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SMTL ID : 2hox.2
(2 other biounits)
alliinase from allium sativum (garlic)
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.40 Å
Oligo State
homo-dimer
Ligands
1 x
NAG
-
NAG
-
BMA
-
FUC
:
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA-FUC.1:
8 residues within 4Å:
Chain A:
N.146
,
T.148
,
A.149
,
N.276
,
K.280
Chain B:
E.170
,
K.173
,
Y.174
5
PLIP interactions
:
4 interactions with chain A
,
1 interactions with chain B
Hydrogen bonds:
A:N.276
,
A:K.280
,
A:K.280
Water bridges:
A:N.276
Hydrophobic interactions:
B:K.173
1 x
NAG
-
FUC
-
NAG
:
alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose
(Post Translational Modification)
NAG-FUC-NAG.2:
5 residues within 4Å:
Chain A:
Y.174
Chain B:
N.146
,
T.148
,
A.149
,
N.276
1
PLIP interactions
:
1 interactions with chain B
Water bridges:
B:T.148
1 x
NAG
-
NAG
:
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
(Post Translational Modification)
NAG-NAG.3:
3 residues within 4Å:
Chain B:
N.328
,
Q.408
,
F.411
No protein-ligand interaction detected (PLIP)
2 x
NAG
:
2-acetamido-2-deoxy-beta-D-glucopyranose
(Post Translational Modification)
(Non-functional Binders)
NAG.4:
4 residues within 4Å:
Chain A:
N.328
,
Q.408
,
F.411
Ligands:
NAG.5
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:N.328
,
A:Q.408
Water bridges:
A:E.324
,
A:E.324
,
A:E.324
NAG.5:
1 residues within 4Å:
Ligands:
NAG.4
No protein-ligand interaction detected (PLIP)
2 x
CL
:
CHLORIDE ION
(Non-functional Binders)
CL.6:
6 residues within 4Å:
Chain A:
F.93
,
F.94
,
V.97
,
S.98
,
N.99
,
F.100
Ligand excluded by PLIP
CL.8:
6 residues within 4Å:
Chain B:
F.93
,
F.94
,
V.97
,
S.98
,
N.99
,
F.100
Ligand excluded by PLIP
2 x
P1T
:
2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC ACID
(Non-covalent)
P1T.7:
19 residues within 4Å:
Chain A:
S.63
,
G.64
,
G.131
,
V.132
,
T.133
,
Y.165
,
T.203
,
N.207
,
D.225
,
V.227
,
Y.228
,
T.248
,
S.250
,
K.251
,
R.259
,
Y.363
,
Q.388
,
R.401
Chain B:
Y.92
19
PLIP interactions
:
17 interactions with chain A
,
2 interactions with chain B
Hydrophobic interactions:
A:Y.165
,
A:T.203
,
B:Y.92
Hydrogen bonds:
A:G.64
,
A:V.132
,
A:T.133
,
A:T.133
,
A:N.207
,
A:Y.228
,
A:S.250
,
A:K.251
,
A:Q.388
,
B:Y.92
Water bridges:
A:R.401
,
A:R.401
Salt bridges:
A:K.251
,
A:R.259
,
A:R.401
pi-Stacking:
A:Y.165
P1T.9:
18 residues within 4Å:
Chain A:
Y.92
Chain B:
G.64
,
G.131
,
V.132
,
T.133
,
Y.165
,
T.203
,
N.207
,
D.225
,
V.227
,
Y.228
,
T.248
,
S.250
,
K.251
,
R.259
,
Y.363
,
Q.388
,
R.401
18
PLIP interactions
:
17 interactions with chain B
,
1 interactions with chain A
Hydrophobic interactions:
B:Y.165
,
B:T.203
,
A:Y.92
Hydrogen bonds:
B:G.64
,
B:V.132
,
B:T.133
,
B:N.207
,
B:T.248
,
B:S.250
,
B:K.251
,
B:Y.363
,
B:Q.388
Water bridges:
B:R.401
,
B:R.401
Salt bridges:
B:K.251
,
B:R.259
,
B:R.401
pi-Stacking:
B:Y.165
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Shimon, L.J. et al., Two Structures of Alliinase from Alliium sativum L.: Apo Form and Ternary Complex with Aminoacrylate Reaction Intermediate Covalently Bound to the PLP Cofactor. J.Mol.Biol. (2007)
Release Date
2007-02-06
Peptides
Alliin lyase 1:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
C
B
D
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Alliin lyase 1
Related Entries With Identical Sequence
2hor.1
|
2hox.1
|
2hox.3
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
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Transparent
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