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PDBsum entry 6b5e
Go to PDB code:
Ligand/metal interactions
PDB id
6b5e
6 instances of ligand highlighted
TYD
Ligands
DAU
×10
DAU 301(A)
DAU 302(E)
DAU 302(F)
TYD
×6
TYD 303(A)
EDO
EDO 305(A)
Metals
_NA
×2
NA 305(B)
NA 304(C)
_MG
×9
MG 303(E)
MG 303(F)
MG 302(B)
MG 303(B)
MG 302(C)
MG 302(D)
MG 302(G)
MG 302(H)
_CL
CL 304(A)
Ligand
TYD
-
Thymidine-5'-Diphosphate
Formula:
C
10
H
16
N
2
O
11
P
2
Validation of ligand annotation
Per Residue Validation
Atoms
Missing
Incorrect Chiral Centres
Residue
Dic.
Struc.
Link
Subs.
Atoms
Rings
Planar
High
C
Other
TYD 303(A)
25
25
0
0
Complete
Chiral checks - OK
Advanced Analysis
Residue
Name Mismatches
Count
TYD 303(A)
O2A: O1A
|
O1A: O2A
|
O2B: O1B
|
O1B: O3B
4
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 TYD
List of
interactions
TYD 303(A)
also representing 5 other equivalent ligands:
TYD 304(B)
TYD 303(C)
TYD 303(D)
TYD 303(G)
TYD 303(H)
_NA
×2
_MG
×9
