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.
4CE8
Asym. Unit
Info
Asym.Unit (261 KB)
Biol.Unit 1 (253 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
PERDEUTERATED PSEUDOMONAS AERUGINOSA LECTIN II COMPLEX WITH HYDROGENATED L-FUCOSE AND CALCIUM
Authors
:
M. G. Cuypers, E. P. Mitchell, E. Mossou, M. Pokorna, M. Wimmerova, A. Im M. Moulin, M. Haertlein, V. T. Forsyth
Date
:
10 Nov 13 (Deposition) - 12 Nov 14 (Release) - 28 Sep 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
0.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Sugar Binding Protein, Perdeuterated
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. G. Cuypers, E. Mossou, E. P. Mitchell, S. Russi, M. Pokorna, M. Wimmerova, A. Imberty, S. Mcsweeney, M. Haertlein, V. T. Forsyth
Perdeuterated Pseudomonas Aeruginosa Lectin Ii Complex With Hydrogenated L Fucose And Calcium
To Be Published
[
close entry info
]
Hetero Components
(4, 22)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
2a: ALPHA-L-FUCOSE (FUCa)
2b: ALPHA-L-FUCOSE (FUCb)
2c: ALPHA-L-FUCOSE (FUCc)
2d: ALPHA-L-FUCOSE (FUCd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
4a: UREA (UREa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
8
Ligand/Ion
CALCIUM ION
2
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
3
SO4
9
Ligand/Ion
SULFATE ION
4
URE
1
Ligand/Ion
UREA
[
close Hetero Component info
]
Sites
(22, 22)
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: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:95 , ASP A:99 , ASP A:101 , ASP A:104 , FUC A:999
BINDING SITE FOR RESIDUE CA A 997
02
AC2
SOFTWARE
ASN A:21 , ASP A:101 , ASN A:103 , ASP A:104 , FUC A:999 , GLY B:114
BINDING SITE FOR RESIDUE CA A 998
03
AC3
SOFTWARE
ASN A:21 , SER A:22 , SER A:23 , GLU A:95 , ASP A:96 , ASP A:99 , ASP A:101 , ASP A:104 , CA A:997 , CA A:998 , HOH A:2960 , HOH A:3246 , GLY B:114
BINDING SITE FOR RESIDUE FUC A 999
04
AC4
SOFTWARE
GLU B:95 , ASP B:99 , ASP B:101 , ASP B:104 , FUC B:999
BINDING SITE FOR RESIDUE CA B 997
05
AC5
SOFTWARE
GLY A:114 , ASN B:21 , ASP B:101 , ASN B:103 , ASP B:104 , FUC B:999
BINDING SITE FOR RESIDUE CA B 998
06
AC6
SOFTWARE
GLY A:114 , ASN B:21 , SER B:22 , SER B:23 , GLU B:95 , ASP B:96 , ASP B:99 , ASP B:101 , ASP B:104 , CA B:997 , CA B:998 , HOH B:2120 , HOH B:2440
BINDING SITE FOR RESIDUE FUC B 999
07
AC7
SOFTWARE
GLU C:95 , ASP C:99 , ASP C:101 , ASP C:104 , FUC C:999
BINDING SITE FOR RESIDUE CA C 997
08
AC8
SOFTWARE
ASN C:21 , ASP C:101 , ASN C:103 , ASP C:104 , FUC C:999 , GLY D:114
BINDING SITE FOR RESIDUE CA C 998
09
AC9
SOFTWARE
ASN C:21 , SER C:22 , SER C:23 , GLU C:95 , ASP C:96 , ASP C:99 , ASP C:101 , ASP C:104 , CA C:997 , CA C:998 , HOH C:2104 , HOH C:2646 , HOH C:2671 , GLY D:114
BINDING SITE FOR RESIDUE FUC C 999
10
BC1
SOFTWARE
GLU D:95 , ASP D:99 , ASP D:101 , ASP D:104 , FUC D:999
BINDING SITE FOR RESIDUE CA D 997
11
BC2
SOFTWARE
GLY C:114 , ASN D:21 , ASP D:101 , ASN D:103 , ASP D:104 , FUC D:999
BINDING SITE FOR RESIDUE CA D 998
12
BC3
SOFTWARE
GLY C:114 , ASN D:21 , SER D:22 , SER D:23 , GLU D:95 , ASP D:96 , ASP D:99 , ASP D:101 , ASP D:104 , CA D:997 , CA D:998 , HOH D:2133 , HOH D:2154
BINDING SITE FOR RESIDUE FUC D 999
13
BC4
SOFTWARE
PRO C:9 , TRP C:111 , HOH C:2079 , HOH C:2137 , HOH C:2169 , HOH C:2252 , HOH C:2650 , HOH C:2829 , HOH C:2849
BINDING SITE FOR RESIDUE SO4 C1115
14
BC5
SOFTWARE
SER D:44 , THR D:45 , ASN D:46 , HOH D:2139 , HOH D:2371 , HOH D:2401 , HOH D:3096
BINDING SITE FOR RESIDUE SO4 D1115
15
BC6
SOFTWARE
PRO D:9 , ALA D:10 , HOH D:2261 , HOH D:2344 , HOH D:2486 , HOH D:2582 , HOH D:2944 , HOH D:2945 , HOH D:3090 , HOH D:3244
BINDING SITE FOR RESIDUE SO4 D1116
16
BC7
SOFTWARE
ASN C:33 , GLY C:58 , SER C:59 , HOH C:2048 , HOH C:2874 , HOH C:2902
BINDING SITE FOR RESIDUE SO4 C1116
17
BC8
SOFTWARE
SER A:44 , ASN A:46 , ALA A:48 , HOH A:2108
BINDING SITE FOR RESIDUE SO4 A1115
18
BC9
SOFTWARE
ALA B:1 , HOH B:2273 , HOH B:2345 , HOH B:2536 , HOH B:2559 , HOH B:2709 , HOH B:2757 , HOH B:3028 , HOH B:3190
BINDING SITE FOR RESIDUE SO4 B1115
19
CC1
SOFTWARE
THR D:12 , ARG D:13 , HOH D:2198 , HOH D:2328 , HOH D:2374 , HOH D:2413 , HOH D:2469 , HOH D:2528
BINDING SITE FOR RESIDUE SO4 D1117
20
CC2
SOFTWARE
THR A:12 , ARG A:13 , HOH A:2054 , HOH A:2348 , HOH A:2525 , HOH A:2579 , HOH A:3166
BINDING SITE FOR RESIDUE SO4 A1116
21
CC3
SOFTWARE
SER B:44 , THR B:45 , ASN B:46 , HOH B:2046 , HOH B:2051 , HOH B:2422 , HOH B:2745 , SER C:44 , ASN C:46 , ALA C:48 , HOH C:3041
BINDING SITE FOR RESIDUE SO4 B1116
22
CC4
SOFTWARE
THR C:45 , ASN C:46 , ARG D:13 , LEU D:113 , HOH D:2469
BINDING SITE FOR RESIDUE URE D1118
[
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
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 (261 KB)
Header - Asym.Unit
Biol.Unit 1 (253 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
4CE8
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help