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.
3EQN
Biol. Unit 1
Info
Asym.Unit (268 KB)
Biol.Unit 1 (134 KB)
Biol.Unit 2 (134 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF BETA-1,3-GLUCANASE FROM PHANEROCHAETE CHRYSOSPORIUM (LAM55A)
Authors
:
T. Ishida, S. Fushinobu, R. Kawai, M. Kitaoka, K. Igarashi, M. Samejima
Date
:
01 Oct 08 (Deposition) - 03 Feb 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Tandem Beta-Helix Domains, Glycosidase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Ishida, S. Fushinobu, R. Kawai, M. Kitaoka, K. Igarashi, M. Samejim
Crystal Structure Of Glycoside Hydrolase Family 55 Beta -1, 3-Glucanase From The Basidiomycete Phanerochaete Chrysosporium
J. Biol. Chem. V. 284 10100 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(4, 11)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
2a: BETA-D-MANNOSE (BMAa)
2b: BETA-D-MANNOSE (BMAb)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
3i: GLYCEROL (GOLi)
3j: GLYCEROL (GOLj)
3k: GLYCEROL (GOLk)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
6e: ZINC ION (ZNe)
6f: ZINC ION (ZNf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
1
Ligand/Ion
ACETATE ION
2
BMA
1
Ligand/Ion
BETA-D-MANNOSE
3
GOL
7
Ligand/Ion
GLYCEROL
4
NA
-1
Ligand/Ion
SODIUM ION
5
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:182 , ASP A:210 , ASN A:231 , ARG A:253 , SER A:380 , NAG A:754 , HOH A:1150 , HOH A:1197 , HOH A:1302 , HOH A:1304
BINDING SITE FOR RESIDUE NAG A 753
02
AC2
SOFTWARE
NAG A:753 , BMA A:755 , HOH A:883 , HOH A:1100 , HOH A:1145
BINDING SITE FOR RESIDUE NAG A 754
03
AC3
SOFTWARE
NAG A:754 , HOH A:1115 , HOH A:1145 , HOH A:1330 , HOH A:1371 , HOH A:1563
BINDING SITE FOR RESIDUE BMA A 755
04
AC4
SOFTWARE
HIS A:508 , GLY A:600 , PRO A:601 , HOH A:1262 , HOH A:1343
BINDING SITE FOR RESIDUE ZN A 756
05
AC5
SOFTWARE
HIS A:383 , THR A:487 , ASP A:488 , ACT A:768 , HOH A:1364 , HOH A:1375
BINDING SITE FOR RESIDUE ZN A 757
06
AC6
SOFTWARE
ASP A:575 , HIS A:576 , HOH A:1438 , HOH A:1439 , HOH A:1440 , HOH A:1441
BINDING SITE FOR RESIDUE ZN A 758
07
AC7
SOFTWARE
HIS A:557 , GLU A:597 , HOH A:1532
BINDING SITE FOR RESIDUE NA A 759
08
AC8
SOFTWARE
ASP A:78 , HOH A:1010 , HOH A:1434 , HOH A:1494 , HOH A:1495 , HOH A:1496
BINDING SITE FOR RESIDUE NA A 760
09
AC9
SOFTWARE
ASN A:68 , GLY A:71 , ARG A:72 , HOH A:927 , HOH B:1378 , HOH B:1400
BINDING SITE FOR RESIDUE GOL A 761
10
BC1
SOFTWARE
PRO A:355 , THR A:356 , PHE A:357 , HOH A:1024 , HOH A:1026 , GLY B:369 , VAL B:370
BINDING SITE FOR RESIDUE GOL A 762
11
BC2
SOFTWARE
LEU A:316 , THR A:317 , THR A:337 , THR A:338 , HOH A:1174 , HOH A:1360 , SER B:302 , GLN B:359
BINDING SITE FOR RESIDUE GOL A 763
12
BC3
SOFTWARE
GLN A:146 , ASN A:147 , PHE A:149 , GLN A:176 , SER A:204 , TRP A:572 , ASP A:575 , GLU A:610 , HIS A:611 , GLU A:633 , TYR A:636 , HOH A:1029 , HOH A:1440 , HOH A:1442
BINDING SITE FOR RESIDUE GOL A 764
13
BC4
SOFTWARE
GLU A:633 , TYR A:636 , PHE A:684 , PHE A:685 , GOL A:766 , HOH A:931 , HOH A:1135 , HOH A:1271 , HOH A:1439 , HOH A:1442
BINDING SITE FOR RESIDUE GOL A 765
14
BC5
SOFTWARE
GLN A:146 , ASN A:147 , GOL A:765 , HOH A:881 , HOH A:1271 , HOH A:1441 , HOH A:1442 , HOH A:1443 , HOH A:1492
BINDING SITE FOR RESIDUE GOL A 766
15
BC6
SOFTWARE
CYS A:259 , GLN A:260 , ASN A:290
BINDING SITE FOR RESIDUE GOL A 767
16
BC7
SOFTWARE
PHE A:20 , ARG A:154 , HIS A:383 , GLN A:385 , ZN A:757
BINDING SITE FOR RESIDUE ACT A 768
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
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 (268 KB)
Header - Asym.Unit
Biol.Unit 1 (134 KB)
Header - Biol.Unit 1
Biol.Unit 2 (134 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
3EQN
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
