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SMTL ID : 5f9s.1
Crystal structure of human Alanine:Glyoxylate Aminotransferase major allele (AGT-Ma) at 1.7 Angstrom; internal aldimine with PLP in the active site
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 1.70 Å
Oligo State
homo-dimer
Ligands
2 x
PLP
:
PYRIDOXAL-5'-PHOSPHATE
(Covalent)
PLP.1:
17 residues within 4Å:
Chain A:
S.76
,
G.77
,
H.78
,
W.103
,
T.149
,
G.151
,
E.152
,
S.153
,
D.178
,
V.180
,
A.181
,
Y.199
,
Q.203
,
K.204
Chain B:
Y.255
,
H.257
,
T.258
19
PLIP interactions
:
15 interactions with chain A
,
4 interactions with chain B
Hydrophobic interactions:
A:W.103
,
A:V.180
,
A:A.181
,
A:K.204
Hydrogen bonds:
A:S.76
,
A:G.77
,
A:H.78
,
A:S.153
,
A:Q.203
,
A:Q.203
,
A:K.204
,
B:Y.255
,
B:Y.255
,
B:T.258
,
B:T.258
Salt bridges:
A:H.78
,
A:K.204
pi-Stacking:
A:W.103
,
A:W.103
PLP.2:
17 residues within 4Å:
Chain A:
Y.255
,
H.257
,
T.258
Chain B:
S.76
,
G.77
,
H.78
,
W.103
,
T.149
,
G.151
,
E.152
,
S.153
,
D.178
,
V.180
,
A.181
,
Y.199
,
Q.203
,
K.204
21
PLIP interactions
:
17 interactions with chain B
,
4 interactions with chain A
Hydrophobic interactions:
B:W.103
,
B:W.103
,
B:V.180
,
B:V.180
,
B:A.181
,
B:K.204
Hydrogen bonds:
B:S.76
,
B:G.77
,
B:H.78
,
B:W.103
,
B:S.153
,
B:Q.203
,
B:K.204
,
A:Y.255
,
A:T.258
,
A:T.258
,
A:T.258
Salt bridges:
B:H.78
,
B:K.204
pi-Stacking:
B:W.103
,
B:W.103
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Giardina, G. et al., Radiation damage at the active site of human alanine:glyoxylate aminotransferase reveals that the cofactor position is finely tuned during catalysis. Sci Rep (2017)
Release Date
2016-12-21
Peptides
Serine--pyruvate aminotransferase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
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Secondary Structure
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2° Structure
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Serine--pyruvate aminotransferase
Related Entries With Identical Sequence
5hhy.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
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Outline
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