+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-42946 | |||||||||
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Title | AgamOR28 structure bound to 2,4,5-trimethylthiazole | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Mosquito olfactory receptor / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information olfactory receptor activity / detection of chemical stimulus involved in sensory perception of smell / odorant binding / signal transduction / identical protein binding / plasma membrane Similarity search - Function | |||||||||
Biological species | Anopheles gambiae (African malaria mosquito) / Apocrypta bakeri (insect) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.95 Å | |||||||||
Authors | Zhao J / del Marmol J | |||||||||
Funding support | United States, 2 items
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Citation | Journal: Science / Year: 2024 Title: Structural basis of odor sensing by insect heteromeric odorant receptors Authors: Zhao J / Chen AQ / Ryu J / del Marmol J | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_42946.map.gz | 49.7 MB | EMDB map data format | |
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Header (meta data) | emd-42946-v30.xml emd-42946.xml | 15.9 KB 15.9 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_42946_fsc.xml | 7.9 KB | Display | FSC data file |
Images | emd_42946.png | 138.5 KB | ||
Filedesc metadata | emd-42946.cif.gz | 5.9 KB | ||
Others | emd_42946_half_map_1.map.gz emd_42946_half_map_2.map.gz | 49 MB 49 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-42946 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-42946 | HTTPS FTP |
-Related structure data
Related structure data | 8v3dMC 8v00C 8v02C 8v3cC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_42946.map.gz / Format: CCP4 / Size: 52.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.061 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_42946_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_42946_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : AgamOR28 heterotetramer bound to 2,4,5-trimethylthiazole
Entire | Name: AgamOR28 heterotetramer bound to 2,4,5-trimethylthiazole |
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Components |
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-Supramolecule #1: AgamOR28 heterotetramer bound to 2,4,5-trimethylthiazole
Supramolecule | Name: AgamOR28 heterotetramer bound to 2,4,5-trimethylthiazole type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2 |
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-Supramolecule #2: Anopheles gambiae OR28
Supramolecule | Name: Anopheles gambiae OR28 / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #2 |
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Source (natural) | Organism: Anopheles gambiae (African malaria mosquito) |
-Supramolecule #3: Apocrypta bakeri Orco
Supramolecule | Name: Apocrypta bakeri Orco / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #1 |
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Source (natural) | Organism: Apocrypta bakeri (insect) |
-Macromolecule #1: Odorant receptor Orco
Macromolecule | Name: Odorant receptor Orco / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO |
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Source (natural) | Organism: Apocrypta bakeri (insect) |
Molecular weight | Theoretical: 53.204953 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MKFKHQGLVA DLLPNIRVMQ GVGHFMFNYY SEGKKFPHRI YCIVTLLLLL LQYGMMAVNL MMESDDVDDL TANTITMLFF LHPIVKMIY FPVRSKIFYK TLAIWNNPNS HPLFAESNAR FHALAITKMR RLLFCVAGAT IFSVISWTGI TFIEDSVKRI T DPETNETT ...String: MKFKHQGLVA DLLPNIRVMQ GVGHFMFNYY SEGKKFPHRI YCIVTLLLLL LQYGMMAVNL MMESDDVDDL TANTITMLFF LHPIVKMIY FPVRSKIFYK TLAIWNNPNS HPLFAESNAR FHALAITKMR RLLFCVAGAT IFSVISWTGI TFIEDSVKRI T DPETNETT IIPIPRLMIR TFYPFNAMSG AGHVFALIYQ FYYLVISMAV SNSLDVLFCS WLLFACEQLQ HLKAIMKPLM EL SATLDTV VPNSGELFKA GSADHLRESQ GVQPSGNGDN VLDVDLRGIY SNRQDFTATF RPTAGTTFNG GVGPNGLTKK QEM LVRSAI KYWVERHKHV VRLVTAVGDA YGVALLLHML TTTITLTLLA YQATKVNGVN VYAATVIGYL LYTLGQVFLF CIFG NRLIE ESSSVMEAAY SCHWYDGSEE AKTFVQIVCQ QCQKAMSISG AKFFTVSLDL FASVLGAVVT YFMVLVQLK UniProtKB: Odorant receptor |
-Macromolecule #2: OR28
Macromolecule | Name: OR28 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Anopheles gambiae (African malaria mosquito) |
Molecular weight | Theoretical: 45.826898 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MARLVLHEVR YVLMAMLYIS RGMAKQIQNS TIDLYVYWFL TFIPIASLCV PQFTYLVVDT KSLIDFISVL VPITEILLTN GKMIICNVK RGKIINLINQ VQVAWDECAK SEHLEIQTLI TATAKKTKIF VIIYTTSFLL ICVEYSSMPL FKLIYHSAVY G KQSNYTIA ...String: MARLVLHEVR YVLMAMLYIS RGMAKQIQNS TIDLYVYWFL TFIPIASLCV PQFTYLVVDT KSLIDFISVL VPITEILLTN GKMIICNVK RGKIINLINQ VQVAWDECAK SEHLEIQTLI TATAKKTKIF VIIYTTSFLL ICVEYSSMPL FKLIYHSAVY G KQSNYTIA LPYLSRFAYS TESTTSFAWT YFFILLGVYL LALTLSGFDS LFATLVMHVK MMFKVLKFEI EQLGLDLSAG KS HVELQAK LKQIILKHKT NLSLIEQLED GFSFFLMAQF LTSSILVCVV LYELTMVFGW NEDTFKTVTY LPGAILQLFL FCW YAQQIT EEARLVSDHI YNIPWYLADP KLQKDILTFM VKAQKPTGVT ASKFYMVTLQ TFQRISSTSY SYFTLLQTIN QQ UniProtKB: Uncharacterized protein |
-Macromolecule #3: 2,4,5-trimethyl-1,3-thiazole
Macromolecule | Name: 2,4,5-trimethyl-1,3-thiazole / type: ligand / ID: 3 / Number of copies: 1 / Formula: A1AFC |
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Molecular weight | Theoretical: 127.207 Da |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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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: 2.0 µm / Nominal defocus min: 1.0 µm |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |