HEADER VIRUS 08-JAN-20 6TUQ TITLE CRYO-EM STRUCTURE OF PF4 BACTERIOPHAGE COAT PROTEIN WITHOUT SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: COAT PROTEIN B OF BACTERIOPHAGE PF1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PHAGE COAT PROTEIN B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS VIRUS PF1; SOURCE 3 ORGANISM_TAXID: 2011081 KEYWDS BACTERIOPHAGE, HELICAL, FILAMENTOUS, VIRUS EXPDTA ELECTRON MICROSCOPY AUTHOR A.K.TARAFDER,A.VON KUGELGEN,T.A.M.BHARAT REVDAT 3 11-MAR-20 6TUQ 1 JRNL REMARK REVDAT 2 04-MAR-20 6TUQ 1 JRNL REVDAT 1 26-FEB-20 6TUQ 0 JRNL AUTH A.K.TARAFDER,A.VON KUGELGEN,A.J.MELLUL,U.SCHULZE, JRNL AUTH 2 D.G.A.L.AARTS,T.A.M.BHARAT JRNL TITL PHAGE LIQUID CRYSTALLINE DROPLETS FORM OCCLUSIVE SHEATHS JRNL TITL 2 THAT ENCAPSULATE AND PROTECT INFECTIOUS ROD-SHAPED BACTERIA. JRNL REF PROC.NATL.ACAD.SCI.USA V. 117 4724 2020 JRNL REFN ESSN 1091-6490 JRNL PMID 32071243 JRNL DOI 10.1073/PNAS.1917726117 REMARK 2 REMARK 2 RESOLUTION. 3.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, EPU, RELION, COOT, RELION, REMARK 3 RELION, RELION, RELION, PHENIX REMARK 3 RECONSTRUCTION SCHEMA : FOURIER SPACE REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : BACKBONE TRACE REMARK 3 REFINEMENT TARGET : CORRELATION COEFFICIENT REMARK 3 OVERALL ANISOTROPIC B VALUE : 180.970 REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 3.900 REMARK 3 NUMBER OF PARTICLES : 95481 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 6TUQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106093. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : HELICAL REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : FILAMENT REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : PSEUDOMONAS VIRUS PF1 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 5.00 REMARK 245 SAMPLE SUPPORT DETAILS : 20 SECOND GLOW DISCHARGE AT 15 REMARK 245 MA IN A LEICAEM ACE200 REMARK 245 SAMPLE VITRIFICATION DETAILS : SAMPLES FOR CRYO-EM WERE REMARK 245 PREPARED BY PIPETTING 2.5 UL OF REMARK 245 THE SAMPLE ONTO FRESHLY GLOW- REMARK 245 DISCHARGED QUANTIFOIL GRIDS (CU/ REMARK 245 RH R2/2, 200 MESH). GRIDS WERE REMARK 245 BLOTTED FOR 2.5 SECONDS WITH A REMARK 245 BLOT FORCE OF -15, 0.5 SECOND REMARK 245 DRAIN AND 0 SECOND WAIT TIMES. REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 4110 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : -1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : -3000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 43.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 105000 REMARK 245 CALIBRATED MAGNIFICATION : 105000 REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 51-MERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.997213 -0.074605 0.000530 21.00404 REMARK 350 BIOMT2 2 0.074607 0.997208 -0.003284 -19.19777 REMARK 350 BIOMT3 2 -0.000284 0.003314 0.999994 33.62338 REMARK 350 BIOMT1 3 0.843404 0.537280 -0.000399 -105.66561 REMARK 350 BIOMT2 3 -0.537262 0.843371 -0.008660 193.56480 REMARK 350 BIOMT3 3 -0.004317 