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SMTL ID : 4v37.2
(1 other biounit)
Crystal structure of betaine aldehyde dehydrogenase from spinach showing a thiohemiacetal with 3-aminopropionaldehyde
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.10 Å
Oligo State
homo-dimer
Ligands
2 x
NAD
:
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
(Non-covalent)
NAD.1:
26 residues within 4Å:
Chain A:
I.155
,
S.156
,
P.157
,
W.158
,
N.159
,
M.164
,
K.182
,
P.183
,
S.184
,
E.185
,
G.215
,
G.219
,
A.220
,
F.233
,
T.234
,
G.235
,
S.236
,
T.239
,
E.257
,
L.258
,
G.259
,
A.291
,
E.390
,
F.392
,
W.456
Ligands:
FMT.4
20
PLIP interactions
:
20 interactions with chain A
Hydrophobic interactions:
A:P.157
,
A:T.234
,
A:A.291
Hydrogen bonds:
A:S.156
,
A:W.158
,
A:K.182
,
A:E.185
,
A:S.236
,
A:T.239
,
A:L.258
,
A:E.390
Water bridges:
A:G.215
,
A:G.215
,
A:S.236
,
A:S.237
,
A:T.239
,
A:K.242
,
A:K.242
,
A:K.242
,
A:E.390
NAD.7:
28 residues within 4Å:
Chain B:
I.155
,
S.156
,
P.157
,
W.158
,
N.159
,
M.164
,
K.182
,
P.183
,
S.184
,
E.185
,
G.215
,
G.219
,
A.220
,
F.233
,
T.234
,
G.235
,
S.236
,
T.239
,
V.243
,
E.257
,
L.258
,
G.259
,
A.291
,
E.390
,
F.392
,
L.418
,
W.456
Ligands:
FMT.9
17
PLIP interactions
:
17 interactions with chain B
Hydrophobic interactions:
B:P.157
,
B:T.234
,
B:A.291
Hydrogen bonds:
B:S.156
,
B:K.182
,
B:E.185
,
B:S.236
,
B:T.239
,
B:L.258
,
B:E.390
Water bridges:
B:W.158
,
B:S.184
,
B:S.236
,
B:S.237
,
B:T.239
,
B:K.242
,
B:K.242
3 x
0D8
:
3-aminopropan-1-ol
(Covalent)
(Non-covalent)
0D8.2:
6 residues within 4Å:
Chain A:
W.167
,
S.292
,
C.450
,
F.451
,
W.456
Ligands:
FMT.4
6
PLIP interactions
:
5 interactions with chain A
,
1 interactions with chain B
Hydrophobic interactions:
A:W.456
Hydrogen bonds:
A:S.292
,
A:F.451
,
B:Q.481
Water bridges:
A:S.292
,
A:Q.448
0D8.3:
5 residues within 4Å:
Chain A:
W.285
,
Q.448
,
P.449
,
C.450
,
F.451
2
PLIP interactions
:
2 interactions with chain A
Hydrogen bonds:
A:Q.448
,
A:C.450
0D8.8:
5 residues within 4Å:
Chain B:
W.167
,
S.292
,
C.450
,
W.456
Ligands:
FMT.9
6
PLIP interactions
:
1 interactions with chain A
,
5 interactions with chain B
Hydrogen bonds:
A:Q.481
,
B:S.292
Hydrophobic interactions:
B:W.456
Water bridges:
B:S.292
,
B:Q.448
,
B:F.451
2 x
FMT
:
FORMIC ACID
(Non-functional Binders)
FMT.4:
7 residues within 4Å:
Chain A:
N.159
,
Y.160
,
I.290
,
A.291
,
S.292
Ligands:
NAD.1
,
0D8.2
3
PLIP interactions
:
3 interactions with chain A
Hydrogen bonds:
A:N.159
,
A:A.291
,
A:S.292
FMT.9:
7 residues within 4Å:
Chain B:
N.159
,
Y.160
,
I.290
,
A.291
,
S.292
Ligands:
NAD.7
,
0D8.8
3
PLIP interactions
:
3 interactions with chain B
Hydrogen bonds:
B:N.159
,
B:A.291
,
B:S.292
1 x
PG4
:
TETRAETHYLENE GLYCOL
(Non-functional Binders)
PG4.5:
6 residues within 4Å:
Chain A:
E.470
,
W.471
,
Q.474
Chain B:
E.470
,
W.471
,
Q.474
2
PLIP interactions
:
1 interactions with chain B
,
1 interactions with chain A
Hydrogen bonds:
B:E.470
,
A:Q.474
2 x
K
:
POTASSIUM ION
(Non-covalent)
K.6:
3 residues within 4Å:
Chain A:
I.28
,
D.96
,
L.186
5
PLIP interactions
:
4 interactions with chain A
,
1 Ligand-Water interactions
Metal complexes:
A:I.28
,
A:D.96
,
A:D.96
,
A:L.186
,
H
2
O.2
K.10:
3 residues within 4Å:
Chain B:
I.28
,
D.96
,
L.186
5
PLIP interactions
:
4 interactions with chain B
,
1 Ligand-Water interactions
Metal complexes:
B:I.28
,
B:D.96
,
B:D.96
,
B:L.186
,
H
2
O.14
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Zarate-Romero, A. et al., Identification of a Stable Thiohemiacetal Involving a Conserved Cysteine in the Substrate Inactivation of S. Oleracea Betaine Aldehyde Dehydrogenase. To be Published
Release Date
2016-01-20
Peptides
BETAINE ALDEHYDE DEHYDROGENASE, CHLOROPLASTIC:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
C
B
D
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BETAINE ALDEHYDE DEHYDROGENASE, CHLOROPLASTIC
Related Entries With Identical Sequence
4v37.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
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