2022-08-03 REL PDBe PDBe PDBe 2021-08-20 2022-06-15 2022-06-15 2022-08-03 Foundation for Polish Science POIR.04.04.00-00-20E7/16-00 European Union European Union (EU) POIG.02.02.00-14-024/08-00 European Union Cryo-EM helical reconstruction of E. coli TnsB in complex with right end fragment of Tn7 transposon Czarnocki-Cieciura M Kaczmarska Z Kaczmarska Z Czarnocki-Cieciura M Gorecka-Minakowska KM Wingo RJ Jackiewicz J Zajko W Poznanski JT Rawski M Grant T Peters JE Nowotny M Structural basis of transposon end recognition explains central features of Tn7 transposition systems. Mol.Cell US 82 2618 2632.e7 2022 35654042 doi:10.1016/j.molcel.2022.05.005 1097-2765 2168 MOCEFL EMD-13439 other EM volume
Single particle reconstruction after signal subtraction
 EMD-13440 associated EM volume TnsB-DNA complex TnsB-DNA complex 0 1 2 3
TnsB from the canonical E. coli Tn7 element in complex with the right transposon end fragment
0.043 TnsB 1 1
TnsB from the canonical E. coli Tn7 element
Escherichia coli Escherichia coli Tn7 transposon right end fragment 1 2 3
E. coli Tn7 transposon right end fragment
Escherichia coli Transposon Tn7 transposition protein TnsB Escherichia coli Escherichia coli LEVO SMWQINEVVLFDNDPYRILAIEDGQVVWMQISADKGVPQARAELLLMQYLDEGRLVRTDDP YVHLDLEEPSVDSVSFQKREEDYRKILPIINSKDRFDPKVRSELVEHVVQEHKVTKATVY KLLRRYWQRGQTPNALIPDYKNSGAPGERRSATGTAKIGRAREYGKGEGTKVTPEIERLF RLTIEKHLLNQKGTKTTVAYRRFVDLFAQYFPRIPQEDYPTLRQFRYFYDREYPKAQRLK SRVKAGVYKKDVRPLSSTATSQALGPGSRYEIDATIADIYLVDHHDRQKIIGRPTLYIVI DVFSRMITGFYIGFENPSYVVAMQAFVNACSDKTAICAQHDIEISSSDWPCVGLPDVLLA DRGELMSHQVEALVSSFNVRVESAPPRRGDAKGIVESTFRTLQAEFKSFAPGIVEGSRIK SHGETDYRLDASLSVFEFTQIILRTILFRNNHLVMDKYDRDADFPTDLPSIPVQLWQWGM QHRTGSLRAVEQEQLRVALLPRRKVSISSFGVNLWGLYYSGSEILREGWLQRSTDIARPQ HLEAAYDPVLVDTIYLFPQVGSRVFWRCNLTERSRQFKGLSFWEVWDIQAQEKHNKANAK QDELTKRRELEAFIQQTIQKANKLTPSTTEPKSTRIKQIKTNKKEAVTSERKKRAEHLKP SSSGDEAKVIPFNAVEADDQEDYSLPTYVPELFQDPPEKDES Right end fragment of Tn7 transposon chain 1 Escherichia coli CTAGTTTAAGACTTTATTGTCATAGTTTAGATCTATTTTGTTCAGTTTAAGACTTTATTGTCCGCCCACA DNA Right end fragment of Tn7 transposon chain 2 Escherichia coli TGTGGGCGGACAATAAAGTCTTAAACTGAACAAAATAGATCTAAACTATGACAATAAAGTCTTAAACTAG DNA helical filament 1 7.5 150.0 NaCl sodium chloride 20.0 HEPES HEPES ETHANE 95 277 FEI VITROBOT MARK IV
4 s blot time, -5 blot force..
Sample fixed with 0.05% glutaraldehyde and concentrated prior to vitrification; exact concentration cannot be estimated accurately.
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.5 2.0 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 40.0 1 112.734 -167.484 C2 3.79 FSC 0.143 CUT-OFF cryoSPARC 3.2 450748 cryoSPARC 3.2 1141614 cryoSPARC 3.2 Filament Tracer (BETA) was used
Filament Tracer in cryoSPARC
initial model was generated directly from particle stack with Helical Refinement
 MAXIMUM LIKELIHOOD emd_13440.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 440.32 440.32 440.32 90.0 90.0 90.0 X Y Z -0.8644319 1.3042682 0.0071694953 0.038564578 0.86 0.86 0.86 0.2 AUTHOR Sharpened and symmetrized emd_13440_msk_1.map emd_13440_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 440.32 440.32 440.32 90.0 90.0 90.0 X Y Z -0.16489759 0.65475893 0.0030086618 0.034307886 0.86 0.86 0.86 AUTHOR Raw map emd_13440_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 440.32 440.32 440.32 90.0 90.0 90.0 X Y Z -0.7153935 0.89387757 0.0006867137 0.089811765 0.86 0.86 0.86 AUTHOR Half map B emd_13440_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 440.32 440.32 440.32 90.0 90.0 90.0 X Y Z -0.6559391 0.85441804 0.00069584633 0.08979663 0.86 0.86 0.86 AUTHOR Half map A