2024-11-06 REL PDBj PDBj PDBj 2022-12-21 2023-12-27 2023-12-27 2024-11-06 Other government IBS-R030-C1 Korea, Republic Of Cryo-EM structure of human TMEM87A, gluconate-bound Han A Kim HM non-selective cation channel, ion channel, membrane protein, Golgi-localized protein Kang H Han AR Zhang A Jeong H Koh W Lee JM Lee H Jo HY Maria-Solano MA Bhalla M Kwon J Roh WS Yang J An HJ Choi S Kim HM Lee CJ GolpHCat (TMEM87A), a unique voltage-dependent cation channel in Golgi apparatus, contributes to Golgi-pH maintenance and hippocampus-dependent memory. Nat Commun UK 15 5830 5830 2024 38992057 doi:10.1038/s41467-024-49297-8 2041-1723 8htt FULLOVERLAP Transmembrane protein 87A with GFP tag and Twin-strep tag with gluconate Transmembrane protein 87A with GFP tag and Twin-strep tag with gluconate 0 1
Transmembrane protein 87A with GFP tag and Twin-strep tag with gluconate purified with detergent LMNG/CHS
Homo sapiens Transmembrane protein 87A,EGFP Human adenovirus 2 0.09796561699999999
The chimera of Transmembrane protein 87A, Linkers, EGFP and Tags
1 Homo sapiens LEVO MAAAAWLQVLPVILLLLGAHPSPLSFFSAGPATVAAADRSKWHIPIPSGKNYFSFGKILFRNTTIFLKFDGEPCDLSLNI TWYLKSADCYNEIYNFKAEEVELYLEKLKEKRGLSGKYQTSSKLFQNCSELFKTQTFSGDFMHRLPLLGEKQEAKENGTN LTFIGDKTAMHEPLQTWQDAPYIFIVHIGISSSKESSKENSLSNLFTMTVEVKGPYEYLTLEDYPLMIFFMVMCIVYVLF GVLWLAWSACYWRDLLRIQFWIGAVIFLGMLEKAVFYAEFQNIRYKGESVQGALILAELLSAVKRSLARTLVIIVSLGYG IVKPRLGVTLHKVVVAGALYLLFSGMEGVLRVTGAQTDLASLAFIPLAFLDTALCWWIFISLTQTMKLLKLRRNIVKLSL YRHFTNTLILAVAASIVFIIWTTMKFRIVTCQSDWRELWVDDAIWRLLFSMILFVIMVLWRPSANNQRFAFSPLSEEEEE DEQKEPMLKESFEGMKMRSTKQEPNGNSKVNKAQEDDLKWVEENVPSSVTDVALPALLDSDEERMITHFERSKMELKENL YFQGGTLEVLFQGPNPAFLYKVVDPVVSKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLP VPWPTLVTTLTYGVQCFSRYPDHMKQHDFFKSAMPEGYVQERTIFFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDG NILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEK RDHMVLLEFVTAAGITLGMDELYKEFLVPRGSSRSAWSHPQFEKGGGSGGGSGGSAWSHPQFEK Q8NBN3 A0A6M5E0N3 D-gluconic acid 0.000196155 1 GCO singleParticle particle 0.7 9.0 50.0 HEPES 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid 250.0 NaCl Sodium Chloride 0.01 LMNG lauryl maltose neopentyl glycol 0.002 CHS Cholesteryl hemisuccinate
50mM HEPES pH 7.5, 250mM NaCl, 0.01% (w/v) LMNG, 0.002% (w/v) CHS
 Quantifoil R1.2/1.3 COPPER 200 CARBON HOLEY ETHANE 100 277 FEI VITROBOT MARK IV
This sample was monodisperse
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 0.8 1.9000000000000001 105000.0 58900.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 10.0 GIF Bioquantum 20
Using Zemlin tableau in sherpa
GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 1 13099 6.14 68.15 1 6035205
The previous model was used as a template for particle picking. 2D class average images were generated as templates for subsequent reference-based auto-picking.
 8HSI 1 C1 FOURIER SPACE 3.6 FSC 0.143 CUT-OFF cryoSPARC 3.3.2 Local refinement
Non-uniform refinement and CTF refinement were used to improve the particle alignment and map quality.
201915 RANDOM ASSIGNMENT cryoSPARC 3.3.2 Ab-intio reconstruction MAXIMUM LIKELIHOOD cryoSPARC 3.3.2 Non-uniform refinement 6 513049.0 cryoSPARC 3.3.2 Hetero refinement emd_35017.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 271.68 271.68 271.68 90.0 90.0 90.0 X Y Z -0.29120538 0.5151153 -0.000303486 0.009581631 0.849 0.849 0.849 0.101 AUTHOR RIGID BODY FIT
Chimera Fit in map tool was used for initial local fitting. Then, Real-space refinement with the rigid body option in PHENIX was used for flexible fitting.
REAL 40.0 emd_35017_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 271.68 271.68 271.68 90.0 90.0 90.0 X Y Z -0.35848618 0.6464458 0.00034604268 0.035090398 0.849 0.849 0.849 AUTHOR emd_35017_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 271.68 271.68 271.68 90.0 90.0 90.0 X Y Z -0.34022468 0.6486061 0.0003438516 0.03492411 0.849 0.849 0.849 AUTHOR