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- PDB-6ztl: E. coli 70S-RNAP expressome complex in collided state bound to NusG -
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Open data
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Basic information
Entry | Database: PDB / ID: 6ztl | ||||||||||||||||||
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Title | E. coli 70S-RNAP expressome complex in collided state bound to NusG | ||||||||||||||||||
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Function / homology | ![]() transcription elongation-coupled chromatin remodeling / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||||||||||||||
Biological species | ![]() ![]() ![]() synthetic construct (others) | ||||||||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||||||||
![]() | Webster, M.W. / Takacs, M. / Weixlbaumer, A. | ||||||||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural basis of transcription-translation coupling and collision in bacteria. Authors: Michael William Webster / Maria Takacs / Chengjin Zhu / Vita Vidmar / Ayesha Eduljee / Mo'men Abdelkareem / Albert Weixlbaumer / ![]() Abstract: Prokaryotic messenger RNAs (mRNAs) are translated as they are transcribed. The lead ribosome potentially contacts RNA polymerase (RNAP) and forms a supramolecular complex known as the expressome. The ...Prokaryotic messenger RNAs (mRNAs) are translated as they are transcribed. The lead ribosome potentially contacts RNA polymerase (RNAP) and forms a supramolecular complex known as the expressome. The basis of expressome assembly and its consequences for transcription and translation are poorly understood. Here, we present a series of structures representing uncoupled, coupled, and collided expressome states determined by cryo-electron microscopy. A bridge between the ribosome and RNAP can be formed by the transcription factor NusG, which stabilizes an otherwise-variable interaction interface. Shortening of the intervening mRNA causes a substantial rearrangement that aligns the ribosome entrance channel to the RNAP exit channel. In this collided complex, NusG linkage is no longer possible. These structures reveal mechanisms of coordination between transcription and translation and provide a framework for future study. | ||||||||||||||||||
History |
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Structure visualization
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Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 3.9 MB | Display | ![]() |
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PDB format | ![]() | Display | ![]() | |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 11419MC ![]() 6ztjC ![]() 6ztmC ![]() 6ztnC ![]() 6ztoC ![]() 6ztpC ![]() 6zu1C M: map data used to model this data C: citing same article ( |
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Similar structure data | |
EM raw data | ![]() Data size: 2.3 TB Data #1: E. coli 70S-RNAP expressome complex in collided state (with NusG, 34nt intervening mRNA) [7712 multi-frame micrographs in TIFF format] [micrographs - multiframe]) |
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Links
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Assembly
Deposited unit | ![]()
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Components
-RNA chain , 6 types, 6 molecules AAAVAWAXBABB
#1: RNA chain | ![]() Mass: 499888.406 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() ![]() |
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#22: RNA chain | ![]() Mass: 15789.517 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
#23: RNA chain | Mass: 24832.918 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() ![]() |
#24: RNA chain | Mass: 24751.018 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() |
#25: RNA chain | ![]() Mass: 941820.562 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() ![]() |
#26: RNA chain | ![]() Mass: 38790.090 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() ![]() |
-30S ribosomal protein ... , 20 types, 20 molecules ABACADAEAFAGAHAIAJAKALAMANAOAPAQARASATAU
#2: Protein | ![]() Mass: 26781.670 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
