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SMTL ID : 5yg1.1
(1 other biounit)
Plasmodium vivax SHMT bound with PLP-glycine and GS704
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 2.45 Å
Oligo State
homo-dimer
Ligands
2 x
PLG
:
N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE]
(Non-covalent)
PLG.1:
20 residues within 4Å:
Chain A:
S.34
,
S.100
,
G.101
,
S.102
,
N.105
,
H.129
,
Y.182
,
T.183
,
D.208
,
S.210
,
H.211
,
T.234
,
H.236
,
K.237
,
R.371
Chain B:
Y.54
,
E.56
,
Y.64
,
G.271
,
G.272
19
PLIP interactions
:
15 interactions with chain A
,
4 interactions with chain B
Hydrogen bonds:
A:S.34
,
A:G.101
,
A:S.102
,
A:N.105
,
A:T.183
,
A:S.210
,
B:Y.54
,
B:Y.64
,
B:G.271
,
B:G.272
Water bridges:
A:S.100
,
A:S.100
,
A:S.100
,
A:R.243
Salt bridges:
A:H.211
,
A:H.236
,
A:K.237
,
A:R.371
pi-Stacking:
A:H.129
PLG.4:
20 residues within 4Å:
Chain A:
Y.54
,
E.56
,
Y.64
,
G.271
,
G.272
Chain B:
S.34
,
S.100
,
G.101
,
S.102
,
N.105
,
H.129
,
Y.182
,
T.183
,
D.208
,
S.210
,
H.211
,
T.234
,
H.236
,
K.237
,
R.371
20
PLIP interactions
:
4 interactions with chain A
,
16 interactions with chain B
Hydrogen bonds:
A:Y.54
,
A:Y.64
,
A:G.271
,
A:G.272
,
B:S.34
,
B:G.101
,
B:S.102
,
B:S.102
,
B:N.105
,
B:S.210
Hydrophobic interactions:
B:T.183
Water bridges:
B:S.100
,
B:S.100
,
B:S.100
,
B:R.243
Salt bridges:
B:H.211
,
B:H.236
,
B:K.237
,
B:R.371
pi-Stacking:
B:H.129
2 x
8UU
:
3-[1-[3-[(4~{S})-6-azanyl-5-cyano-3-methyl-4-propan-2-yl-2~{H}-pyrano[2,3-c]pyrazol-4-yl]-5-(trifluoromethyl)phenyl]piperidin-4-yl]propanoic acid
(Non-covalent)
8UU.2:
19 residues within 4Å:
Chain A:
L.124
,
G.127
,
G.128
,
H.129
,
L.130
,
V.141
,
T.183
,
S.184
,
N.354
,
K.355
,
N.356
,
T.357
,
C.364
,
P.367
,
R.371
Chain B:
E.56
,
Y.63
,
Y.64
,
P.267
10
PLIP interactions
:
6 interactions with chain A
,
4 interactions with chain B
Hydrophobic interactions:
A:L.124
,
A:V.141
,
B:Y.63
,
B:Y.64
,
B:P.267
Hydrogen bonds:
A:G.128
,
A:T.183
,
A:T.357
,
B:E.56
Halogen bonds:
A:C.364
8UU.5:
19 residues within 4Å:
Chain A:
E.56
,
Y.63
,
Y.64
,
P.267
Chain B:
L.124
,
G.127
,
G.128
,
H.129
,
L.130
,
V.141
,
T.183
,
S.184
,
N.354
,
K.355
,
N.356
,
T.357
,
C.364
,
P.367
,
R.371
7
PLIP interactions
:
3 interactions with chain A
,
4 interactions with chain B
Hydrophobic interactions:
A:Y.64
,
A:P.267
,
B:V.141
Hydrogen bonds:
A:E.56
,
B:G.128
,
B:T.357
Halogen bonds:
B:K.355
1 x
CL
:
CHLORIDE ION
(Non-functional Binders)
CL.3:
4 residues within 4Å:
Chain A:
N.276
,
K.277
Chain B:
N.276
,
K.277
Ligand excluded by PLIP
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Chitnumsub, P. et al., to be published. to be published
Release Date
2018-09-26
Peptides
Serine hydroxymethyltransferase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
Export Alignment
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Secondary Structure
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Serine hydroxymethyltransferase
Toggle Identical (AB)
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Cartoon
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Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
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Transparent
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