0.007518 0.999962 14.63759 REMARK 350 BIOMT1 4 0.892906 0.450244 0.000477 -95.34308 REMARK 350 BIOMT2 4 -0.450235 0.892894 -0.005352 155.06973 REMARK 350 BIOMT3 4 -0.002836 0.004564 0.999986 49.66714 REMARK 350 BIOMT1 5 0.461307 0.887235 -0.003296 -95.90391 REMARK 350 BIOMT2 5 -0.887231 0.461281 -0.006378 395.40939 REMARK 350 BIOMT3 5 -0.004139 0.005867 0.999974 30.75684 REMARK 350 BIOMT1 6 -0.304852 0.950595 -0.058599 111.36816 REMARK 350 BIOMT2 6 -0.951950 -0.306021 -0.011917 629.18147 REMARK 350 BIOMT3 6 -0.029261 0.052150 0.998211 5.68552 REMARK 350 BIOMT1 7 -0.191895 0.980275 -0.047305 69.02428 REMARK 350 BIOMT2 7 -0.981177 -0.192687 -0.012754 605.54533 REMARK 350 BIOMT3 7 -0.021617 0.043968 0.998799 40.43603 REMARK 350 BIOMT1 8 -0.737164 0.673887 -0.049661 306.29185 REMARK 350 BIOMT2 8 -0.675322 -0.737246 0.020199 663.65840 REMARK 350 BIOMT3 8 -0.023000 0.048427 0.998562 20.78660 REMARK 350 BIOMT1 9 -0.997592 0.057944 -0.038102 547.67340 REMARK 350 BIOMT2 9 -0.060291 -0.996150 0.063645 554.23154 REMARK 350 BIOMT3 9 -0.034268 0.065789 0.997245 0.23748 REMARK 350 BIOMT1 10 -0.987587 0.151254 -0.042355 519.92220 REMARK 350 BIOMT2 10 -0.153558 -0.986448 0.057791 578.89618 REMARK 350 BIOMT3 10 -0.033040 0.063577 0.997430 35.05495 REMARK 350 BIOMT1 11 -0.897927 -0.440145 -0.000663 648.93062 REMARK 350 BIOMT2 11 0.439162 -0.896021 0.065446 386.66684 REMARK 350 BIOMT3 11 -0.029400 0.058475 0.997856 16.61831 REMARK 350 BIOMT1 12 -0.498171 -0.866432 0.033488 647.25092 REMARK 350 BIOMT2 12 0.866630 -0.496298 0.051387 159.76936 REMARK 350 BIOMT3 12 -0.027904 0.054621 0.998117 -1.58531 REMARK 350 BIOMT1 13 -0.593915 -0.804123 0.025511 658.17068 REMARK 350 BIOMT2 13 0.804199 -0.592466 0.047412 204.89897 REMARK 350 BIOMT3 13 -0.023011 0.048675 0.998550 33.29787 REMARK 350 BIOMT1 14 -0.112511 -0.993443 0.020325 577.14264 REMARK 350 BIOMT2 14 0.993577 -0.112231 0.014453 28.04578 REMARK 350 BIOMT3 14 -0.012077 0.021821 0.999689 18.93496 REMARK 350 BIOMT1 15 0.393683 -0.919221 -0.006890 422.82867 REMARK 350 BIOMT2 15 0.919245 0.393683 0.001335 -86.59139 REMARK 350 BIOMT3 15 0.001486 -0.006859 0.999975 4.67622 REMARK 350 BIOMT1 16 0.325636 -0.945495 -0.000995 447.36957 REMARK 350 BIOMT2 16 0.945487 0.325628 0.004508 -76.24276 REMARK 350 BIOMT3 16 -0.003938 -0.002409 0.999989 39.36918 REMARK 350 BIOMT1 17 0.812615 -0.582792 0.003382 211.55105 REMARK 350 BIOMT2 17 0.582791 0.812621 0.001428 -109.55667 REMARK 350 BIOMT3 17 -0.003580 0.000810 0.999993 19.47093 REMARK 350 BIOMT1 18 0.741008 -0.671466 -0.006405 258.45406 REMARK 350 BIOMT2 18 0.671496 0.740989 0.005385 -114.87104 REMARK 350 BIOMT3 18 0.001130 -0.008291 0.999965 55.42848 REMARK 350 BIOMT1 19 -0.852380 -0.522804 0.011165 656.16543 REMARK 350 BIOMT2 19 0.522024 -0.849467 0.076788 347.40447 REMARK 350 BIOMT3 19 -0.030661 0.071281 0.996985 -21.05349 REMARK 350 BIOMT1 20 -0.475646 -0.879269 0.025432 645.74346 REMARK 350 BIOMT2 20 0.879402 -0.474652 0.036836 154.05419 REMARK 350 BIOMT3 20 -0.020317 0.039886 0.998998 -34.14225 