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PDBsum entry 2yp3
Go to PDB code:
Ligand/metal interactions
PDB id
2yp3
Ligand highlighted
NAG-GAL-SIA
Ligands
NAG-NAG-MAN
NAG 1(B) to MAN 3(B)
NAG-NAG
NAG 1(C) to NAG 2(C)
NAG-GAL-SIA
NAG 1(D) to SIA 3(D)
NAG
×4
NAG 1504(A)
NAG 1505(A)
NAG 1506(A)
NAG 1510(A)
EPE
×2
EPE 1513(A)
EPE 1514(A)
TAM
TAM 1518(A)
Ligand
NAG-GAL-SIA
NAG
-
2-Acetamido-2-Deoxy-Beta-D-Glucopyranose [N-Acetyl-Beta-D-Glucosamine; 2-Acetamido-2-Deoxy-Beta- D-Glucose; 2-Acetamido-2-Deoxy-D-Glucose; 2-Acetamido- 2-Deoxy-Glucose; n-Acetyl-D-Glucosamine]
Formula:
C
8
H
15
NO
6
GAL
-
Beta-D-Galactopyranose [Beta-D-Galactose; d-Galactose; galactose]
Formula:
C
6
H
12
O
6
SIA
-
N-Acetyl-Alpha-Neuraminic acid [N-Acetylneuraminic acid; sialic acid; alpha-Sialic acid; o-Sialic acid]
Formula:
C
11
H
19
NO
9
Validation of ligand annotation
Per Residue Validation
Atoms
Missing
Incorrect Chiral Centres
Residue
Dic.
Struc.
Link
Subs.
Atoms
Rings
Planar
High
C
Other
NAG 1(D)
15
15
0
0
Complete
Chiral checks - OK
GAL 2(D)
12
12
1
0
Complete
Chiral checks - OK
SIA 3(D)
21
21
1
0
Complete
Chiral checks - OK
Advanced Analysis
Residue
Name Mismatches
Count
NAG 1(D)
-
0
GAL 2(D)
-
0
SIA 3(D)
O1B: O1A
|
O1A: O1B
2
Additional Information
Validation carried out using
MotiveValidator
. Full validation report can be found in
Validator
DB
.
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3D Viewers:
LIGPLOT
of interactions involving ligand NAG-GAL-SIA
List of
interactions
NAG 1(D) to SIA 3(D)
