2025-04-23 REL RCSB INITIAL_RELEASE REPOSITORY RCSB RCSB 2024-09-21 2025-04-23 2025-04-23 2025-04-23 National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) United States CryoEM Structure of Human BTN2A1 ectodomain in complex with TCR-blocking 2A1.12 Fab Ramesh A Fuller JR Roy S Adams E Complex, Antibody, Immune Recognition, SIGNALING PROTEIN, IMMUNE SYSTEM Ramesh A Roy S Slezak T Fuller J Graves H Mamedov MR Marson A Kossiakoff AA Adams EJ Mapping the extracellular molecular architecture of the pAg-signaling complex with alpha-Butyrophilin antibodies. Sci Rep UK 15 12162 12162 2025 40204806 doi:10.1038/s41598-025-94347-w 2045-2322 9dpe FULLOVERLAP Complex of Dimeric Human BTN2A1 ectodomain with TCR-Blocking 2A1.12 Fab and bulking Nanobody Complex of Dimeric Human BTN2A1 ectodomain with TCR-Blocking 2A1.12 Fab and bulking Nanobody 0 1 2 3 4 Homo sapiens Human BTN2A1 ectodomain 1 1 Homo sapiens Anti-BTN2A1 Fab 2A1.12 1 2 3 Homo sapiens Heavy chain of 2A1.12 Fab 3 2 Homo sapiens Light chain of 2A1.12 Fab 3 3 Homo sapiens Variable heavy chain domain nanobody 1 4 Homo sapiens Butyrophilin subfamily 2 member A1 Homo sapiens 0.025741371
BTN2A1 ectodomain with N- and C-terminal linkers. N-terminal (ADLQ) and C-terminal (VSPCGSGLEVLFQ) residues are disordered and not modeled. 3 glycans are denoted as NAG.
1 Trichoplusia ni LEVO ADLQFIVVGPTDPILATVGENTTLRCHLSPEKNAEDMEVRWFRSQFSPAVFVYKGGRERTEEQMEEYRGRTTFVSKDISR GSVALVIHNITAQENGTYRCYFQEGRSYDEAILHLVVAGLGSKPLISMRGHEDGGIRLECISRGWYPKPLTVWRDPYGGV APALKEVSMPDADGLFMVTTAVIIRDKSVRNMSCSINNTLLGQKKESVIFIPESFMPSVSPCGSGLEVLFQ Q7KYR7 Human IgG1 Fragment Antibody Heavy Chain Homo sapiens 0.024775504
Heavy chain of Herceptin Fab scaffold with CDR loops modified through phage-display evolution. (CDR1: FSSSI) (CDR2: SIYSSSGYTY) (CDR3: IEYGRGYWDAF). N-terminal (EIS) is a linker/restriction enzyme artifact and first residue of Fab, and disordered and not modeled.
1 Escherichia coli BL21(DE3) LEVO EISEVQLVESGGGLVQPGGSLRLSCAASGFNFSSSSIHWVRQAPGKGLEWVASIYSSSGYTYYADSVKGRFTISADTSKN TAYLQMNSLRAEDTAVYYCARIEYGRGYWDAFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPE PVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHT Human IgG1 Fragment Antibody Light Chain Homo sapiens 0.023258782999999998
Light chain of Herceptin Fab scaffold with CDR loops modified through phage-display evolution. (CDR1: VSSAV) (CDR2: IYSASSLY) (CDR3: SSSSLI). N-terminal (S) residue is a linker/restriction enzyme artifact.
1 Escherichia coli BL21(DE3) LEVO SDIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQ PEDFATYYCQQSSSSLITFGQGTKVEIKRTVAAPSVFIFPPSDSQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNS QESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC Human variable heavy-chain domain Nanobody Homo sapiens 0.015071431
Human variable heavy-chain domain Nanobody specific for human Fab kappa light chain with a hexahistidine tag and linker (HHHHHHGENLYFQGS). Tag and linker are disordered and not shown.
1 Escherichia coli BL21(DE3) LEVO HHHHHHGENLYFQGSQVQLQESGGGLVQPGGSLRLSCAASGRTISRYAMSWFRQAPGKEREFVAVARRSGDGAFYADSVQ GRFTVSRDDAKNTVYLQMNSLKPEDTAVYYCAIDSDTFYSGSYDYWGQGTQVTVSS 2-acetamido-2-deoxy-beta-D-glucopyranose 0.000221208 4 NAG singleParticle particle 0.85 7.4 Quantifoil R1.2/1.3 GOLD 200 CARBON HOLEY PLASMA CLEANING ETHANE 100 295 FEI VITROBOT MARK IV TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.9 2.5 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K3 BIOQUANTUM (6k x 4k) 1 5438 60.0 1 898426
RELION 3D initial model
 1 C1 3.86 FSC 0.143 CUT-OFF RELION 5.0-beta2 213773 MAXIMUM LIKELIHOOD RELION 5.0-beta2 MAXIMUM LIKELIHOOD RELION 5.0-beta2 emd_47104.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 408.96002 408.96002 408.96002 90.0 90.0 90.0 X Y Z -0.005612341 0.020239888 -0.000012277883 0.00040133198 1.065 1.065 1.065 0.007 AUTHOR RELION multi-body refinement, body 1 full map 8DFW A PDB experimental model H AlphaFold in silico model L AlphaFold in silico model N AlphaFold in silico model FLEXIBLE FIT Cross-correlation REAL emd_47104_msk_1.map emd_47104_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 408.96002 408.96002 408.96002 90.0 90.0 90.0 X Y Z -0.0062825247 0.021819757 -0.000011890099 0.0004218253 1.065 1.065 1.065 AUTHOR RELION multi-body refinement, body 1 half map 1 emd_47104_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 408.96002 408.96002 408.96002 90.0 90.0 90.0 X Y Z -0.0064910026 0.020627862 -0.000011836579 0.00042238313 1.065 1.065 1.065 AUTHOR RELION multi-body refinement, body 1 half map 2