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SMTL ID : 4tvd.1
N-terminally truncated dextransucrase DSR-E from Leuconostoc mesenteroides NRRL B-1299 in complex with D-glucose
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 2.30 Å
Oligo State
monomer
Ligands
1 x
CA
:
CALCIUM ION
(Non-covalent)
CA.1:
4 residues within 4Å:
Chain A:
D.407
,
D.413
,
F.457
,
N.936
5
PLIP interactions
:
3 interactions with chain A
,
2 Ligand-Water interactions
Metal complexes:
A:D.407
,
A:D.413
,
A:F.457
,
H
2
O.12
,
H
2
O.12
9 x
BGC
:
beta-D-glucopyranose
(Non-covalent)
BGC.2:
8 residues within 4Å:
Chain A:
A.492
,
G.493
,
E.508
,
S.509
,
N.510
,
R.512
,
E.513
,
D.537
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:E.508
,
A:E.508
,
A:S.509
,
A:R.512
Water bridges:
A:L.494
BGC.4:
8 residues within 4Å:
Chain A:
R.271
,
K.276
,
D.277
,
R.279
,
I.335
,
H.339
,
G.340
,
T.341
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:R.271
,
A:D.277
,
A:H.339
,
A:T.341
Salt bridges:
A:R.279
BGC.5:
8 residues within 4Å:
Chain A:
E.138
,
S.139
,
G.140
,
E.216
,
Y.217
,
F.363
,
D.368
,
Y.371
8
PLIP interactions
:
8 interactions with chain A
Hydrogen bonds:
A:G.140
,
A:E.216
,
A:Y.217
,
A:Y.217
,
A:D.368
,
A:D.368
Water bridges:
A:S.139
,
A:S.139
BGC.6:
12 residues within 4Å:
Chain A:
L.409
,
L.410
,
R.451
,
D.453
,
A.454
,
E.491
,
H.564
,
D.565
,
F.884
,
D.886
,
Y.893
,
Q.937
13
PLIP interactions
:
13 interactions with chain A
Hydrogen bonds:
A:R.451
,
A:R.451
,
A:A.454
,
A:E.491
,
A:H.564
,
A:H.564
,
A:D.565
,
A:D.886
,
A:Q.937
,
A:Q.937
Water bridges:
A:Q.569
,
A:D.886
,
A:N.891
BGC.7:
6 residues within 4Å:
Chain A:
N.484
,
N.831
,
T.868
,
N.926
,
M.927
,
Q.928
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:N.831
,
A:N.926
,
A:Q.928
,
A:Q.928
Water bridges:
A:Q.485
BGC.8:
7 residues within 4Å:
Chain A:
D.245
,
H.246
,
W.257
,
M.278
,
T.341
,
D.342
,
Q.345
6
PLIP interactions
:
6 interactions with chain A
Hydrogen bonds:
A:D.245
,
A:D.245
,
A:H.246
,
A:T.341
,
A:D.342
Salt bridges:
A:H.246
BGC.9:
11 residues within 4Å:
Chain A:
Y.36
,
D.38
,
Q.48
,
F.49
,
V.50
,
K.289
,
L.313
,
H.314
,
S.315
,
D.316
,
Q.317
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:Q.48
,
A:K.289
,
A:K.289
,
A:K.289
,
A:Q.317
BGC.10:
9 residues within 4Å:
Chain A:
G.403
,
N.404
,
A.405
,
N.460
,
D.495
,
Y.1005
,
W.1006
,
Y.1007
,
K.1008
7
PLIP interactions
:
7 interactions with chain A
Hydrogen bonds:
A:N.460
,
A:K.1008
,
A:K.1008
Water bridges:
A:G.403
,
A:N.404
,
A:N.460
,
A:Y.1005
BGC.11:
3 residues within 4Å:
Chain A:
Q.920
,
A.921
,
H.924
3
PLIP interactions
:
3 interactions with chain A
Water bridges:
A:A.917
,
A:A.921
Salt bridges:
A:H.924
1 x
GLC
:
alpha-D-glucopyranose
(Non-covalent)
GLC.3:
6 residues within 4Å:
Chain A:
Y.157
,
T.164
,
Q.185
,
Q.194
,
K.196
,
K.212
4
PLIP interactions
:
4 interactions with chain A
Hydrogen bonds:
A:Q.185
,
A:Q.194
,
A:Q.194
,
A:K.196
1 x
PEG
:
DI(HYDROXYETHYL)ETHER
(Non-functional Binders)
PEG.12:
4 residues within 4Å:
Chain A:
H.239
,
L.252
,
F.1066
,
K.1067
2
PLIP interactions
:
2 interactions with chain A
Hydrogen bonds:
A:K.1067
,
A:K.1067
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Brison, Y. et al., Structural Insights into the Carbohydrate Binding Ability of an alpha-(12) Branching Sucrase from Glycoside Hydrolase Family 70. J.Biol.Chem. (2016)
Release Date
2015-08-05
Peptides
Dextransucrase:
A
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
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Dextransucrase
Related Entries With Identical Sequence
3tto.1
|
3tto.2
|
3tto.3
|
3tto.4
|
3ttq.1
|
4ttu.1
|
4tvc.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
Low
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