7ZG7

Structure of human Apoferritin obtained from ssDNA coated grid


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.77 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Polyelectrolyte coating of cryo-EM grids improves lateral distribution and prevents aggregation of macromolecules.

Hrebik, D.Gondova, M.Valentova, L.Fuzik, T.Pridal, A.Novacek, J.Plevka, P.

(2022) Acta Crystallogr D Struct Biol 78: 1337-1346

  • DOI: 10.1107/S2059798322009299
  • Primary Citation of Related Structures:  
    7ZE1, 7ZFW, 7ZG7

  • PubMed Abstract: 
  • Cryo-electron microscopy (cryo-EM) is one of the primary methods used to determine the structures of macromolecules and their complexes. With the increased availability of cryo-electron microscopes, the preparation of high-quality samples has become a bottleneck in the cryo-EM structure-determination pipeline ...

    Cryo-electron microscopy (cryo-EM) is one of the primary methods used to determine the structures of macromolecules and their complexes. With the increased availability of cryo-electron microscopes, the preparation of high-quality samples has become a bottleneck in the cryo-EM structure-determination pipeline. Macromolecules can be damaged during the purification or preparation of vitrified samples for cryo-EM, making them prone to binding to the grid support, to aggregation or to the adoption of preferential orientations at the air-water interface. Here, it is shown that coating cryo-EM grids with a negatively charged polyelectrolyte, such as single-stranded DNA, before applying the sample reduces the aggregation of macromolecules and improves their distribution. The single-stranded DNA-coated grids enabled the determination of high-resolution structures from samples that aggregated on conventional grids. The polyelectrolyte coating reduces the diffusion of macromolecules and thus may limit the negative effects of the contact of macromolecules with the grid support and blotting paper, as well as of the shear forces on macromolecules during grid blotting. Coating grids with polyelectrolytes can readily be employed in any laboratory dealing with cryo-EM sample preparation, since it is fast, simple, inexpensive and does not require specialized equipment.


    Organizational Affiliation

    Central European Institute of Technology, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ferritin heavy chain
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X
172Homo sapiensMutation(s): 0 
Gene Names: FTH1FTHFTHL6OK/SW-cl.84PIG15
EC: 1.16.3.1
UniProt & NIH Common Fund Data Resources
Find proteins for P02794 (Homo sapiens)
Explore P02794 
Go to UniProtKB:  P02794
PHAROS:  P02794
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02794
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
AA [auth A],
AB [auth B],
AC [auth D],
AD [auth E],
AE [auth G],
AA [auth A],
AB [auth B],
AC [auth D],
AD [auth E],
AE [auth G],
AF [auth H],
AG [auth J],
AH [auth K],
AK [auth Q],
AL [auth R],
AM [auth T],
AN [auth V],
BA [auth A],
BC [auth D],
BD [auth E],
BF [auth H],
BG [auth J],
BH [auth L],
BI [auth M],
BJ [auth O],
BK [auth Q],
BL [auth R],
BO [auth W],
CA [auth A],
CB [auth B],
CC [auth D],
CE [auth G],
CG [auth J],
CH [auth L],
CI [auth M],
CJ [auth O],
CL [auth R],
CN [auth V],
CO [auth X],
DA [auth A],
DB [auth B],
DC [auth D],
DD [auth E],
DE [auth G],
DG [auth J],
DH [auth L],
DJ [auth O],
DK [auth Q],
DL [auth R],
DN [auth V],
DO [auth X],
EA [auth A],
EC [auth D],
ED [auth E],
EE [auth G],
EF [auth H],
EG [auth J],
EH [auth L],
EI [auth M],
EK [auth Q],
EM [auth T],
EN [auth V],
EO [auth X],
FC [auth D],
FE [auth G],
FF [auth H],
FG [auth J],
FH [auth L],
FJ [auth O],
FK [auth Q],
FL [auth R],
FM [auth T],
GB [auth B],
GC [auth D],
GF [auth I],
GG [auth J],
GH [auth L],
GJ [auth O],
GK [auth Q],
GL [auth S],
GM [auth T],
HA [auth A],
HB [auth B],
HD [auth E],
HE [auth G],
HF [auth I],
HG [auth J],
HI [auth M],
HL [auth S],
HM [auth T],
IA [auth A],
IB [auth C],
ID [auth E],
IE [auth G],
IF [auth I],
IG [auth J],
IJ [auth O],
IL [auth S],
IN [auth V],
IO [auth X],
JB [auth C],
JC [auth D],
JF [auth I],
JH [auth L],
JM [auth T],
JN [auth V],
JO [auth X],
KA [auth A],
KB [auth C],
KC [auth D],
KE [auth G],
KF [auth I],
KG [auth J],
KH [auth L],
KK [auth Q],
KM [auth U],
KN [auth V],
KO [auth X],
LA [auth A],
LB [auth C],
LF [auth I],
LG [auth K],
LI [auth N],
LJ [auth O],
LK [auth Q],
LM [auth U],
LN [auth V],
LO [auth X],
MB [auth C],
MC [auth D],
MD [auth F],
MG [auth K],
MH [auth L],
MI [auth N],
MJ [auth P],
MK [auth Q],
ML [auth S],
MM [auth U],
MO [auth X],
NB [auth C],
NC [auth D],
ND [auth F],
NE [auth G],
NG [auth K],
NH [auth L],
NI [auth N],
NJ [auth P],
NK [auth Q],
NL [auth S],
NN [auth V],
NO [auth X],
OA [auth A],
OB [auth C],
OD [auth F],
OE [auth H],
OF [auth I],
OI [auth N],
OJ [auth P],
OL [auth S],
ON [auth W],
PA [auth A],
PD [auth F],
PE [auth H],
PF [auth I],
PG [auth K],
PI [auth N],
PK [auth Q],
PL [auth S],
PN [auth W],
PO [auth X],
QA [auth B],
QC [auth D],
QD [auth F],
QE [auth H],
QG [auth K],
QH [auth L],
QI [auth N],
QK [auth R],
QL [auth S],
QM [auth U],
QN [auth W],
RA [auth B],
RB [auth C],
RC [auth D],
RD [auth F],
RE [auth H],
RF [auth I],
RG [auth K],
RH [auth L],
RI [auth N],
RK [auth R],
RL [auth S],
RM [auth U],
SA [auth B],
SB [auth C],
SC [auth E],
SD [auth F],
SE [auth H],
SF [auth I],
SG [auth K],
SH [auth M],
SI [auth N],
SJ [auth P],
SK [auth R],
SM [auth U],
TA [auth B],
TC [auth E],
TD [auth F],
TE [auth H],
TH [auth M],
TI [auth N],
TJ [auth P],
TL [auth S],
TM [auth U],
UA [auth B],
UB [auth C],
UC [auth E],
UD [auth F],
UE [auth H],
UG [auth K],
UH [auth M],
UJ [auth P],
UK [auth R],
UL [auth T],
UM [auth U],
UN [auth W],
VA [auth B],
VB [auth C],
VC [auth E],
VD [auth F],
VF [auth I],
VG [auth K],
VI [auth N],
VJ [auth P],
VK [auth R],
VL [auth T],
VM [auth U],
VN [auth W],
WA [auth B],
WC [auth E],
WF [auth I],
WH [auth M],
WI [auth O],
WJ [auth P],
WK [auth R],
WN [auth W],
XC [auth E],
XD [auth F],
XE [auth H],
XG [auth K],
XH [auth M],
XI [auth O],
XJ [auth P],
XL [auth T],
XM [auth U],
XN [auth W],
Y [auth A],
YB [auth C],
YD [auth G],
YE [auth H],
YH [auth M],
YI [auth O],
YL [auth T],
YM [auth V],
YN [auth W],
Z [auth A],
ZA [auth B],
ZB [auth C],
ZD [auth G],
ZH [auth M],
ZI [auth O],
ZJ [auth P],
ZL [auth T],
ZM [auth V],
ZN [auth W]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

