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...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
5D91
Asym. Unit
Info
Asym.Unit (124 KB)
Biol.Unit 1 (117 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF A PHOSPHATIDYLINOSITOLPHOSPHATE (PIP) SYNTHASE FROM RENIBACTERIUM SALMONINARUM
Authors
:
O. B. Clarke, D. T. Tomasek, C. D. Jorge, M. Belcher Dufrisne, M. Kim, S. K. R. Rajashankar, W. A. Hendrickson, H. Santos, F. Mancia
Date
:
18 Aug 15 (Deposition) - 11 Nov 15 (Release) - 11 Nov 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Membrane Protein, Enzyme, Lipid Biosynthesis, Phosphatidylinositol
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
O. B. Clarke, D. Tomasek, C. D. Jorge, M. B. Dufrisne, M. Kim, S. Banerjee, K. R. Rajashankar, L. Shapiro, W. A. Hendrickson, H. Santos, F. Mancia
Structural Basis For Phosphatidylinositol-Phosphate Biosynthesis.
Nat Commun V. 6 8505 2015
[
close entry info
]
Hetero Components
(3, 40)
Info
All Hetero Components
1a: OCTADECANE (8K6a)
1aa: OCTADECANE (8K6aa)
1ab: OCTADECANE (8K6ab)
1ac: OCTADECANE (8K6ac)
1ad: OCTADECANE (8K6ad)
1ae: OCTADECANE (8K6ae)
1af: OCTADECANE (8K6af)
1ag: OCTADECANE (8K6ag)
1ah: OCTADECANE (8K6ah)
1ai: OCTADECANE (8K6ai)
1b: OCTADECANE (8K6b)
1c: OCTADECANE (8K6c)
1d: OCTADECANE (8K6d)
1e: OCTADECANE (8K6e)
1f: OCTADECANE (8K6f)
1g: OCTADECANE (8K6g)
1h: OCTADECANE (8K6h)
1i: OCTADECANE (8K6i)
1j: OCTADECANE (8K6j)
1k: OCTADECANE (8K6k)
1l: OCTADECANE (8K6l)
1m: OCTADECANE (8K6m)
1n: OCTADECANE (8K6n)
1o: OCTADECANE (8K6o)
1p: OCTADECANE (8K6p)
1q: OCTADECANE (8K6q)
1r: OCTADECANE (8K6r)
1s: OCTADECANE (8K6s)
1t: OCTADECANE (8K6t)
1u: OCTADECANE (8K6u)
1v: OCTADECANE (8K6v)
1w: OCTADECANE (8K6w)
1x: OCTADECANE (8K6x)
1y: OCTADECANE (8K6y)
1z: OCTADECANE (8K6z)
2a: MAGNESIUM ION (MGa)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
8K6
35
Ligand/Ion
OCTADECANE
2
MG
1
Ligand/Ion
MAGNESIUM ION
3
SO4
4
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(32, 32)
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)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:130 , LYS A:133 , ARG A:153 , ARG A:191
binding site for residue SO4 A 301
02
AC2
SOFTWARE
PRO A:169 , SER A:170 , HOH A:404
binding site for residue SO4 A 302
03
AC3
SOFTWARE
GLN A:51
binding site for residue 8K6 A 303
04
AC4
SOFTWARE
ASP A:29 , ARG A:196 , 8K6 A:332
binding site for residue 8K6 A 304
05
AC5
SOFTWARE
THR A:114 , ILE A:117 , 8K6 A:316
binding site for residue 8K6 A 305
06
AC6
SOFTWARE
ASP A:66 , ASP A:87 , ASP A:91
binding site for residue MG A 307
07
AC7
SOFTWARE
TRP A:24 , 8K6 A:314
binding site for residue 8K6 A 310
08
AC8
SOFTWARE
8K6 A:328
binding site for residue 8K6 A 312
09
AC9
SOFTWARE
PHE A:189
binding site for residue 8K6 A 313
10
AD1
SOFTWARE
GLY A:25 , SER A:27 , 8K6 A:310 , 8K6 A:327
binding site for residue 8K6 A 314
11
AD2
SOFTWARE
8K6 A:324
binding site for residue 8K6 A 315
12
AD3
SOFTWARE
LEU A:20 , 8K6 A:305
binding site for residue 8K6 A 316
13
AD4
SOFTWARE
8K6 A:318
binding site for residue 8K6 A 317
14
AD5
SOFTWARE
8K6 A:317
binding site for residue 8K6 A 318
15
AD6
SOFTWARE
LEU A:9
binding site for residue 8K6 A 319
16
AD7
SOFTWARE
8K6 A:325
binding site for residue 8K6 A 320
17
AD8
SOFTWARE
LEU A:20 , 8K6 A:322 , HOH A:434
binding site for residue 8K6 A 321
18
AD9
SOFTWARE
ILE A:13 , PRO A:16 , 8K6 A:321 , 8K6 A:333
binding site for residue 8K6 A 322
19
AE1
SOFTWARE
VAL A:63 , VAL A:155 , VAL A:159 , 8K6 A:315
binding site for residue 8K6 A 324
20
AE2
SOFTWARE
8K6 A:320
binding site for residue 8K6 A 325
21
AE3
SOFTWARE
SER A:65 , 8K6 A:314
binding site for residue 8K6 A 327
22
AE4
SOFTWARE
TRP A:54 , 8K6 A:312
binding site for residue 8K6 A 328
23
AE5
SOFTWARE
ARG A:78 , GLY A:80 , TRP A:82 , GLY A:83 , HOH A:407
binding site for residue SO4 A 329
24
AE6
SOFTWARE
ARG A:7
binding site for residue SO4 A 330
25
AE7
SOFTWARE
8K6 A:337
binding site for residue 8K6 A 331
26
AE8
SOFTWARE
SER A:27 , ALA A:30 , ARG A:78 , 8K6 A:304
binding site for residue 8K6 A 332
27
AE9
SOFTWARE
8K6 A:322
binding site for residue 8K6 A 333
28
AF1
SOFTWARE
LEU A:44 , PRO A:48 , 8K6 A:335
binding site for residue 8K6 A 334
29
AF2
SOFTWARE
ILE A:117 , 8K6 A:334
binding site for residue 8K6 A 335
30
AF3
SOFTWARE
8K6 A:331 , 8K6 A:340
binding site for residue 8K6 A 337
31
AF4
SOFTWARE
ALA A:12
binding site for residue 8K6 A 338
32
AF5
SOFTWARE
TRP A:24 , 8K6 A:337
binding site for residue 8K6 A 340
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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.
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
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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
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 (124 KB)
Header - Asym.Unit
Biol.Unit 1 (117 KB)
Header - Biol.Unit 1
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
5D91
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
