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Yorodumi- EMDB-28747: Cryo-EM local map covering Gea2 protomer A HDS domains from the S... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-28747 | |||||||||
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Title | Cryo-EM local map covering Gea2 protomer A HDS domains from the S. cerevisiae Arf-like protein Arl1 bound to its effector guanine nucleotide exchange factor Gea2 protein complex | |||||||||
Map data | ||||||||||
Sample |
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Keywords | small GTPase / guanine nucleotide exchange factor / membrane trafficking / lipid flippase / trans-Golgi network / protein transport / LIPID TRANSPORT | |||||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.8 Å | |||||||||
Authors | Duan HD / Li H | |||||||||
Funding support | United States, 1 items
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Citation | Journal: To Be Published Title: Structural insights into the recruitment of ArfGEF Gea2 by Arl1 to the Drs2-localizing trans-Golgi network Authors: Duan HD / Li H | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_28747.map.gz | 422.2 MB | EMDB map data format | |
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Header (meta data) | emd-28747-v30.xml emd-28747.xml | 14.7 KB 14.7 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_28747_fsc.xml | 17 KB | Display | FSC data file |
Images | emd_28747.png | 50.8 KB | ||
Filedesc metadata | emd-28747.cif.gz | 5.8 KB | ||
Others | emd_28747_half_map_1.map.gz emd_28747_half_map_2.map.gz | 474.3 MB 474.3 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-28747 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-28747 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_28747.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.828 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_28747_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_28747_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Gea2 homodimer in complex with two Arl1 monomers
Entire | Name: Gea2 homodimer in complex with two Arl1 monomers |
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Components |
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-Supramolecule #1: Gea2 homodimer in complex with two Arl1 monomers
Supramolecule | Name: Gea2 homodimer in complex with two Arl1 monomers / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Saccharomyces cerevisiae (brewer's yeast) |
-Macromolecule #1: ARF guanine-nucleotide exchange factor 2
Macromolecule | Name: ARF guanine-nucleotide exchange factor 2 / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Saccharomyces cerevisiae (brewer's yeast) |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MHHHHHHSSG VDLGTENLYF QSNAMSDREF VTVDPVTIII KECINLSTAM RKYSKFTSQS GVAALLGGGS EIFSNQDDYL AHTFNNLNT NKHNDPFLSG FIQLRLMLNK LKNLDNIDSL TILQPFLLIV STSSISGYIT SLALDSLQKF FTLNIINESS Q NYIGAHRA ...String: MHHHHHHSSG VDLGTENLYF QSNAMSDREF VTVDPVTIII KECINLSTAM RKYSKFTSQS GVAALLGGGS EIFSNQDDYL AHTFNNLNT NKHNDPFLSG FIQLRLMLNK LKNLDNIDSL TILQPFLLIV STSSISGYIT SLALDSLQKF FTLNIINESS Q NYIGAHRA TVNALTHCRF EGSQQLSDDS VLLKVVFLLR SIVDSPYGDL LSNSIIYDVL QTILSLACNN RRSEVLRNAA QS TMIAVTV KIFSKLKTIE PVNVNQIYIN DESYTNDVLK ADTIGTNVES KEEGSQEDPI GMKVNNEEAI SEDDGIEEEH IHS EKSTNG AEQLDIVQKT TRSNSRIQAY ADDNYGLPVV RQYLNLLLSL IAPENELKHS YSTRIFGLEL IQTALEISGD RLQL YPRLF TLISDPIFKS ILFIIQNTTK LSLLQATLQL FTTLVVILGN NLQLQIELTL TRIFSILLDD GTANNSSSEN KNKPS IIKE LLIEQISILW TRSPSFFTST FINFDCNLDR ADVSINFLKA LTKLALPESA LTTTESVPPI CLEGLVSLVD DMFDHM KDI DREEFGRQKN EMEILKKRDR KTEFIECTNA FNEKPKKGIP MLIEKGFIAS DSDKDIAEFL FNNNNRMNKK TIGLLLC HP DKVSLLNEYI RLFDFSGLRV DEAIRILLTK FRLPGESQQI ERIIEAFSSA YCENQDYDPS KISDNAEDDI STVQPDAD S VFILSYSIIM LNTDLHNPQV KEHMSFEDYS GNLKGCCNHK DFPFWYLDRI YCSIRDKEIV MPEEHHGNEK WFEDAWNNL ISSTTVITEI KKDTQSVMDK LTPLELLNFD RAIFKQVGPS IVSTLFNIYV VASDDHISTR MITSLDKCSY ISAFFDFKDL FNDILNSIA KGTTLINSSH DDELSTLAFE YGPMPLVQIK FEDTNTEIPV STDAVRFGRS FKGQLNTVVF FRIIRRNKDP K IFSKELWL NIVNIILTLY EDLILSPDIF PDLQKRLKLS NLPKPSPEIS INKSKESKGL LSTFASYLKG DEEPTEEEIK SS KKAMECI KSSNIAASVF GNESNITADL IKTLLDSAKT EKNADNSRYF EAELLFIIEL TIALFLFCKE EKELGKFILQ KVF QLSHTK GLTKRTVRRM LTYKILLISL CADQTEYLSK LINDELLKKG DIFTQKFFAT NQGKEFLKRL FSLTESEFYR GFLL GNENF WKFLRKVTAM KEQSESIFEY LNESIKTDSN ILTNENFMWV LGLLDEISSM GAVGNHWEIE YKKLTESGHK IDKEN PYKK SIELSLKSIQ LTSHLLEDNN DLRKNEIFAI IQALAHQCIN PCKQISEFAV VTLEQTLINK IEIPTNEMES VEELIE GGL LPLLNSSETQ EDQKILISSI LTIISNVYLH YLKLGKTSNE TFLKILSIFN KFVEDSDIEK KLQQLILDKK SIEKGNG SS SHGSAHEQTP ESNDVEIEAT APIDDNTDDD NKPKLSDVEK D |
-Macromolecule #2: ADP-ribosylation factor-like protein 1
Macromolecule | Name: ADP-ribosylation factor-like protein 1 / type: protein_or_peptide / ID: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Saccharomyces cerevisiae (brewer's yeast) |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: ELRILILGLD GAGKTTILYR LQIGEVVTTK PTIGFNVETL SYKNLKLNVW DLGGLTSIRP YWRCYYADTA AVIFVVDSTD KDRMSTASK ELHLMLQEEE LQDAALLVFA NKQDQPGALS ASEVSKELNL VELKDRSWSI VASSAIKGEG ITEGLDWLID V IKEEQLAG ENLYFQSAGH HHHHH |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 1.7 µm / Nominal defocus min: 1.3 µm |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 69.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |