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.
4AU0
Biol. Unit 2
Info
Asym.Unit (134 KB)
Biol.Unit 1 (66 KB)
Biol.Unit 2 (66 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
HYPOCREA JECORINA CEL6A D221A MUTANT SOAKED WITH 6-CHLORO-4-METHYLUMBELLIFERYL-BETA-CELLOBIOSIDE
Authors
:
M. Wu, W. Nerinckx, K. Piens, T. Ishida, H. Hansson, J. Stahlberg, M. San
Date
:
11 May 12 (Deposition) - 23 Jan 13 (Release) - 23 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hydrolase, Hydrolase(O-Glycosyl), Glycosidase, Glycoside Hydrolase, Gh6, Clmufg2, Cellulase, Glycoprotein, Fluorogenic Substrate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Wu, W. Nerinckx, K. Piens, T. Ishida, H. Hansson, M. Sandgren, J. Stahlberg
Rational Design, Synthesis, Evaluation And Enzyme-Substrate Structures Of Improved Fluorogenic Substrates For Family 6 Glycoside Hydrolases.
Febs J. V. 280 184 2013
[
close entry info
]
Hetero Components
(4, 13)
Info
All Hetero Components
1a: BETA-D-GLUCOSE (BGCa)
1b: BETA-D-GLUCOSE (BGCb)
1c: BETA-D-GLUCOSE (BGCc)
1d: BETA-D-GLUCOSE (BGCd)
1e: BETA-D-GLUCOSE (BGCe)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
2c: ALPHA-D-MANNOSE (MANc)
2d: ALPHA-D-MANNOSE (MANd)
2e: ALPHA-D-MANNOSE (MANe)
2f: ALPHA-D-MANNOSE (MANf)
2g: ALPHA-D-MANNOSE (MANg)
2h: ALPHA-D-MANNOSE (MANh)
2i: ALPHA-D-MANNOSE (MANi)
2j: ALPHA-D-MANNOSE (MANj)
2k: ALPHA-D-MANNOSE (MANk)
2l: ALPHA-D-MANNOSE (MANl)
2m: ALPHA-D-MANNOSE (MANm)
2n: ALPHA-D-MANNOSE (MANn)
2o: ALPHA-D-MANNOSE (MANo)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4a: 6-CHLORO-7-HYDROXY-4-METHYL-2H-CHR... (XZZa)
4b: 6-CHLORO-7-HYDROXY-4-METHYL-2H-CHR... (XZZb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BGC
3
Ligand/Ion
BETA-D-GLUCOSE
2
MAN
7
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
XZZ
1
Ligand/Ion
6-CHLORO-7-HYDROXY-4-METHYL-2H-CHROMEN-2-ONE
[
close Hetero Component info
]
Sites
(17, 17)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC6 (SOFTWARE)
04: AC8 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC2 (SOFTWARE)
07: BC3 (SOFTWARE)
08: BC4 (SOFTWARE)
09: BC5 (SOFTWARE)
10: BC6 (SOFTWARE)
11: BC7 (SOFTWARE)
12: BC8 (SOFTWARE)
13: BC9 (SOFTWARE)
14: CC1 (SOFTWARE)
15: CC2 (SOFTWARE)
16: CC3 (SOFTWARE)
17: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP B:135 , ASP B:137 , SER B:181 , LYS B:395 , GLU B:399 , HOH B:2069 , HOH B:2078 , HOH B:2229 , HOH B:2230
BINDING SITE FOR RESIDUE BGC B 603
02
AC3
SOFTWARE
TYR A:88 , SER A:89 , GLY A:90 , ASN A:91 , VAL A:94 , HOH A:2011 , HOH A:2293 , HOH A:2294 , HOH A:2295 , HOH B:2047 , HOH B:2090 , HOH B:2091
BINDING SITE FOR MONO-SACCHARIDE MAN A 510 BOUND TO SER A 89
03
AC6
SOFTWARE
ALA A:105 , SER A:109 , ALA A:125 , ALA A:128 , LYS A:129 , HOH A:2037 , HOH A:2290 , MAN B:504
BINDING SITE FOR MONO-SACCHARIDE MAN A 506 BOUND TO SER A 109
04
AC8
SOFTWARE
SER A:115 , GLN A:432 , HOH A:2028 , HOH A:2276 , HOH A:2292 , ALA B:322
BINDING SITE FOR MONO-SACCHARIDE MAN A 508 BOUND TO SER A 115
05
AC9
SOFTWARE
GLY A:118 , THR A:122 , ASP A:189 , ASN B:161
BINDING SITE FOR MONO-SACCHARIDE MAN A 509 BOUND TO THR A 122
06
BC2
SOFTWARE
TRP A:309 , ASN A:310 , THR A:312 , HOH A:2190 , HOH A:2193 , GLN B:204 , ASP B:405 , SER B:406 , HOH B:2235
