B:207-254 | - | D:207-254)
Exon 1.9 (- | B:255-287 | - | D:255-287)
Exon 1.10a (- | B:288-340 | - | D:288-340)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1b/1.2
02: Boundary 1.2/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9
09: Boundary 1.9/1.10a
10: Boundary 1.10a/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1b
ENST00000272190
1b
ENSE00001952423
chr1:
204135450-204135324
127
RENI_HUMAN
1-33
33
0
-
-
1.2
ENST00000272190
2
ENSE00000962217
chr1:
204131291-204131141
151
RENI_HUMAN
33-83
51
2
A:4-17
-
C:1-17
-
14
-
17
-
1.3
ENST00000272190
3
ENSE00000962218
chr1:
204130543-204130420
124
RENI_HUMAN
84-125
42
2
A:18-59
-
C:18-59
-
42
-
42
-
1.4
ENST00000272190
4
ENSE00001075102
chr1:
204129806-204129688
119
RENI_HUMAN
125-164
40
2
A:59-98
-
C:59-98
-
40
-
40
-
1.5
ENST00000272190
5
ENSE00001075100
chr1:
204128723-204128527
197
RENI_HUMAN
165-230
66
2
A:99-164
-
C:99-164
-
66
-
66
-
1.6
ENST00000272190
6
ENSE00001652153
chr1:
204126497-204126489
9
RENI_HUMAN
230-233
4
2
A:164-165
-
C:164-165
-
2
-
2
-
1.7
ENST00000272190
7
ENSE00000962221
chr1:
204125924-204125805
120
RENI_HUMAN
233-273
41
2
-
B:171-207
-
D:171-207
-
37
-
37
1.8
ENST00000272190
8
ENSE00001306111
chr1:
204125447-204125306
142
RENI_HUMAN
273-320
48
2
-
B:207-254
-
D:207-254
-
48
-
48
1.9
ENST00000272190
9
ENSE00000962223
chr1:
204125046-204124948
99
RENI_HUMAN
321-353
33
2
-
B:255-287
-
D:255-287
-
33
-
33
1.10a
ENST00000272190
10a
ENSE00001947658
chr1:
204124305-204123947
359
RENI_HUMAN
354-406
53
2
-
B:288-340
-
D:288-340
-
53
-
53
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Asp_3oadD01 (D:171-339)
1b: PFAM_Asp_3oadD02 (D:171-339)
1c: PFAM_Asp_3oadD03 (D:171-339)
1d: PFAM_Asp_3oadD04 (D:171-339)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_AA
(368)
Family
:
Asp
(155)
Homo sapiens (Human)
(116)
1a
Asp-3oadD01
D:171-339
1b
Asp-3oadD02
D:171-339
1c
Asp-3oadD03
D:171-339
1d
Asp-3oadD04
D:171-339
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (117 KB)
Header - Asym.Unit
Biol.Unit 1 (58 KB)
Header - Biol.Unit 1
Biol.Unit 2 (58 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3OAD
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
