Cryo-EM structure of the human BRISC dimer complex bound to compound JMS-175-2

2025-08-20 REL PDBe INITIAL_RELEASE REPOSITORY DATABASE_REFERENCES citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _em_admin.last_update PDBe PDBe 2023-07-24 2025-02-05 2025-02-05 2025-08-20 Wellcome Trust 219997/Z/19/Z United Kingdom Wellcome Trust United Kingdom Cryo-EM structure of the human BRISC dimer complex bound to compound JMS-175-2 Chandler F Zeqiraj E BRISC, BRCC36, deubiquitylase, inhibitor, complex, SIGNALING PROTEIN Chandler F Reddy PAN Bhutda S Ross RL Datta A Walden M Walker K Di Donato S Cassel JA Prakesch MA Aman A Datti A Campbell LJ Foglizzo M Bell L Stein DN Ault JR Al-Awar RS Calabrese AN Sicheri F Del Galdo F Salvino JM Greenberg RA Zeqiraj E Molecular glues that inhibit deubiquitylase activity and inflammatory signaling. Nat.Struct.Mol.Biol. US 2025 40097626 doi:10.1038/s41594-025-01517-5 1545-9985 EMD-17980 other EM volume

the same protein complex with ligand FX-171-C

8py2 FULLOVERLAP PDB 8PVY unspecified

the same protein complex with ligand FX-171-C

EMDB EMD-17980 other EM volume

the same protein complex with ligand FX-171-C

EMDB EMD-18009 associated EM volume

Cryo-EM structure of the human BRISC dimer complex bound to compound JMS-175-2

BRISC dimer in complex with inhibitor JMS-175-2 BRISC dimer in complex with inhibitor JMS-175-2 0 1 2 3 4 Homo sapiens 0.654 Lys-63-specific deubiquitinase BRCC36 Homo sapiens 0.036119917999999994 4 Spodoptera frugiperda LEVO MAVQVVQAVQAVHLESDAFLVCLNHALSTEKEEVMGLCIGELNDDTRSDSKFAYTGTEMRTVAEKVDAVRIVHIHSVIIL RRSDKRKDRVEISPEQLSAASTEAERLAELTGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDQGFVGLIFSCFIED KNTKTGRVLYTCFQSIQAQKSSESLHGPRDFWSSSQHISIEGQKEEERYERIEIPIHIVPHVTIGKVCLESAVELPKILC QEEQDAYRRIHSLTHLDSVTKIHNGSVFTKNLCSQMSAVSGPLLQWLEDRLEQNQQHLQELQQEKEELMQELSSLE P46736 3.4.19.- BRISC complex subunit Abraxas 2 Homo sapiens 0.031033944999999997 4 Spodoptera frugiperda LEVO MAASISGYTFSAVCFHSANSNADHEGFLLGEVRQEETFSISDSQISNTEFLQVIEIHNHQPCSKLFSFYDYASKVNEESL DRILKDRRKKVIGWYRFRRNTQQQMSYREQVLHKQLTRILGVPDLVFLLFSFISTANNSTHALEYVLFRPNRRYNQRISL AIPNLGNTSQQEYKVSSVPNTSQSYAKVIKEHGTDFFDKDGVMKDIRAIYQVYNALQEKVQAVCADVEKSERVVESCQAE VNKLRRQITQRKNEKEQERRLQQAVLS Q15018 BRISC and BRCA1-A complex member 2 Homo sapiens 0.043721602 4 Spodoptera frugiperda LEVO GAMSPEVALNRISPMLSPFISSVVRNGKVGLDATNCLRITDLKSGCTSLTPGPNCDRFKLHIPYAGETLKWDIIFNAQYP ELPPDFIFGEDAEFLPDPSALQNLASWNPSNPECLLLVVKELVQQYHQFQCSRLRESSRLMFEYQTLLEEPQYGENMEIY AGKKNNWTGEFSARFLLKLPVDFSNIPTYLLKDVNEDPGEDVALLSVSFEDTEATQVYPKLYLSPRIEHALGGSSALHIP AFPGGGCLIDYVPQVCHLLTNKVQYVIQGYHKRREYIAAFLSHFGTGVVEYDAEGFTKLTLLLMWKDFCFLVHIDLPLFF PRDQPTLTFQSVYHFTNSGQLYSQAQKNYPYSPRWDGNEMAKRAKAYFKTFVPQFQEAAFANGKL Q9NXR7 BRISC and BRCA1-A complex member 1 Homo sapiens 0.029439723 4 Spodoptera frugiperda LEVO MSWQVPPPAPEVQIRTPRVNCPEKVIICLDLSEEMSLPKLESFNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN DDTAWLSGLTSDPRELCSCLYDLETASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPYVVRTILVYSRPPCQPQFSLTE PMKKMFQCPYFFFDVVYIHNGTEEKEEEMSWKDMFAFMGSLDTKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQSH ASYSLLEEEDEAIEVEATV Q9NWV8 ZINC ION 6.5409e-05 4 ZN 1-[2,6-bis(chloranyl)phenyl]carbonyl-4-[[2,6-bis(chloranyl)phenyl]carbonylamino]-N-piperidin-4-yl-pyrazole-3-carboxamide 0.0005552409999999999 2 X8C singleParticle particle 0.3 7.5 25.0 HEPES 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid 150.0 NaCl sodium chloride 1.0 TCEP tris(2-carboxyethyl)phosphine

