HEADER VIRUS 29-MAR-19 6R7M TITLE TOBACCO MOSAIC VIRUS (TMV) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TOBACCO MOSAIC VIRUS; SOURCE 3 ORGANISM_TAXID: 12242 KEYWDS TOBACCO, MOSAIC, VIRUS, TMV, CRYO-EM, CRYOWRITER, MICROFLUIDIC EXPDTA ELECTRON MICROSCOPY AUTHOR C.SCHMIDLI,S.ALBIEZ,L.RIMA,R.RIGHETTO,I.MOHAMMED,P.OLIVA,L.KOVACIK, AUTHOR 2 H.STAHLBERG,T.BRAUN REVDAT 6 15-MAY-24 6R7M 1 REMARK REVDAT 5 27-NOV-19 6R7M 1 REMARK REVDAT 4 31-JUL-19 6R7M 1 JRNL REVDAT 3 24-JUL-19 6R7M 1 JRNL REVDAT 2 17-JUL-19 6R7M 1 JRNL REVDAT 1 03-JUL-19 6R7M 0 JRNL AUTH C.SCHMIDLI,S.ALBIEZ,L.RIMA,R.RIGHETTO,I.MOHAMMED,P.OLIVA, JRNL AUTH 2 L.KOVACIK,H.STAHLBERG,T.BRAUN JRNL TITL MICROFLUIDIC PROTEIN ISOLATION AND SAMPLE PREPARATION FOR JRNL TITL 2 HIGH-RESOLUTION CRYO-EM. JRNL REF PROC.NATL.ACAD.SCI.USA V. 116 15007 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31292253 JRNL DOI 10.1073/PNAS.1907214116 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, SERIALEM, UCSF CHIMERA, RELION, REMARK 3 RELION, PHENIX REMARK 3 RECONSTRUCTION SCHEMA : BACK PROJECTION REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 6I5A REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL 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) : 1.920 REMARK 3 NUMBER OF PARTICLES : 52776 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 6R7M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1292101538. 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 : HELICAL ARRAY REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : TOBACCO MOSAIC VIRUS REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 1.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : CRYOWRITER 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 : 523 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 QUANTUM (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL 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) : 7200.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL 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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 HELICAL SYMMETRY WITH THE FOLLOWING PARAMETERS: REMARK 300 ROTATION PER SUBUNIT (TWIST) = 22.03 DEGREES REMARK 300 RISE PER SUBUNIT (HEIGHT) = 1.41 ANGSTROMS 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 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 0.628642 0.777695 0.000000 -69.28043 REMARK 350 BIOMT2 2 -0.777695 0.628642 0.000000 195.91352 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -49.35000 REMARK 350 BIOMT1 3 0.874450 0.485115 0.000000 -61.30589 REMARK 350 BIOMT2 3 -0.485115 0.874450 0.000000 104.11829 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 -47.94000 REMARK 350 BIOMT1 4 0.992567 0.121696 0.000000 -19.48193 REMARK 350 BIOMT2 4 -0.121696 0.992567 0.000000 22.01644 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 -46.53000 REMARK 350 BIOMT1 5 0.965745 -0.259493 0.000000 50.08411 REMARK 350 BIOMT2 5 0.259493 0.965745 0.000000 -38.40312 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 -45.12000 REMARK 350 BIOMT1 6 0.797900 -0.602790 0.000000 137.23385 REMARK 350 BIOMT2 6 0.602790 0.797900 0.000000 -68.31764 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 -43.71000 REMARK 350 BIOMT1 7 0.513541 -0.858065 0.000000 229.24128 REMARK 350 BIOMT2 7 