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#3: Protein | ![]() Mass: 26031.316 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#4: Protein | ![]() Mass: 23514.199 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#5: Protein | ![]() Mass: 17617.455 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#6: Protein | ![]() Mass: 15197.032 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#7: Protein | ![]() Mass: 17637.445 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#8: Protein | ![]() Mass: 14146.557 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#9: Protein | ![]() Mass: 14886.270 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#10: Protein | ![]() Mass: 11755.597 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#11: Protein | ![]() Mass: 13870.975 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#12: Protein | ![]() Mass: 13814.249 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#13: Protein | ![]() Mass: 13128.467 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#14: Protein | ![]() Mass: 11606.560 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#15: Protein | ![]() Mass: 10290.816 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#16: Protein | ![]() Mass: 9207.572 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#17: Protein | ![]() Mass: 9724.491 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#18: Protein | ![]() Mass: 9005.472 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#19: Protein | ![]() Mass: 10455.355 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#20: Protein | ![]() Mass: 9708.464 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
#21: Protein | ![]() Mass: 8524.039 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() |
+50S ribosomal protein ... , 28 types, 28 molecules BCBDBEBFBGBHBKBLBMBNBOBPBQBRBSBTBUBVBWBXBYBZB1B2B3B4B5B6
-DNA chain , 2 types, 2 molecules CNCT
#55: DNA chain | Mass: 12063.754 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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#56: DNA chain | Mass: 11872.596 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
-DNA-directed RNA polymerase subunit ... , 4 types, 5 molecules CACBCCCDCE
#57: Protein | ![]() Mass: 36558.680 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() ![]() #58: Protein | | ![]() Mass: 150820.875 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Gene: rpoB, groN, nitB, rif, ron, stl, stv, tabD, b3987, JW3950 Plasmid: pEcrpoABC(-XH)Z / Production host: ![]() ![]() ![]() ![]() #59: Protein | | ![]() Mass: 155366.781 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() ![]() #60: Protein | | ![]() Mass: 10249.547 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() ![]() |
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-Protein , 1 types, 1 molecules CF
#61: Protein | Mass: 20560.523 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Gene: nusG, A6592_25585, A6V01_22710, A8C65_22140, A9819_22730, A9P13_25180, A9R57_05240, A9X72_23950, AC067_25565, AC789_1c43770, ACN002_4069, ACN68_05355, ACN81_23140, ACU57_23215, ACU90_26230, ...Gene: nusG, A6592_25585, A6V01_22710, A8C65_22140, A9819_22730, A9P13_25180, A9R57_05240, A9X72_23950, AC067_25565, AC789_1c43770, ACN002_4069, ACN68_05355, ACN81_23140, ACU57_23215, ACU90_26230, AM270_23415, AM446_26285, AM464_13235, AML07_02765, AML35_27155, APT94_08685, APZ14_17375, ARC77_16990, AU473_00875, AUQ13_12310, AUS26_26490, AW059_24245, AW106_22725, AWB10_24980, AWG90_024840, AWP75_07120, B7C53_21495, B9M99_23250, B9T59_11605, BANRA_02652, BANRA_02965, BANRA_04868, BANRA_05054, BB545_03125, BE963_11245, BEN53_24665, BER14_24185, BHF03_13055, BHF46_22020, BHS81_23795, BHS87_22260, BIQ87_22825, BIU72_18845, BIZ41_20425, BJJ90_25150, BK248_06370, BK292_28055, BK296_22625, BK334_23885, BK373_27240, BK375_25285, BK383_27750, BMT91_03315, BN17_39461, BOH76_00570, BON63_20075, BON65_15050, BON66_14345, BON69_07640, BON71_08905, BON72_17240, BON75_02205, BON76_16185, BON83_01585, BON86_02250, BON87_25635, BON92_00555, BON94_22220, BON95_12895, BON96_11035, BTQ04_24460, BTQ06_27300, BUE81_05395, BvCms12BK_01423, BvCms2454_04763, BvCms28BK_04512, BvCms35BK_02101, BvCmsC61A_02144, BvCmsHHP001_05230, BvCmsHHP019_04457, BvCmsHHP056_02613, BvCmsKKP036_03586, BvCmsKKP061_02988, BvCmsKSNP073_02860, BvCmsKSNP081_04473, BvCmsKSNP120_03442, BvCmsKSP011_02762, BvCmsKSP024_02914, BvCmsKSP026_03368, BvCmsKSP045_04193, BvCmsKSP058_05150, BvCmsKSP067_02572, BvCmsKSP076_03394, BvCmsNSNP036_01151, BvCmsNSP006_02609, BvCmsNSP007_05025, BvCmsNSP047_00265, BvCmsNSP072_02887, BvCmsOUP014_03194, BvCmsSINP011_03926, BvCmsSINP022_04149, BvCmsSIP019_00806, BvCmsSIP044_03280, BVL39_05395, BW690_26720, BWI89_17415, BWP17_22740, BXT93_25190, BZL31_04420, BZL69_05760, C2M16_25145, C2U48_12750, C4M78_26060, C5715_03885, C5N07_24575, C5P01_26085, C5P44_24205, C6669_07630, C6B13_24055, C7235_23740, C7B02_25750, C7B06_24590, C7B07_24515, C7B08_25795, C7B18_24885, C9098_22125, C9114_22875, C9141_23580, C9160_23410, C9162_26315, C9201_22170, C9306_18330, C9E25_22050, C9E67_28690, C9Z03_20290, C9Z23_22460, C9Z28_21960, C9Z29_22205, C9Z37_20890, C9Z39_11545, C9Z68_22005, C9Z70_22895, C9Z78_23210, C9Z89_21250, CA593_06055, CDC27_21525, CDL37_18180, CF006_23900, CG692_19490, CI641_013295, CI693_09880, CI694_22430, CIG45_23855, CJU63_23510, CMR93_21685, CO706_19475, COD30_25685, COD46_23680, CQB02_21475, CQP61_26065, CR538_24245, CR539_01640, CRD98_23200, CRE06_24015, CRM83_18660, CRX46_23015, CSB64_25615, CV83915_02071, CVH05_03840, CWM24_27465, CWS33_24585, D0X26_26090, D2184_25125, D2185_24315, D2188_26625, D3821_09130, D3822_07045, D3O91_23455, D3P01_24300, D3Y67_18010, D4M06_24755, D4V08_22465, D6T60_24420, D6X76_25425, D7K63_24265, D7K66_23575, D9D20_23600, D9D31_17400, D9D43_22285, D9E34_21740, D9E35_23840, D9F17_24210, D9G11_22910, D9G42_23575, D9G48_16785, D9H36_23700, D9H53_22650, D9H68_20300, D9H70_22035, D9H94_18920, D9I18_21340, D9I87_21115, D9I88_18975, D9I97_19355, D9J03_21550, D9J11_22250, D9J44_24490, D9J60_24680, D9J78_24465, D9K48_24855, D9K54_12200, D9L89_22830, D9X97_23540, DAH18_24890, DAH26_25975, DAH30_23810, DAH32_23215, DAH34_21590, DAH37_22535, DAH43_24845, DB359_25595, DBQ99_24575, DD762_22315, DEN86_24465, DEN89_26545, DEN97_23745, DEO04_24340, DEO19_24590, DIV22_03710, DJ492_21155, DJ503_21480, DL455_22945, DL545_23715, DL800_27635, DM102_24845, DM129_21405, DMI04_23160, DN627_23120, DN700_22935, DNB37_22335, DND16_22055, DNQ45_05150, DNX30_24180, DOY56_23490, DP258_23400, DP277_21350, DQE83_24500, DQF57_23755, DQO13_23745, DS732_01515, DTL43_13735, DTL90_24565, DTM10_25890, DTM45_24265, DU309_24235, DU321_23455, DWB25_23615, DXT69_22770, DXT71_22275, DXT73_22975, DXX80_014070, E0I42_21930, E0K84_22915, E0L12_22075, E2112_20390, E2115_21525, E2116_21360, E2119_22370, E2127_20870, E2128_03155, E2129_21325, E2134_22760, E2135_19300, E2855_04995, E2863_04087, E4K55_23315, E5P22_12620, E5P28_08855, E5P37_21480, E5S42_21570, E5S46_22920, E5S47_23055, E5S58_21655, E5S61_22405, EA223_18780, EAI42_07555, EAI46_11730, EAI52_22765, EAX79_24725, EB509_19910, EB510_23015, EB515_23215, EC1094V2_4288, EC3234A_76c00020, EC3426_00293, EC382_20035, EC95NR1_03447, ECONIH1_23440, ECs4905, ECTO6_04524, ED225_22815, ED600_17570, ED607_18465, ED611_23905, ED648_18875, ED903_15555, ED944_23285, EEA45_21070, EEP23_09520, EF173_24425, EHH55_00685, EHJ36_22675, EI021_22100, EI028_22550, EI032_21280, EIA08_23380, EIA21_22555, EIZ93_16305, EJC75_19605, EKI52_13975, EL75_4207, EL79_4413, EL80_4320, ELT20_20690, ELT49_22095, ELT58_20800, ELU85_23620, ELV08_18720, ELV15_18010, ELV28_22220, ELY05_18135, EO241_25805, EPT01_21710, EPU41_22430, EQ820_22900, EQ823_21595, EQ825_24495, EQ830_22075, ERL57_22710, ERS085365_04268, ERS085366_03833, ERS085374_04594, ERS085379_04702, ERS085386_04623, ERS085404_04521, ERS085416_04255, ERS139211_00029, ERS150873_04413, ERS150876_04842, EST51_23890, EVY14_16870, EXM29_02430, ExPECSC019_03691, ExPECSC038_04333, EXX06_24555, EXX13_24135, EXX23_22335, EXX24_23200, EXX53_20975, EXX55_24470, EXX71_22285, EXX78_23980, EXX87_25010, EYD11_21620, EYX82_16660, EYY27_22340, EYY34_19835, EYY78_22630, F1E13_23780, F1E19_21855, F7F18_24025, F7F23_23365, F7F29_25900, F7G01_23380, F7G03_24045, FAF34_028990, FKO60_24845, FNJ69_19080, FNJ83_24770, FORC82_4527, FQ915_26180, FQR64_21830, FRV13_16245, FV293_23