Table 1 EMDataBank (EMDB) entries having single-particle cryo-EM 3D reconstruction with
bound ligands at 2.5 Å or better resolution and their corresponding PDB codes
EMDB
entry ID
(deposition
date)
Resolution
(Å)
Fitted
PDBs
Components
Protein
Ligand
EMD-2984
(April 26,
2015)
2.2
5a1a
E.coli
beta-galactosidase
(0.465 MDa)
Phenylethyl
beta-D-thiogalactopyranoside
(PETG)
EMD-3295
(January
12, 2016)
2.3
5ftj
Homo sapiens p97/VCP
Transitional
endoplasmic reticulum
ATPase (0.54 MDa)
UPCDC30245 (an allosteric
inhibitor of VCP)
EMD-7025
(September
9, 2017)
2.5
6az3
Leishmania donovani
91s ribosome LSU
Paromomycin
EMD-7770
(March 28,
2018)
1.9
6cvm
E. coli
beta-galactosidase
(0.465 MDa)
PETG
EMD-7638
(March 27,
2018)
2.43
6cvb
Enterovirus D68 (virus
from Homo sapiens)
vp1 (0.0330 MDa), vp3
(0.0272 MDa), vp2
(0.0276 MDa, vp4
(0.00734 MDa)
Glycan. 6′sialyl-N-acetyllactosamine
EMD-7599
(March 20,
2018)
2.17
6csg
Enterovirus D68 vp1
(0.0329 MDa), vp3
(0.0271 MDa), vp2
(0.0276 MDa), vp4
(0.00734 MDa)
No bound inhibitor
EMD-8194
(May 17,
2016)
1.8
5k12
Bos taurus Glutamate
dehydrogenase (0.334
MDa, 0.0616 MDa)
No bound inhibitor
EMD-8762
(June 8,
2017)
2.26
5w3m Human rhinovirus B14
C5 antibody variable
heavy domain (0.0120
MDa), C5 antibody
variable light domain
(0.0109 MDa), vp1
(0.0326 MDa), vp3
(0.0262 MDa), vp2
(0.0285 MDa), vp4
(0.00718 MDa)
No bound inhibitor
EMD-9012
(July 31,
2018)
1.86
6e9d
Adeno-associated virus
- 2 (3.9 MDa), empty
virus from Homo
sapiens VP1 (0.0820
MDa)
No bound inhibitor
378
R. Natesh