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SMTL ID : 2vgw.1
Crystal structure of E53QbsSHMT obtained in the presence of glycine and 5-fomyl tetrahydrofolate
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 1.86 Å
Oligo State
homo-dimer
Ligands
2 x
GLY
:
GLYCINE
(Non-covalent)
GLY.1:
9 residues within 4Å:
Chain A:
S.31
,
H.122
,
S.172
,
H.200
,
K.226
,
R.357
Chain B:
Y.51
,
Y.61
Ligands:
PLP.2
6
PLIP interactions
:
6 interactions with chain A
Hydrogen bonds:
A:S.31
,
A:S.31
,
A:H.122
Salt bridges:
A:H.200
,
A:K.226
,
A:R.357
GLY.5:
9 residues within 4Å:
Chain A:
Y.51
,
Y.61
Chain B:
S.31
,
H.122
,
S.172
,
H.200
,
K.226
,
R.357
Ligands:
PLP.6
6
PLIP interactions
:
6 interactions with chain B
Hydrogen bonds:
B:S.31
,
B:S.31
,
B:H.122
Salt bridges:
B:H.200
,
B:K.226
,
B:R.357
2 x
PLP
:
PYRIDOXAL-5'-PHOSPHATE
(Covalent)
PLP.2:
13 residues within 4Å:
Chain A:
H.122
,
A.171
,
S.172
,
D.197
,
A.199
,
H.200
,
T.223
,
K.226
Chain B:
Y.51
,
Q.53
,
G.256
,
G.257
Ligands:
GLY.1
15
PLIP interactions
:
5 interactions with chain B
,
1 Ligand-Ligand interactions
,
9 interactions with chain A
Hydrogen bonds:
B:Y.51
,
B:Q.53
,
B:G.257
,
G.1
,
A:H.200
Water bridges:
B:G.256
,
B:G.256
,
A:G.94
,
A:T.221
Hydrophobic interactions:
A:H.122
,
A:T.223
,
A:K.226
Salt bridges:
A:H.122
,
A:K.226
pi-Stacking:
A:H.122
PLP.6:
13 residues within 4Å:
Chain A:
Y.51
,
Q.53
,
G.256
,
G.257
Chain B:
H.122
,
A.171
,
S.172
,
D.197
,
A.199
,
H.200
,
T.223
,
K.226
Ligands:
GLY.5
15
PLIP interactions
:
5 interactions with chain A
,
9 interactions with chain B
,
1 Ligand-Ligand interactions
Hydrogen bonds:
A:Y.51
,
A:Q.53
,
A:G.257
,
B:H.200
,
G.5
Water bridges:
A:G.256
,
A:G.256
,
B:G.94
,
B:T.221
Hydrophobic interactions:
B:H.122
,
B:T.223
,
B:K.226
Salt bridges:
B:H.122
,
B:K.226
pi-Stacking:
B:H.122
2 x
MPD
:
(4S)-2-METHYL-2,4-PENTANEDIOL
(Non-functional Binders)
MPD.3:
5 residues within 4Å:
Chain A:
Y.152
,
D.153
,
R.156
,
E.185
,
I.186
2
PLIP interactions
:
2 interactions with chain A
Hydrophobic interactions:
A:Y.152
,
A:I.186
MPD.7:
5 residues within 4Å:
Chain B:
Y.152
,
D.153
,
R.156
,
E.185
,
I.186
2
PLIP interactions
:
2 interactions with chain B
Hydrophobic interactions:
B:Y.152
,
B:I.186
2 x
PO4
:
PHOSPHATE ION
(Non-functional Binders)
PO4.4:
2 residues within 4Å:
Chain A:
E.371
,
E.375
1
PLIP interactions
:
1 interactions with chain A
Water bridges:
A:E.375
PO4.8:
2 residues within 4Å:
Chain B:
E.371
,
E.375
1
PLIP interactions
:
1 interactions with chain B
Water bridges:
B:E.375
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Rajaram, V. et al., Structure Determination and Biochemical Studies on Bacillus Stearothermophilus E53Q Serine Hydroxymethyltransferase and its Complexes Provide Insights on Function and Enzyme Memory. FEBS J. (2007)
Release Date
2007-12-04
Peptides
SERINE HYDROXYMETHYLTRANSFERASE:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
A
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SERINE HYDROXYMETHYLTRANSFERASE
Toggle Identical (AB)
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2vgs.1
|
2vgt.1
|
2vgu.1
|
2vgv.1
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