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PDBsum entry 6d8c
Go to PDB code:
Ligand/metal interactions
PDB id
6d8c
3 instances of ligand highlighted
HYP-ALA-TRP-G5G-
ALA-ALO-CYS
Ligands
HYP-ALA-TRP-G5G-
ALA-ALO-CYS
×3
HYP 1(N) to CYS 7(N)
ADP
×5
ADP 401(H)
Metals
_MG
×5
MG 402(H)
Ligand
HYP-ALA-TRP-G5G-ALA-ALO-CYS
HYP
-
4-Hydroxyproline [Hydroxyproline]
Formula:
C
5
H
9
NO
3
G5G
-
(2s,4s)-2-Amino-4,5-Dihydroxy-4-Methylpentanoic acid
Formula:
C
6
H
13
NO
4
ALO
-
Allo-Threonine
Formula:
C
4
H
9
NO
3
Validation of ligand annotation
Per Residue Validation
Atoms
Missing
Incorrect Chiral Centres
Residue
Dic.
Struc.
Link
Subs.
Atoms
Rings
Planar
High
C
Other
HYP 1(N)
9
9
1
1
Complete
Chiral checks - OK
ALA 2(N)
6
-
-
-
Residue too small to validate
TRP 3(N)
15
15
1
1
Complete
Chiral checks - OK
G5G 4(N)
11
11
1
1
Complete
Chiral checks - OK
ALA 5(N)
6
-
-
-
Residue too small to validate
ALO 6(N)
8
8
1
1
Complete
Chiral checks - OK
CYS 7(N)
7
7
1
1
Complete
Chiral checks - OK
Advanced Analysis
Residue
Name Mismatches
Count
HYP 1(N)
-
0
ALA 2(N)
-
0
TRP 3(N)
O: OXT
1
G5G 4(N)
-
0
ALA 5(N)
-
0
ALO 6(N)
-
0
CYS 7(N)
-
0
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 HYP-ALA-TRP-G5G-ALA-ALO-CYS
List of
interactions
HYP 1(N) to CYS 7(N)
also representing 2 other equivalent ligands:
HYP 1(O) to CYS 7(O)
HYP 1(P) to CYS 7(P)
_MG
×5
