REL PDBe PDBe PDBe 2014-04-25 2014-05-28 2014-12-17 2016-02-17 3D EM map of the sodium proton antiporter MjNhaP1 from Methanocaldococcus jannaschii Paulino C Woehlert D Yildiz O Kuhlbrandt W membrane protein, antiporter, transporter, exchanger, CPA Paulino C Woehlert D Kapotova E Yildiz O Kuhlbrandt W Structure and transport mechanism of the sodium/proton antiporter MjNhaP1. ELIFE 3 e03583 e03583 2014 25426803 doi:10.7554/eLife.03583 4d0a FULLOVERLAP 3D EM map of the sodium/proton antiporter MjNhaP1 3D EM map of the sodium/proton antiporter MjNhaP1
protein was purified in absence of sodium.
Dimer 1 0.046 0.046 SDS-PAGE, MS MjNhaP1 Methanocaldococcus jannaschii Methanocaldococcus jannaschii Plasma membrane 0.046 0.046 2 Dimer true Escherichia coli BL21(DE3) pET26b Q60362 GO:0006810 GO:0006811 GO:0006812 GO:0006814 GO:0055085 GO:1902600 GO:0015297 GO:0015299 GO:0042802 GO:0005886 GO:0016020 GO:0016021 IPR006153 electronCrystallography twoDArray 1 4.0
25mM KAc pH4, 200mM KCl, 5mM glycerol, 5mM MPD
 NEGATIVE
back injection method with 4% trehalose
400 mesh copper grid
 NITROGEN 20 77 OTHER
all buffers used were sodium-free
sample was plunge-frozen in liquid nitrogen back injection method (Wang & Kuhlbrandt, 1991) with 4% trehalose
E.coli polar lipids with a lipid-to-protein ration (LPR) of 0.4-0.5 were used. 2D crystals were grown by slow removal of detergent (0.15% DM) by dialysis.
E.coli polar lipids with a lipid-to-protein ration (LPR) of 0.4-0.5 were used. 2D crystals were grown by slow removal of detergent (0.15% DM) by dialysis.
 JEOL 3000SFF SPOT SCAN OTHER FIELD EMISSION GUN 300 1.6 0.12 1.8 60000.0 53000.0 JEOL 4 10 4 objective lens was corrected at 60kx and/or 300kx magnification - - 2012-12-01 KODAK SO-163 FILM ZEISS SCAI 7 128 25 helium-cooled top entry stage with fixed specimen holder. 0 45 0 45
Images were processed with the 2dx software.
6.0 OTHER 2dx
6A in plane resolution and 14A resolution in the z direction.
 81.5 103.3 200 90.0 90.0 90.0 P 2 21 21
2dx
 emd_2636.map.gz 18 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 201 82 103 -100 0 -51 104 80 200 81.5 103.30008 200.0 90.0 90.0 90.0 Z X Y -275.961944580000022 361.103149410000015 0.1016627 50.196964260000001 1.01875 0.99327 1.0 1.8 AUTHOR A B-factor of -200 was applied.
::::EMDATABANK.org::::EMD-2636::::
 4czb B RIGID BODY FIT Coot
The X-ray structure of the same protein (4czb) obtained at different conditions was manually fitted to the 3D EM density map.
REAL
emd_2636.png