2025-05-14 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin em_software _em_admin.last_update _em_software.name DATA_COLLECTION em_admin em_software _em_admin.last_update _em_software.name RCSB RCSB 2024-07-12 2024-09-11 2024-09-11 2025-05-14 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) F32GM145143 United States National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS) NS095892 United States Wellcome Trust 221705/Z/20/Z United Kingdom Structure of ecarin from the venom of Kenyan saw-scaled viper in complex with the Fab of neutralizing antibody H11 Mindrebo JT Lander GC Snake venom metalloproteinase, neutralizing antibody, HYDROLASE Misson Mindrebo LE Mindrebo JT Tran Q Wilkinson MC Smith JM Verma M Casewell NR Lander GC Jardine JG Importance of the Cysteine-Rich Domain of Snake Venom Prothrombin Activators: Insights Gained from Synthetic Neutralizing Antibodies. Toxins CH 16 2024 39195771 doi:10.3390/toxins16080361 2072-6651 9clp FULLOVERLAP Ecarin in complex with neutralizing antibody H11 Ecarin in complex with neutralizing antibody H11 0 1 3 4 2
Ecarin was complexed with H11 Fab, which was prepared by papain digestion of an IgG H11 antibody.
Echis pyramidum leakeyi Zinc metalloproteinase-disintegrin-like ecarin Echis carinatus 0.047979472999999995 1 Homo sapiens LEVO VPPHERKFEKKFIELVVVVDHSMVTKYNNDSTAIRTWIYEMLNTVNEIYLPFNIRVALVGLEFWCNGDLINVTSTADDTL HSFGEWRASDLLNRKRHDHAQLLTNVTLDHSTLGITFVYGMCKSDRSVELILDYSNITFNMAYIIAHEMGHSLGMLHDTK FCTCGAKPCIMFGKESIPPPKEFSSCSYDQYNKYLLKYNPKCILDPPLRKDIASPAVCGNEIWEEGEECDCGSPADCRNP CCDAATCKLKPGAECGNGECCDKCKIRKAGTECRPARDDCDVAEHCTGQSAECPRNEFQRNGQPCLNNSGYCYNGDCPIM LNQCIALFSPSATVAQDSCFQRNLQGSYYGYCTKEIGYYGKRFPCAPQDVKCGRLYCLDNSFKKNMRCKNDYSYADENKG IVEPGTKCEDGKVCINRKCVDVNTAY Q90495 3.4.24.- Endogenous peptide Homo sapiens 0.000613749
Either degradation product or co-purified with complex. Molecule was not added to the sample.
1 Homo sapiens LEVO (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) H11 Fab heavy chain Homo sapiens 0.023413074 1 Homo sapiens LEVO QVQLVQSGAEVKKPGASVKVSCKASGYTFTGYYMHWVRQAPGQGLEWMGWINPNSGGTNYAQKFQGRVTMTRDTSISTAY MELSRLRSDDTAVYYCAREWDDDDFSFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVS WNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKK H11 Fab light chain Homo sapiens 0.022782082 1 Homo sapiens LEVO QSALTQPASVSGSPGQSITISCTGTSSDVGGYNYVSWYQQHPGKAPKLMIYEVSNRPSGVSNRFSGSKSGNTASLTISGL QAEDEADYYCSSYTSSSTLVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV KAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPTECS ZINC ION 6.5409e-05 1 ZN CALCIUM ION 4.0078e-05 3 CA singleParticle particle 2 8.0 150.0 NaCl Sodium chloride 50.0 C4H11NO3 Tris Quantifoil GOLD 300 GRAPHENE CONTINUOUS GLOW DISCHARGE OTHER ETHANE 100 4 FEI VITROBOT MARK IV
Sample was monodisperse but had preferred orientation on holey gold grids. Graphene grid was used to overcome preferred orientation and the two datasets were combined.
 FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 50.0 2.7 0.4 3.0 73000.0 88339.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K2 SUMMIT (4k x 4k) COUNTING 3840 3712 2 5511 5.0 54.0 1 2147888 PHASE FLIPPING ONLY
Ab initio model generated in CryoSPARC
 BACK PROJECTION 3.43 FSC 0.143 CUT-OFF 334209 PROJECTION MATCHING PROJECTION MATCHING 5 emd_45728.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 305.63998 305.63998 305.63998 90.0 90.0 90.0 X Y Z -1.4479696 1.9809555 -0.000012183662 0.025619201 0.566 0.566 0.566 0.3 AUTHOR Sharpened consensus map emd_45728_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 305.63998 305.63998 305.63998 90.0 90.0 90.0 X Y Z -0.17402996 0.52608424 -0.000076351964 0.010552293 0.566 0.566 0.566 AUTHOR Unsharpened consensus map emd_45728_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 305.63998 305.63998 305.63998 90.0 90.0 90.0 X Y Z -0.38507643 0.6447548 0.000040735762 0.048984367 0.566 0.566 0.566 AUTHOR half map 2 emd_45728_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 305.63998 305.63998 305.63998 90.0 90.0 90.0 X Y Z -0.3991848 0.64759254 0.000046319088 0.04889939 0.566 0.566 0.566 AUTHOR half map 1