BINDING SITE FOR MONO-SACCHARIDE NAG A 502 BOUND TO ASN A 310
07
BC3
SOFTWARE
ASP A:175 , ASN A:229 , HIS A:266 , GLY A:268 , TRP A:269 , TRP A:272 , ASN A:305 , GLN A:363 , TRP A:364 , GLY A:365 , TRP A:367 , HOH A:2086 , HOH A:2087 , HOH A:2089 , HOH A:2162 , HOH A:2181 , HOH A:2182 , HOH A:2186 , HOH A:2297 , LEU B:230 , GLY B:231 , PRO B:233 , ALA B:236
BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 600 TO 602
08
BC4
SOFTWARE
THR B:87 , TYR B:88 , LYS B:356 , GLY B:360 , GLY B:372 , HOH B:2258 , HOH B:2266
BINDING SITE FOR MONO-SACCHARIDE MAN B 503 BOUND TO THR B 87
09
BC5
SOFTWARE
MAN A:506 , VAL B:96 , THR B:97 , GLY B:160 , ASN B:161 , TYR B:162
BINDING SITE FOR MONO-SACCHARIDE MAN B 504 BOUND TO THR B 97
10
BC6
SOFTWARE
TYR B:103 , SER B:106 , LEU B:111 , MAN B:507
BINDING SITE FOR MONO-SACCHARIDE MAN B 505 BOUND TO SER B 106
11
BC7
SOFTWARE
ALA B:105 , SER B:109 , ALA B:125 , ALA B:128 , LYS B:129 , ASN B:339 , HIS B:340
BINDING SITE FOR MONO-SACCHARIDE MAN B 506 BOUND TO SER B 109
12
BC8
SOFTWARE
SER B:106 , SER B:110 , GLN B:281 , ASN B:285 , HIS B:340 , MAN B:505 , HOH B:2149
BINDING SITE FOR MONO-SACCHARIDE MAN B 507 BOUND TO SER B 110
13
BC9
SOFTWARE
ALA A:322 , SER B:115 , GLN B:432 , HOH B:2028 , HOH B:2269 , HOH B:2270
BINDING SITE FOR MONO-SACCHARIDE MAN B 508 BOUND TO SER B 115
14
CC1
SOFTWARE
ARG A:153 , THR A:154 , LYS A:157 , HOH A:2059 , GLY B:118 , THR B:122 , HOH B:2271
BINDING SITE FOR MONO-SACCHARIDE MAN B 509 BOUND TO THR B 122
15
CC2
SOFTWARE
GLY A:341 , LEU B:243 , VAL B:286 , ASN B:289 , HOH B:2135
BINDING SITE FOR MONO-SACCHARIDE NAG B 501 BOUND TO ASN B 289
16
CC3
SOFTWARE
ASP A:405 , SER A:406 , TRP B:309 , ASN B:310 , THR B:312 , HOH B:2170 , HOH B:2171
BINDING SITE FOR MONO-SACCHARIDE NAG B 502 BOUND TO ASN B 310
17
CC4
SOFTWARE
ASP B:175 , ASN B:229 , HIS B:266 , GLY B:268 , TRP B:269 , TRP B:272 , ASN B:275 , ASN B:305 , TRP B:364 , GLY B:365 , TRP B:367 , HOH B:2082 , HOH B:2083 , HOH B:2085 , HOH B:2116 , HOH B:2161 , HOH B:2166 , HOH B:2178 , HOH B:2272
BINDING SITE FOR CHAIN B OF POLYSACCHARIDE RESIDUES 600 TO 602
[
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
(2, 2)
Info
All PROSITE Patterns/Profiles
1: GLYCOSYL_HYDROL_F6_1 (B:167-183)
2: GLYCOSYL_HYDROL_F6_2 (B:215-224)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLYCOSYL_HYDROL_F6_1
PS00655
Glycosyl hydrolases family 6 signature 1.
GUX2_HYPJE
191-207
1
-
B:167-183
2
GLYCOSYL_HYDROL_F6_2
PS00656
Glycosyl hydrolases family 6 signature 2.
GUX2_HYPJE
239-248
1
-
B:215-224
[
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d4au0a_ (A:)
1b: SCOP_d4au0b_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
7-stranded beta/alpha barrel
(137)
Superfamily
:
Glycosyl hydrolases family 6, cellulases
(42)
Family
:
Glycosyl hydrolases family 6, cellulases
(34)
Protein domain
:
automated matches
(8)
Hypocrea jecorina [TaxId: 51453]
(1)
1a
d4au0a_
A:
1b
d4au0b_
B:
[
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 B
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 (134 KB)
Header - Asym.Unit
Biol.Unit 1 (66 KB)
Header - Biol.Unit 1
Biol.Unit 2 (66 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
4AU0
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help