REMARK 350 BIOMT1 21 0.013741 -0.999836 0.011810 545.51070 REMARK 350 BIOMT2 21 0.999883 0.013820 0.006606 -6.02574 REMARK 350 BIOMT3 21 -0.006768 0.011718 0.999908 -48.68243 REMARK 350 BIOMT1 22 0.485703 -0.874122 0.001701 382.74320 REMARK 350 BIOMT2 22 0.874117 0.485706 0.003195 -100.50673 REMARK 350 BIOMT3 22 -0.003619 -0.000065 0.999993 -30.50525 REMARK 350 BIOMT1 23 0.905664 -0.423950 0.006222 141.18991 REMARK 350 BIOMT2 23 0.423948 0.905685 0.001764 -91.70823 REMARK 350 BIOMT3 23 -0.006383 0.001040 0.999979 -48.96665 REMARK 350 BIOMT1 24 0.860618 -0.509234 0.004116 177.80311 REMARK 350 BIOMT2 24 0.509227 0.860628 0.002656 -102.96021 REMARK 350 BIOMT3 24 -0.004895 -0.000190 0.999988 -14.42617 REMARK 350 BIOMT1 25 0.997358 0.072612 -0.002126 -18.64948 REMARK 350 BIOMT2 25 -0.072606 0.997357 0.002767 20.09519 REMARK 350 BIOMT3 25 0.002321 -0.002605 0.999994 -34.44969 REMARK 350 BIOMT1 26 0.798624 0.601821 0.003186 -112.07007 REMARK 350 BIOMT2 26 -0.601780 0.798615 -0.008589 223.87138 REMARK 350 BIOMT3 26 -0.007713 0.004942 0.999958 -18.29377 REMARK 350 BIOMT1 27 0.241946 0.970090 -0.019666 -54.75995 REMARK 350 BIOMT2 27 -0.970216 0.241628 -0.017233 482.37121 REMARK 350 BIOMT3 27 -0.011966 0.023250 0.999658 -41.19005 REMARK 350 BIOMT1 28 0.333794 0.942496 -0.016832 -73.18600 REMARK 350 BIOMT2 28 -0.942608 0.333568 -0.014891 448.53457 REMARK 350 BIOMT3 28 -0.008420 0.020836 0.999747 -6.88857 REMARK 350 BIOMT1 29 -0.378776 0.923962 -0.053127 137.85740 REMARK 350 BIOMT2 29 -0.925128 -0.379607 -0.006140 640.57903 REMARK 350 BIOMT3 29 -0.025841 0.046823 0.998569 -28.31251 REMARK 350 BIOMT1 30 -0.830101 0.556078 -0.041337 362.80889 REMARK 350 BIOMT2 30 -0.557248 -0.829957 0.025411 655.10259 REMARK 350 BIOMT3 30 -0.020177 0.044129 0.998822 -47.91328 REMARK 350 BIOMT1 31 -0.785027 0.617702 -0.046659 334.52802 REMARK 350 BIOMT2 31 -0.619041 -0.785041 0.022339 660.63124 REMARK 350 BIOMT3 31 -0.022830 0.046420 0.998661 -13.26507 REMARK 350 BIOMT1 32 -0.998745 -0.037952 -0.032682 573.44151 REMARK 350 BIOMT2 32 0.035492 -0.996713 0.072830 525.38464 REMARK 350 BIOMT3 32 -0.035338 0.071578 0.996809 -35.53726 REMARK 350 BIOMT1 33 -0.821512 -0.569990 0.015138 659.26647 REMARK 350 BIOMT2 33 0.569532 -0.818996 0.069843 327.27376 REMARK 350 BIOMT3 33 -0.027412 0.065998 0.997443 -55.02687 REMARK 350 BIOMT1 34 0.769364 0.638801 0.003611 -113.58427 REMARK 350 BIOMT2 34 -0.638811 0.769355 0.003779 239.01490 REMARK 350 BIOMT3 34 -0.000364 -0.005214 0.999986 -51.83054 REMARK 350 BIOMT1 35 -0.409806 -0.911838 0.024721 636.45204 REMARK 350 BIOMT2 35 0.912016 -0.409083 0.029631 128.78854 REMARK 350 BIOMT3 35 -0.016906 0.034689 0.999255 -68.18534 REMARK 350 BIOMT1 36 0.070113 -0.997539 0.000544 532.06754 REMARK 350 BIOMT2 36 0.997529 0.070115 0.004494 -20.20586 REMARK 350 BIOMT3 36 -0.004521 0.000227 0.999990 -80.62504 REMARK 350 BIOMT1 37 0.626805 -0.779174 0.002023 317.43264 REMARK 350 BIOMT2 37 0.779160 0.626806 0.004892 -113.61238 REMARK 350 BIOMT3 37 -0.005080 -0.001490 0.999986 -98.82970 REMARK 350 BIOMT1 38 0.568504 -0.822674 0.003339 345.33255 REMARK 350 BIOMT2 38 0.822673 0.568511 0.002112 -108.97180 REMARK 350 BIOMT3 38 -0.003636 0.001546 0.999992 -65.50520 REMARK 350 BIOMT1 39 0.931505 -0.363727 0.001331 118.81161 REMARK 350 BIOMT2 39 0.363719 0.931500 0.004062 -82.57982 REMARK 350 BIOMT3 39 -0.002718 -0.003299 0.999991 -83.20038 REMARK 350 BIOMT1 40 0.966653 0.256088 0.001308 -62.01341 REMARK 350 BIOMT2 40 -0.256087 0.966653 -0.001146 80.16064 REMARK 350 BIOMT3 40 -0.001558 0.000773 0.999998 -103.52734 REMARK 350 BIOMT1 41 0.985730 0.168324 0.002042 -43.24208 REMARK 350 BIOMT2 41 -0.168323 0.985732 -0.000551 50.54109 REMARK 350 BIOMT3 41 -0.002106 0.000200 0.999998 -68.65982 REMARK 350 BIOMT1 42 0.695954 0.718069 0.005055 -116.08837 REMARK 350 BIOMT2 42 -0.718067 0.695970 -0.002504 282.79939 REMARK 350 BIOMT3 42 -0.005316 -0.001887 0.999984 -86.06636 REMARK 350 BIOMT1 43 0.182714 0.983087 -0.012477 -43.57131 REMARK 350 BIOMT2 43 -0.983128 0.182580 -0.011163 500.51450 REMARK 350 BIOMT3 43 -0.008696 0.014307 0.999860 -74.08458 REMARK 350 BIOMT1 44 -0.508704 0.859061 -0.056870 193.61037 REMARK 350 BIOMT2 44 -0.860605 -0.509241 0.005699 655.21090 REMARK 350 BIOMT3 44 -0.024065 0.051842 0.998365 -99.22592 REMARK 350 BIOMT1 45 -0.456605 0.887088 -0.067726 173.97763 REMARK 350 BIOMT2 45 -0.889281 -0.457331 0.005274 649.17783 REMARK 350 BIOMT3 45 -0.026295 0.062635 0.997690 -66.97740 REMARK 350 BIOMT1 46 -0.897623 0.438127 -0.048132 416.23184 REMARK 350 BIOMT2 46 -0.439910 -0.897319 0.036030 639.15748 REMARK 350 BIOMT3 46 -0.027404 0.053515 0.998191 -83.07295 REMARK 350 BIOMT1 47 -0.982679 -0.184583 -0.016477 605.40180 REMARK 350 BIOMT2 47 0.183082 -0.980750 0.067894 480.85469 REMARK 350 BIOMT3 47 -0.028692 0.063701 0.997556 -104.31831 REMARK 350 BIOMT1 48 -0.993421 -0.112101 -0.023411 590.09003 REMARK 350 BIOMT2 48 0.110275 -0.991538 0.068494 504.22742 REMARK 350 BIOMT3 48 -0.030891 0.065462 0.997377 -69.63913 REMARK 350 BIOMT1 49 -0.792260 -0.609966 0.016283 661.50398 REMARK 350 BIOMT2 49 0.609771 -0.790461 0.057891 311.10919 REMARK 350 BIOMT3 49 -0.022441 0.055793 0.998190 -88.14822 REMARK 350 BIOMT1 50 -0.342248 -0.939298 0.024211 625.34697 REMARK 350 BIOMT2 50 0.939506 -0.341714 0.023664 104.03410 REMARK 350 BIOMT3 50 -0.013954 0.030845 0.999427 -102.42617 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-10593 RELATED DB: EMDB REMARK 900 MAP WITH SSDNA REMARK 900 RELATED ID: 6TUP RELATED DB: PDB REMARK 900 STRUCTURE WITH SSDNA REMARK 900 RELATED ID: EMD-10594 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF PF4 BACTERIOPHAGE COAT PROTEIN WITHOUT SSDNA DBREF 6TUQ A 1 46 UNP Q9I5K5 Q9I5K5_PSEAE 37 82 SEQRES 1 A 46 GLY VAL ILE ASP THR SER ALA VAL GLU SER ALA ILE THR SEQRES 2 A 46 ASP GLY GLN GLY ASP MET LYS ALA ILE GLY GLY TYR ILE SEQRES 3 A 46 VAL GLY ALA LEU VAL ILE LEU ALA VAL ALA GLY LEU ILE SEQRES 4 A 46 TYR SER MET LEU ARG LYS ALA HELIX 1 AA1 THR A 5 ALA A 46 1 42 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000