2025-01-29 REL PDBj PDBj PDBj 2023-11-04 2024-11-06 2024-11-06 2025-01-29 Department of Biotechnology (DBT, India) DBT/PR12422/MED/31/287/204 India Other government RTI4006 India Agence Nationale de la Recherche (ANR) ANR-20-CE11-0019 France Human FL Metabotropic glutamate receptor 5, mGlu5-5M with quisqualate and VU0424465, conformer 1 Vinothkumar KR Lebon G Cannone G G-PROTEIN COUPLED RECEPTORS, SIGNAL TRANSDUCTION, METABOTROPIC GLUTAMATE RECEPTOR, Agonist, active state, MEMBRANE PROTEIN Cannone G Berto L Malhaire F Ferguson G Fouillen A Balor S Font-Ingles J Llebaria A Goudet C Kotecha A K R V Lebon G Conformational diversity in class C GPCR positive allosteric modulation. Nat Commun UK 16 619 619 2025 39805839 doi:10.1038/s41467-024-55439-9 2041-1723 EMD-37973 other EM volume
Similar sample collected with K3
 EMD-37975 other EM volume
confomer 2 of the same data, from which this data was collected
 EMD-37976 other EM volume
Mutant W785A with same ligands
 EMD-37977 other EM volume
Receptor with different PAM
 EMD-37978 other EM volume
Receptor purified with different PAM
 8x0c FULLOVERLAP Human FL Metabotropic glutamate receptor 5, mGlu5-5M with Quiaqualate and VU0424465 Human FL Metabotropic glutamate receptor 5, mGlu5-5M with Quiaqualate and VU0424465 0 1
Receptor is purified in detergent micelles and monodisperse. The receptor is purified with 10 uM Quisqualate and 10 uM PAM VU0424465
Homo sapiens 0.2 Metabotropic glutamate receptor 5 Homo sapiens 0.09369149199999999
The construct has tags and protease cleavage site at its N-term (DYKDDDDKHHHHHHHHHHLEVLFQGP) and when compared to uniprot it starts at 21 and ends at 856. For CryoEM, the tag is cleaved and the protein used for experiment starts at QSSE but residues starting RR have been modeled. There are 5 thermostabilising mutations (T742A, S753A, T777A, I799A, A813L). Residue N445 is mutated to remove glycosylation. An additional mutation H350L is engineered for a nanobody to bind. Each monomer has one sugar modelled and 10 disulfide bonds.
2 Homo sapiens LEVO QSSERRVVAHMPGDIIIGALFSVHHQPTVDKVHERKCGAVREQYGIQRVEAMLHTLERINSDPTLLPNITLGCEIRDSCW HSAVALEQSIEFIRDSLISSEEEEGLVRCVDGSSSSFRSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSMDLS DKTLFKYFMRVVPSDAQQARAMVDIVKRYNWTYVSAVHTEGNYGESGMEAFKDMSAKEGICIAHSYKIYSNAGEQSFDKL LKKLTSHLPKARVVACFCEGMTVRGLLMAMRRLGLAGEFLLLGSDGWADRYDVTDGYQREAVGGITIKLQSPDVKWFDDY YLKLRPETNLRNPWFQEFWQHRFQCRLEGFPQENSKYNKTCNSSLTLKTHHVQDSKMGFVINAIYSMAYGLHNMQMSLCP GYAGLCDAMKPIDGRKLLESLMKTAFTGVSGDTILFDENGDSPGRYEIMNFKEMGKDYFDYINVGSWDNGELKMDDDEVW SKKSNIIRSVCSEPCEKGQIKVIRKGEVSCCWTCTPCKENEYVFDEYTCKACQLGSWPTDDLTGCDLIPVQYLRWGDPEP IAAVVFACLGLLATLFVTVVFIIYRDTPVVKSSSRELCYIILAGICLGYLCTFCLIAKPKQIYCYLQRIGIGLSPAMSYS ALVTKTNRIARILAGSKKKICTKKPRFMSACAQLVIAFILICIQLGIIVALFIMEPPDIMHDYPSIREVYLICNTTNLGV VAPLGYNGLLILACTFYAFKTRNVPANFNEAKYIAFAMYTTCIIWLAFVPIYFGSNYKAITMCFSVSLSATVLLGCMFVP KVYIILAKPERNVRSAFTTSTVVRMHVGDGKSSSAA P41594 2-acetamido-2-deoxy-beta-D-glucopyranose 0.000221208 2 NAG (S)-2-AMINO-3-(3,5-DIOXO-[1,2,4]OXADIAZOLIDIN-2-YL)-PROPIONIC ACID 0.000189126 2 QUS VU0424465 0.000326365 2 XQT singleParticle particle 6 7.4 25.0 HEPES 150.0 sodium chloride 0.03 dodecyl maltoside 0.006 cholesterol hemisuccinate Quantifoil R0.6/1 GOLD 300 CARBON HOLEY PLASMA CLEANING OTHER ETHANE 100 283 FEI VITROBOT MARK IV
Blotting time was 5 seconds, blot force of 10.
Receptor is purified in detergent micelles and monodisperse. The receptor is purified with 10 uM Quisqualate and 10 uM PAM VU0424465
 FEI TITAN KRIOS SPOT SCAN BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.5 1.2 165000.0 192572.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN
Data was collected with fringe-free imaging and aberration-free image shift. Selectris detector was used in EFTEM mode.
FEI FALCON IV (4k x 4k) 4096 4096 1 19115 4.9 50.0
Electron flux was 5.4 /e/A2/s. No. of frames 1566
 1 4481289 1 C1 BACK PROJECTION 3.2 FSC 0.143 CUT-OFF cryoSPARC 4.3.0 92933 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD cryoSPARC emd_37974.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 261.78305 261.78305 261.78305 90.0 90.0 90.0 X Y Z -1.2297952 1.882831 0.001249999 0.064112894 1.02259 1.02259 1.02259 0.23 AUTHOR combined map sharpened with B=-4 D_1300042377 A Other other
This model is derived from the deposition ID
 OTHER RECIPROCAL 38.899999999999999 emd_37974_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 261.78305 261.78305 261.78305 90.0 90.0 90.0 X Y Z -0.0018118711 2.160103 0.0014771182 0.02831285 1.02259 1.02259 1.02259 AUTHOR DeepEMhancer map used in model building. emd_37974_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 261.78305 261.78305 261.78305 90.0 90.0 90.0 X Y Z -0.7962532 1.269973 0.0012558899 0.10276478 1.02259 1.02259 1.02259 AUTHOR One of the half-maps from cryosparc emd_37974_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 261.78305 261.78305 261.78305 90.0 90.0 90.0 X Y Z -0.8115375 1.297823 0.0012429019 0.10256482 1.02259 1.02259 1.02259 AUTHOR One of the half-maps from cryosparc