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.
1WB4
Asym. Unit
Info
Asym.Unit (235 KB)
Biol.Unit 1 (115 KB)
Biol.Unit 2 (115 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
S954A MUTANT OF THE FERULOYL ESTERASE MODULE FROM CLOSTRIDIUM THERMOCELLUM COMPLEXED WITH SINAPINATE
Authors
:
N. Tarbouriech, J. A. Prates, C. Fontes, G. J. Davies
Date
:
30 Oct 04 (Deposition) - 02 Feb 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Esterase Family 1, Ferulic Acid, Glycosidase, Hydrolase, Repeat, Xylan Degradation, Xylanase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Tarbouriech, J. A. Prates, C. Fontes, G. J. Davies
Molecular Determinants Of Substrate Specificity In The Feruloyl Esterase Module Of Xylanase 10B From Clostridium Thermocellum
Acta Crystallogr. , Sect. D V. 61 194 2005
[
close entry info
]
Hetero Components
(4, 28)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
2a: CADMIUM ION (CDa)
2b: CADMIUM ION (CDb)
2c: CADMIUM ION (CDc)
2d: CADMIUM ION (CDd)
2e: CADMIUM ION (CDe)
2f: CADMIUM ION (CDf)
2g: CADMIUM ION (CDg)
2h: CADMIUM ION (CDh)
2i: CADMIUM ION (CDi)
2j: CADMIUM ION (CDj)
2k: CADMIUM ION (CDk)
2l: CADMIUM ION (CDl)
2m: CADMIUM ION (CDm)
2n: CADMIUM ION (CDn)
2o: CADMIUM ION (CDo)
2p: CADMIUM ION (CDp)
2q: CADMIUM ION (CDq)
2r: CADMIUM ION (CDr)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
4a: SINAPINATE (SXXa)
4b: SINAPINATE (SXXb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
2
Ligand/Ion
ACETIC ACID
2
CD
18
Ligand/Ion
CADMIUM ION
3
GOL
6
Ligand/Ion
GLYCEROL
4
SXX
2
Ligand/Ion
SINAPINATE
[
close Hetero Component info
]
Sites
(28, 28)
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)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:823 , HIS A:886 , MET A:889 , HOH A:3157 , GLU B:1017
BINDING SITE FOR RESIDUE CD A2090
02
AC2
SOFTWARE
GLU A:894 , HIS A:1076 , GLU A:1079 , HIS A:1083 , HIS A:1085
BINDING SITE FOR RESIDUE CD A2091
03
AC3
SOFTWARE
GLU A:1007 , HOH A:3259 , HIS B:1082 , HIS B:1084 , HOH B:3364
BINDING SITE FOR RESIDUE CD A2092
04
AC4
SOFTWARE
HIS A:947 , HIS A:1080 , HOH A:3218 , HOH A:3331 , HOH A:3341
BINDING SITE FOR RESIDUE CD A2093
05
AC5
SOFTWARE
HIS A:1081 , CD A:2095 , HOH A:3347 , HOH A:3353
BINDING SITE FOR RESIDUE CD A2094
06
AC6
SOFTWARE
HIS A:1081 , ACY A:2089 , CD A:2094 , HOH A:3369
BINDING SITE FOR RESIDUE CD A2095
07
AC7
SOFTWARE
HIS A:1076 , HOH A:3326 , HOH A:3332 , HOH A:3335 , HOH A:3336
BINDING SITE FOR RESIDUE CD A2096
08
AC8
SOFTWARE
GLU A:926 , TYR A:929 , CD A:2099 , HOH A:3193 , HOH A:3197 , HOH A:3202 , HOH A:3203
BINDING SITE FOR RESIDUE CD A2097
09
AC9
SOFTWARE
ASN A:985 , HOH A:3229 , HOH B:3096 , HOH B:3234
BINDING SITE FOR RESIDUE CD A2098
10
BC1
SOFTWARE
CD A:2097 , HOH A:3193 , HOH A:3197 , HOH A:3202 , HOH A:3206 , HOH B:3209 , HOH B:3376
BINDING SITE FOR RESIDUE CD A2099
11
BC2
SOFTWARE
GLU A:1017 , CYS B:823 , HIS B:886 , MET B:889 , HOH B:3157
BINDING SITE FOR RESIDUE CD B2092
12
BC3
SOFTWARE
GLU B:894 , HIS B:1076 , GLU B:1079 , HIS B:1083 , HIS B:1085
BINDING SITE FOR RESIDUE CD B2093
13
BC4
SOFTWARE
HIS A:1082 , HIS A:1084 , HOH A:3354 , GLU B:1007 , HOH B:3264
BINDING SITE FOR RESIDUE CD B2094
14
BC5
SOFTWARE
HIS B:947 , HIS B:1080 , HOH B:3216 , HOH B:3217 , HOH B:3342 , HOH B:3350
BINDING SITE FOR RESIDUE CD B2095
15
BC6
SOFTWARE
HIS B:1081 , CD B:2097 , HOH B:3355 , HOH B:3357 , HOH B:3362
BINDING SITE FOR RESIDUE CD B2096
16
BC7
SOFTWARE
HIS B:1081 , ACY B:2091 , CD B:2096 , HOH B:3357 , HOH B:3378
BINDING SITE FOR RESIDUE CD B2097
17
BC8
SOFTWARE
HOH A:3194 , ALA B:933 , GOL B:2088 , HOH B:3197 , HOH B:3198
BINDING SITE FOR RESIDUE CD B2098
18
BC9
SOFTWARE
HIS B:1076 , HOH B:3339 , HOH B:3341 , HOH B:3344 , HOH B:3346
BINDING SITE FOR RESIDUE CD B2099
19
CC1
SOFTWARE
ALA A:954 , MET A:955 , LEU A:958 , GLY A:979 , ASP A:980 , TRP A:982 , ALA A:1020 , ASN A:1023 , HOH A:3272 , HOH A:3365 , HOH A:3366
BINDING SITE FOR RESIDUE SXX A2086
20
CC2
SOFTWARE
MET B:955 , LEU B:958 , GLY B:979 , ASP B:980 , TRP B:982 , ALA B:1020 , ASN B:1023 , GOL B:2087 , HOH B:3373 , HOH B:3374
BINDING SITE FOR RESIDUE SXX B2086
21
CC3
SOFTWARE
GLY A:865 , GLY A:866 , GLU A:868 , PHE A:953 , ALA A:954 , HIS A:1058 , HOH A:3366 , HOH A:3367
BINDING SITE FOR RESIDUE GOL A2087
22
CC4
SOFTWARE
LYS A:856 , TYR A:857 , ASN A:858 , GLU A:894 , PRO A:895 , TYR A:932 , HIS A:1081 , HOH A:3368
BINDING SITE FOR RESIDUE GOL A2088
23
CC5
SOFTWARE
LYS A:856 , TYR A:857 , HIS A:1081 , CD A:2095 , HOH A:3370 , HOH A:3371
BINDING SITE FOR RESIDUE ACY A2089
24
CC6
SOFTWARE
GLY B:865 , GLY B:866 , GLU B:868 , PHE B:953 , ALA B:954 , HIS B:1058 , SXX B:2086 , HOH B:3373 , HOH B:3375
BINDING SITE FOR RESIDUE GOL B2087
25
CC7
SOFTWARE
SER A:927 , LYS A:928 , GLU B:926 , SER B:927 , LYS B:928 , TYR B:929 , SER B:930 , CD B:2098 , HOH B:3195 , HOH B:3196 , HOH B:3376
BINDING SITE FOR RESIDUE GOL B2088
26
CC8
SOFTWARE
ILE A:837 , ASN A:838 , ASN A:907 , ASN A:912 , GLN B:915 , ASN B:966 , HOH B:3183 , HOH B:3377
BINDING SITE FOR RESIDUE GOL B2089
27
CC9
SOFTWARE
LYS B:856 , TYR B:857 , ASN B:858 , GLU B:894 , PRO B:895 , TYR B:932 , HIS B:1081
BINDING SITE FOR RESIDUE GOL B2090
28
DC1
SOFTWARE
LYS B:856 , TYR B:857 , HIS B:1081 , CD B:2097 , HOH B:3113 , HOH B:3378 , HOH B:3379
BINDING SITE FOR RESIDUE ACY B2091
[
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1wb4a_ (A:)
1b: SCOP_d1wb4b_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
alpha/beta-Hydrolases
(971)
Superfamily
:
alpha/beta-Hydrolases
(971)
Family
:
Carboxylesterase
(24)
Protein domain
:
automated matches
(4)
Clostridium thermocellum [TaxId: 1515]
(3)
1a
d1wb4a_
A:
1b
d1wb4b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1wb4A00 (A:803-1085)
1b: CATH_1wb4B00 (B:803-1085)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1820, no name defined]
(692)
Clostridium thermocellum. Organism_taxid: 1515.
(3)
1a
1wb4A00
A:803-1085
1b
1wb4B00
B:803-1085
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Esterase_1wb4B01 (B:835-1072)
1b: PFAM_Esterase_1wb4B02 (B:835-1072)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
AB_hydrolase
(347)
Family
:
Esterase
(10)
Clostridium thermocellum
(3)
1a
Esterase-1wb4B01
B:835-1072
1b
Esterase-1wb4B02
B:835-1072
[
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
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 (235 KB)
Header - Asym.Unit
Biol.Unit 1 (115 KB)
Header - Biol.Unit 1
Biol.Unit 2 (115 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
1WB4
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help