400, FV295_22235, FV438_22405, FWK02_12320, FY127_17780, FZ043_01110, GJ11_25170, HmCms184_03867, HmCmsJML074_03188, HmCmsJML079_04908, HmCmsJML204_03263, HMPREF3040_01771, HW43_01555, MJ49_09455, MS6198_46010, NCTC10082_02087, NCTC10090_02786, NCTC10429_00094, NCTC10764_02978, NCTC10766_02647, NCTC10865_05901, NCTC10974_05357, NCTC11022_04295, NCTC11112_02275, NCTC11126_05446, NCTC11181_01971, NCTC11341_02768, NCTC12950_05220, NCTC13127_06170, NCTC13148_04401, NCTC13846_04507, NCTC7922_04992, NCTC7927_05255, NCTC8009_08439, NCTC8179_05103, NCTC8450_00357, NCTC8500_05331, NCTC8622_01622, NCTC8960_02346, NCTC9007_05346, NCTC9036_04655, NCTC9044_02298, NCTC9045_05548, NCTC9050_02824, NCTC9055_01673, NCTC9058_02141, NCTC9062_03438, NCTC9077_05942, NCTC9111_04961, NCTC9117_05910, NCTC9119_05061, NCTC9701_05002, NCTC9702_05645, NCTC9703_04220, NCTC9706_02009, NCTC9777_01124, NCTC9969_04938, PGD_00616, PU06_15460, RG28_25315, RK56_017435, RX35_03749, SAMEA3472043_04873, SAMEA3472044_04880, SAMEA3472047_03493, SAMEA3472055_04940, SAMEA3472056_05316, SAMEA3472070_05100, SAMEA3472080_04808, SAMEA3472090_05013, SAMEA3472108_04978, SAMEA3472110_05075, SAMEA3472112_05160, SAMEA3472114_04960, SAMEA3472147_04113, SAMEA3484427_04977, SAMEA3484429_04980, SAMEA3484434_04732, SAMEA3485101_05504, SAMEA3485113_04488, SAMEA3752372_05072, SAMEA3752553_04898, SAMEA3752557_04837, SAMEA3752559_04862, SAMEA3752620_04706, SAMEA3753064_05336, SAMEA3753097_04838, SAMEA3753164_04793, SAMEA3753290_00011, SAMEA3753300_04891, SK85_04313, UC41_25620, UN86_14210, UN91_25475, WQ89_24645, WR15_01460, YDC107_2696 Plasmid: pSKB2_(His)6-HRV3C-NusG / Production host: ![]() ![]() ![]() |
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-Non-polymers , 3 types, 445 molecules ![](data/chem/img/MG.gif)
![](data/chem/img/PHE.gif)
![](data/chem/img/ZN.gif)
![](data/chem/img/PHE.gif)
![](data/chem/img/ZN.gif)
#62: Chemical | ChemComp-MG / #63: Chemical | ChemComp-PHE / | ![]() #64: Chemical | |
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-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: ![]() |
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Sample preparation
Component |
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Molecular weight |
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Source (natural) |
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Source (recombinant) |
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Buffer solution | pH: 8 | |||||||||||||||||||||||||||||||||||
Buffer component |
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Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied![]() ![]() | |||||||||||||||||||||||||||||||||||
Specimen support | Grid material: COPPER / Grid mesh size: 300 divisions/in. / Grid type: Quantifoil R2/2 | |||||||||||||||||||||||||||||||||||
Vitrification![]() | Instrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Humidity: 90 % / Chamber temperature: 283 K |
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Electron microscopy imaging
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source![]() ![]() |
Electron lens | Mode: BRIGHT FIELD![]() |
Specimen holder | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Image recording | Electron dose: 42 e/Å2 / Detector mode: COUNTING / Film or detector model: GATAN K2 SUMMIT (4k x 4k) |
Image scans | Movie frames/image: 40 |
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Processing
Software |
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EM software |
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CTF correction![]() | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||||||||||||||
Particle selection | Num. of particles selected: 684211 | ||||||||||||||||||||||||||||||||||||
3D reconstruction![]() | Resolution: 3.5 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 45774 / Symmetry type: POINT | ||||||||||||||||||||||||||||||||||||
Atomic model building | Protocol: RIGID BODY FIT / Space: REAL / Target criteria: Correlation coefficient | ||||||||||||||||||||||||||||||||||||
Atomic model building |
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Refinement | Cross valid method: NONE |