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PDBsum entry 6pmd
Go to PDB code:
Ligand/metal interactions
PDB id
6pmd
11 instances of ligand highlighted
SHV-WFP-SER-PRO-
YCP-ALA-MP8
Ligands
SHV-WFP-SER-PRO-
YCP-ALA-MP8
×11
SHV 1(H) to MP8 7(H)
SHV 1(R) to MP8 7(R)
MPD
×14
MPD 400(A)
Ligand
SHV-WFP-SER-PRO-YCP-ALA-MP8
SHV
-
Heptanoic acid
Formula:
C
7
H
14
O
2
WFP
-
3,5-Difluoro-L-Phenylalanine
Formula:
C
9
H
9
F
2
NO
2
YCP
-
(2s)-Piperidine-2-Carboxylic acid
Formula:
C
6
H
11
NO
2
MP8
-
(4r)-4-Methyl-L-Proline
Formula:
C
6
H
11
NO
2
Validation of ligand annotation
Per Residue Validation
Atoms
Missing
Incorrect Chiral Centres
Residue
Dic.
Struc.
Link
Subs.
Atoms
Rings
Planar
High
C
Other
SHV 1(R)
9
9
1
1
0
0
0
0
0
0
WFP 2(R)
14
14
1
1
0
0
0
0
0
0
SER 3(R)
7
6
0
0
1
0
-
-
-
-
PRO 4(R)
8
8
1
1
0
0
0
0
0
0
YCP 5(R)
9
9
1
1
0
0
0
0
0
0
ALA 6(R)
6
-
-
-
-
-
-
-
-
-
MP8 7(R)
9
9
1
0
0
0
0
0
0
0
Advanced Analysis
Residue
Name Mismatches
Count
SHV 1(R)
-
0
WFP 2(R)
-
0
SER 3(R)
CB: C
|
OG: O
|
C: CB
|
O: OG
4
PRO 4(R)
-
0
YCP 5(R)
-
0
ALA 6(R)
-
0
MP8 7(R)
O: OXT
1
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 SHV-WFP-SER-PRO-YCP-ALA-MP8
List of
interactions
SHV 1(R) to MP8 7(R)