25 mM HEPES pH 7.5, 150 mM NaCl, 1 mM TCEP

Quantifoil R1.2/1.3 COPPER 300 CARBON HOLEY GLOW DISCHARGE 30

30 seconds, 40 mA

ETHANE 100 277 FEI VITROBOT MARK IV

BRISCdNdC at 0.3 mg/mL (2 uM) was mixed with JMS-175-2 at 200 uM.

FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.7 3.1 96000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON IV (4k x 4k) 1 7768 5.99 39.84 1 Gctf PHASE FLIPPING AND AMPLITUDE CORRECTION

Map generated in RELION from a previous data collection of a similar sample, low-pass filtered and used as an initial model for 3D classification.

3.32 FSC 0.143 CUT-OFF RELION 3.1.1 371872 MAXIMUM LIKELIHOOD RELION 3.1.1 MAXIMUM LIKELIHOOD RELION 3.1.1 RELION 3.1.1 emd_18009.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 289.344 289.344 289.344 90.0 90.0 90.0 X Y Z -0.00750977 0.03095294 0.00020682732 0.001465172 0.82199997 0.82199997 0.82199997 0.0095 AUTHOR ::::EMDATABANK.org::::EMD-18009:::: emd_18009_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 289.344 289.344 289.344 90.0 90.0 90.0 X Y Z -0.061843604 0.10247557 0.00020696715 0.0030083845 0.82199997 0.82199997 0.82199997 AUTHOR ::::EMDATABANK.org::::EMD-18009:::: Original pixel size was 0.86, map was re-scaled to 0.822 A pixel size during post-processing. emd_18009_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 289.344 289.344 289.344 90.0 90.0 90.0 X Y Z -0.1275816 0.20895328 0.0004901299 0.0041267416 0.82199997 0.82199997 0.82199997 AUTHOR ::::EMDATABANK.org::::EMD-18009:::: Original pixel size was 0.86, map was re-scaled to 0.822 A pixel size during post-processing. emd_18009_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 289.344 289.344 289.344 90.0 90.0 90.0 X Y Z -0.012467938 0.0372101 0.00020636313 0.0021791316 0.82199997 0.82199997 0.82199997 AUTHOR ::::EMDATABANK.org::::EMD-18009:::: emd_18009_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 289.344 289.344 289.344 90.0 90.0 90.0 X Y Z -0.014070971 0.0378576 0.00020737143 0.0021796543 0.82199997 0.82199997 0.82199997 AUTHOR ::::EMDATABANK.org::::EMD-18009::::