Download Ideal Coordinates CCD File 
AI [auth M],
AJ [auth O],
AO [auth W],
BB [auth B],
BE [auth G],
AI [auth M],
AJ [auth O],
AO [auth W],
BB [auth B],
BE [auth G],
BM [auth T],
BN [auth V],
CD [auth E],
CF [auth H],
CK [auth Q],
CM [auth T],
DF [auth H],
DI [auth M],
DM [auth T],
EB [auth B],
EJ [auth O],
EL [auth R],
FA [auth A],
FB [auth B],
FD [auth E],
FI [auth M],
FN [auth V],
FO [auth X],
GA [auth A],
GD [auth E],
GE [auth G],
GI [auth M],
GN [auth V],
GO [auth X],
HC [auth D],
HH [auth L],
HJ [auth O],
HK [auth Q],
HN [auth V],
HO [auth X],
IC [auth D],
IH [auth L],
II [auth N],
IK [auth Q],
IM [auth T],
JA [auth A],
JD [auth F],
JE [auth G],
JG [auth J],
JI [auth N],
JJ [auth O],
JK [auth Q],
JL [auth S],
KD [auth F],
KI [auth N],
KJ [auth O],
KL [auth S],
LC [auth D],
LD [auth F],
LE [auth G],
LH [auth L],
LL [auth S],
MA [auth A],
ME [auth G],
MF [auth I],
MN [auth V],
NA [auth A],
NF [auth I],
NM [auth U],
OC [auth D],
OG [auth K],
OH [auth L],
OK [auth Q],
OM [auth U],
OO [auth X],
PB [auth C],
PC [auth D],
PH [auth L],
PJ [auth P],
PM [auth U],
QB [auth C],
QF [auth I],
QJ [auth P],
RJ [auth P],
RN [auth W],
SL [auth S],
SN [auth W],
TB [auth C],
TF [auth I],
TG [auth K],
TK [auth R],
TN [auth W],
UF [auth I],
UI [auth N],
VE [auth H],
VH [auth M],
WB [auth C],
WD [auth F],
WE [auth H],
WG [auth K],
WL [auth T],
WM [auth U],
XA [auth B],
XB [auth C],
XF [auth J],
XK [auth R],
YA [auth B],
YC [auth E],
YF [auth J],
YG [auth K],
YJ [auth P],
YK [auth R],
ZC [auth E],
ZE [auth H],
ZF [auth J],
ZG [auth K],
ZK [auth R]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.77 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Grant Agency of the Czech RepublicCzech Republic--

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-23
    Type: Initial release