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SMTL ID : 3nv2.1
Crystal structure of human galectin-9 C-terminal CRD in complex with N-acetyllactosamine
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.34 Å
Oligo State
homo-trimer
Ligands
3 x
NDG
-
GAL
:
beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose
(Non-covalent)
NDG-GAL.1:
7 residues within 4Å:
Chain A:
H.50
,
N.52
,
R.54
,
N.63
,
W.70
,
E.73
,
R.75
5
PLIP interactions
:
5 interactions with chain A
Hydrogen bonds:
A:R.54
,
A:N.63
,
A:E.73
,
A:R.54
,
A:R.54
,
A:R.75
Water bridges:
A:R.36
,
A:H.50
,
A:N.52
,
A:N.52
,
A:W.70
,
A:E.57
,
A:E.57
NDG-GAL.3:
7 residues within 4Å:
Chain B:
H.50
,
N.52
,
R.54
,
N.63
,
W.70
,
E.73
,
R.75
5
PLIP interactions
:
5 interactions with chain B
Hydrogen bonds:
B:R.54
,
B:N.63
,
B:E.73
,
B:R.54
,
B:R.54
,
B:R.75
Water bridges:
B:R.36
,
B:H.50
,
B:N.52
,
B:N.52
,
B:W.70
,
B:E.57
,
B:E.57
NDG-GAL.5:
7 residues within 4Å:
Chain C:
H.50
,
N.52
,
R.54
,
N.63
,
W.70
,
E.73
,
R.75
5
PLIP interactions
:
5 interactions with chain C
Hydrogen bonds:
C:R.54
,
C:N.63
,
C:E.73
,
C:R.54
,
C:R.54
,
C:R.75
Water bridges:
C:R.36
,
C:H.50
,
C:N.52
,
C:N.52
,
C:W.70
,
C:E.57
,
C:E.57
3 x
NI
:
NICKEL (II) ION
(Non-covalent)
NI.2:
5 residues within 4Å:
Chain A:
H.135
Chain B:
H.135
Chain C:
H.135
Ligands:
NI.4
,
NI.6
4
PLIP interactions
:
1 interactions with chain B
,
1 interactions with chain C
,
1 interactions with chain A
,
1 Ligand-Water interactions
Metal complexes:
B:H.135
,
C:H.135
,
A:H.135
,
H
2
O.1
NI.4:
5 residues within 4Å:
Chain A:
H.135
Chain B:
H.135
Chain C:
H.135
Ligands:
NI.2
,
NI.6
4
PLIP interactions
:
1 interactions with chain B
,
1 interactions with chain C
,
1 interactions with chain A
,
1 Ligand-Water interactions
Metal complexes:
B:H.135
,
C:H.135
,
A:H.135
,
H
2
O.6
NI.6:
5 residues within 4Å:
Chain A:
H.135
Chain B:
H.135
Chain C:
H.135
Ligands:
NI.2
,
NI.4
4
PLIP interactions
:
1 interactions with chain B
,
1 interactions with chain C
,
1 interactions with chain A
,
1 Ligand-Water interactions
Metal complexes:
B:H.135
,
C:H.135
,
A:H.135
,
H
2
O.6
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Yoshida, H. et al., X-ray structures of human galectin-9 C-terminal domain in complexes with a biantennary oligosaccharide and sialyllactose. J.Biol.Chem. (2010)
Release Date
2010-09-22
Peptides
Galectin 9 short isoform variant:
A
B
C
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
A
C
A
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Galectin 9 short isoform variant
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3nv1.1
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3nv3.1
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3nv4.1
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