SMTL ID : 7u5h.1

Cryo-EM Structure of DNPEP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-12-mer

Ligands

24 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.90, D.260, E.298, H.436 Ligands: ZN.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.260, A:E.298, A:E.298, A:H.436 ZN.2: 6 residues within 4Å: Chain A: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.90, A:D.260, A:D.342, A:D.342 ZN.3: 5 residues within 4Å: Chain B: H.90, D.260, E.298, H.436 Ligands: ZN.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.260, B:E.298, B:E.298, B:H.436 ZN.4: 6 residues within 4Å: Chain B: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.3 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.90, B:D.260, B:D.342, B:D.342 ZN.5: 5 residues within 4Å: Chain C: H.90, D.260, E.298, H.436 Ligands: ZN.6 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.260, C:E.298, C:E.298, C:H.436 ZN.6: 6 residues within 4Å: Chain C: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.5 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.90, C:D.260, C:D.342, C:D.342 ZN.7: 5 residues within 4Å: Chain D: H.90, D.260, E.298, H.436 Ligands: ZN.8 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.260, D:E.298, D:E.298, D:H.436 ZN.8: 6 residues within 4Å: Chain D: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.7 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.90, D:D.260, D:D.342, D:D.342 ZN.9: 5 residues within 4Å: Chain E: H.90, D.260, E.298, H.436 Ligands: ZN.10 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:D.260, E:E.298, E:E.298, E:H.436 ZN.10: 6 residues within 4Å: Chain E: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.9 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:H.90, E:D.260, E:D.342, E:D.342 ZN.11: 5 residues within 4Å: Chain F: H.90, D.260, E.298, H.436 Ligands: ZN.12 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:D.260, F:E.298, F:E.298, F:H.436 ZN.12: 6 residues within 4Å: Chain F: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.11 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:H.90, F:D.260, F:D.342, F:D.342 ZN.13: 5 residues within 4Å: Chain G: H.90, D.260, E.298, H.436 Ligands: ZN.14 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:D.260, G:E.298, G:E.298, G:H.436 ZN.14: 6 residues within 4Å: Chain G: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.13 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:H.90, G:D.260, G:D.342, G:D.342 ZN.15: 5 residues within 4Å: Chain H: H.90, D.260, E.298, H.436 Ligands: ZN.16 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:D.260, H:E.298, H:E.298, H:H.436 ZN.16: 6 residues within 4Å: Chain H: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.15 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:H.90, H:D.260, H:D.342, H:D.342 ZN.17: 5 residues within 4Å: Chain I: H.90, D.260, E.298, H.436 Ligands: ZN.18 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:D.260, I:E.298, I:E.298, I:H.436 ZN.18: 6 residues within 4Å: Chain I: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.17 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:H.90, I:D.260, I:D.342, I:D.342 ZN.19: 5 residues within 4Å: Chain J: H.90, D.260, E.298, H.436 Ligands: ZN.20 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:D.260, J:E.298, J:E.298, J:H.436 ZN.20: 6 residues within 4Å: Chain J: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.19 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:H.90, J:D.260, J:D.342, J:D.342 ZN.21: 5 residues within 4Å: Chain K: H.90, D.260, E.298, H.436 Ligands: ZN.22 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:D.260, K:E.298, K:E.298, K:H.436 ZN.22: 6 residues within 4Å: Chain K: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.21 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:H.90, K:D.260, K:D.342, K:D.342 ZN.23: 5 residues within 4Å: Chain L: H.90, D.260, E.298, H.436 Ligands: ZN.24 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:D.260, L:E.298, L:E.298, L:H.436 ZN.24: 6 residues within 4Å: Chain L: H.90, D.260, N.261, E.298, D.342 Ligands: ZN.23 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:H.90, L:D.260, L:D.342, L:D.342

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Morgan, C.E. et al., Toward structural-omics of the bovine retinal pigment epithelium. Cell Rep (2022)

Release Date

2022-12-14

Peptides

Aspartyl aminopeptidase: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

Aspartyl aminopeptidase