0.858065 0.513541 0.000000 -63.35885 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 -42.30000 REMARK 350 BIOMT1 8 0.154193 -0.988041 0.000000 312.67103 REMARK 350 BIOMT2 8 0.988041 0.154193 0.000000 -24.25086 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 -40.89000 REMARK 350 BIOMT1 9 -0.227671 -0.973738 0.000000 375.34027 REMARK 350 BIOMT2 9 0.973738 -0.227671 0.000000 43.29558 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 -39.48000 REMARK 350 BIOMT1 10 -0.576290 -0.817245 0.000000 408.09775 REMARK 350 BIOMT2 10 0.817245 -0.576290 0.000000 129.41704 REMARK 350 BIOMT3 10 0.000000 0.000000 1.000000 -38.07000 REMARK 350 BIOMT1 11 -0.840756 -0.541415 0.000000 406.16005 REMARK 350 BIOMT2 11 0.541415 -0.840756 0.000000 221.53762 REMARK 350 BIOMT3 11 0.000000 0.000000 1.000000 -36.66000 REMARK 350 BIOMT1 12 -0.982450 -0.186524 0.000000 369.81014 REMARK 350 BIOMT2 12 0.186524 -0.982450 0.000000 306.20544 REMARK 350 BIOMT3 12 0.000000 0.000000 1.000000 -35.25000 REMARK 350 BIOMT1 13 -0.980683 0.195604 0.000000 304.35600 REMARK 350 BIOMT2 13 -0.195604 -0.980683 0.000000 371.05690 REMARK 350 BIOMT3 13 0.000000 0.000000 1.000000 -33.84000 REMARK 350 BIOMT1 14 -0.835712 0.549169 0.000000 219.35555 REMARK 350 BIOMT2 14 -0.549169 -0.835712 0.000000 406.62208 REMARK 350 BIOMT3 14 0.000000 0.000000 1.000000 -32.43000 REMARK 350 BIOMT1 15 -0.568705 0.822541 0.000000 127.22099 REMARK 350 BIOMT2 15 -0.822541 -0.568705 0.000000 407.70756 REMARK 350 BIOMT3 15 0.000000 0.000000 1.000000 -31.02000 REMARK 350 BIOMT1 16 -0.218654 0.975802 0.000000 41.40623 REMARK 350 BIOMT2 16 -0.975802 -0.218654 0.000000 374.15485 REMARK 350 BIOMT3 16 0.000000 0.000000 1.000000 -29.61000 REMARK 350 BIOMT1 17 0.163326 0.986572 0.000000 -25.55763 REMARK 350 BIOMT2 17 -0.986572 0.163326 0.000000 310.86348 REMARK 350 BIOMT3 17 0.000000 0.000000 1.000000 -28.20000 REMARK 350 BIOMT1 18 0.521456 0.853278 0.000000 -63.89221 REMARK 350 BIOMT2 18 -0.853278 0.521456 0.000000 227.07555 REMARK 350 BIOMT3 18 0.000000 0.000000 1.000000 -26.79000 REMARK 350 BIOMT1 19 0.803441 0.595384 0.000000 -67.99970 REMARK 350 BIOMT2 19 -0.595384 0.803441 0.000000 135.02619 REMARK 350 BIOMT3 19 0.000000 0.000000 1.000000 -25.38000 REMARK 350 BIOMT1 20 0.968104 0.250549 0.000000 -37.28032 REMARK 350 BIOMT2 20 -0.250549 0.968104 0.000000 48.15688 REMARK 350 BIOMT3 20 0.000000 0.000000 1.000000 -23.97000 REMARK 350 BIOMT1 21 0.991399 -0.130872 0.000000 23.78015 REMARK 350 BIOMT2 21 0.130872 0.991399 0.000000 -20.84729 REMARK 350 BIOMT3 21 0.000000 0.000000 1.000000 -22.56000 REMARK 350 BIOMT1 22 0.869926 -0.493183 0.000000 106.26536 REMARK 350 BIOMT2 22 0.493183 0.869926 0.000000 -61.91001 REMARK 350 BIOMT3 22 0.000000 0.000000 1.000000 -21.15000 REMARK 350 BIOMT1 23 0.621421 -0.783477 0.000000 198.13043 REMARK 350 BIOMT2 23 0.783477 0.621421 0.000000 -69.03509 REMARK 350 BIOMT3 23 0.000000 0.000000 1.000000 -19.74000 REMARK 350 BIOMT1 24 0.282174 -0.959363 0.000000 285.96076 REMARK 350 BIOMT2 24 0.959363 0.282174 0.000000 -41.18210 REMARK 350 BIOMT3 24 0.000000 0.000000 1.000000 -18.33000 REMARK 350 BIOMT1 25 -0.098278 -0.995159 0.000000 356.93096 REMARK 350 BIOMT2 25 0.995159 -0.098278 0.000000 17.58173 REMARK 350 BIOMT3 25 0.000000 0.000000 1.000000 -16.92000 REMARK 350 BIOMT1 26 -0.464378 -0.885637 0.000000 400.67761 REMARK 350 BIOMT2 26 0.885637 -0.464378 0.000000 98.67543 REMARK 350 BIOMT3 26 0.000000 0.000000 1.000000 -15.51000 REMARK 350 BIOMT1 27 -0.762668 -0.646790 0.000000 410.81261 REMARK 350 BIOMT2 27 0.646790 -0.762668 0.000000 190.25729 REMARK 350 BIOMT3 27 0.000000 0.000000 1.000000 -14.10000 REMARK 350 BIOMT1 28 -0.949590 -0.313495 0.000000 385.85600 REMARK 350 BIOMT2 28 0.313495 -0.949590 0.000000 278.95411 REMARK 350 BIOMT3 28 0.000000 0.000000 1.000000 -12.69000 REMARK 350 BIOMT1 29 -0.997847 0.065577 0.000000 329.45207 REMARK 350 BIOMT2 29 -0.065577 -0.997847 0.000000 351.81393 REMARK 350 BIOMT3 29 0.000000 0.000000 1.000000 -11.28000 REMARK 350 BIOMT1 30 -0.900395 0.435074 0.000000 249.83719 REMARK 350 BIOMT2 30 -0.435074 -0.900395 0.000000 398.19741 REMARK 350 BIOMT3 30 0.000000 0.000000 1.000000 -9.87000 REMARK 350 BIOMT1 31 -0.671462 0.741039 0.000000 158.63711 REMARK 350 BIOMT2 31 -0.741039 -0.671462 0.000000 411.33142 REMARK 350 BIOMT3 31 0.000000 0.000000 1.000000 -8.46000 REMARK 350 BIOMT1 32 -0.344479 0.938794 0.000000 69.16931 REMARK 350 BIOMT2 32 -0.938794 -0.344479 0.000000 389.29806 REMARK 350 BIOMT3 32 0.000000 0.000000 1.000000 -7.05000 REMARK 350 BIOMT1 33 0.032806 0.999462 0.000000 -5.50170 REMARK 350 BIOMT2 33 -0.999462 0.032806 0.000000 335.31475 REMARK 350 BIOMT3 33 0.000000 0.000000 1.000000 -5.64000 REMARK 350 BIOMT1 34 0.405301 0.914183 0.000000 -54.47209 REMARK 350 BIOMT2 34 -0.914183 0.405301 0.000000 257.26440 REMARK 350 BIOMT3 34 0.000000 0.000000 1.000000 -4.23000 REMARK 350 BIOMT1 35 0.718612 0.695411 0.000000 -70.59096 REMARK 350 BIOMT2 35 -0.695411 0.718612 0.000000 166.54428 REMARK 350 BIOMT3 35 0.000000 0.000000 1.000000 -2.82000 REMARK 350 BIOMT1 36 0.926988 0.375092 0.000000 -51.50457 REMARK 350 BIOMT2 36 -0.375092 0.926988 0.000000 76.40181 REMARK 350 BIOMT3 36 0.000000 0.000000 1.000000 -1.41000 REMARK 350 BIOMT1 37 0.926988 -0.375092 0.000000 76.40181 REMARK 350 BIOMT2 37 0.375092 0.926988 0.000000 -51.50457 REMARK 350 BIOMT3 37 0.000000 0.000000 1.000000 1.41000 REMARK 350 BIOMT1 38 0.718612 -0.695411 0.000000 166.54428 REMARK 350 BIOMT2 38 0.695411 0.718612 0.000000 -70.59096 REMARK 350 BIOMT3 38 0.000000 0.000000 1.000000 2.82000 REMARK 350 BIOMT1 39 0.405301 -0.914183 0.000000 257.26440 REMARK 350 BIOMT2 39 0.914183 0.405301 0.000000 -54.47209 REMARK 350 BIOMT3 39 0.000000 0.000000 1.000000 4.23000 REMARK 350 BIOMT1 40 0.032806 -0.999462 0.000000 335.31475 REMARK 350 BIOMT2 40 0.999462 0.032806 0.000000 -5.50170 REMARK 350 BIOMT3 40 0.000000 0.000000 1.000000 5.64000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 56 -64.61 -92.31 REMARK 500 ASN A 102 82.08 59.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-4628 RELATED DB: EMDB DBREF1 6R7M A 2 154 UNP A0A348G6U1_9VIRU DBREF2 6R7M A A0A348G6U1 9 161 SEQRES 1 A 153 SER TYR SER ILE THR THR PRO SER GLN PHE VAL PHE LEU SEQRES 2 A 153 SER SER ALA TRP ALA ASP PRO ILE GLU LEU ILE ASN LEU SEQRES 3 A 153 CYS THR ASN ALA LEU GLY ASN GLN PHE GLN THR GLN GLN SEQRES 4 A 153 ALA ARG THR VAL VAL GLN ARG GLN PHE SER GLU VAL TRP SEQRES 5 A 153 LYS PRO SER PRO GLN VAL THR VAL ARG PHE PRO ASP SER SEQRES 6 A 153 ASP PHE LYS VAL TYR ARG TYR ASN ALA VAL LEU ASP PRO SEQRES 7 A 153 LEU VAL THR ALA LEU LEU GLY ALA PHE ASP THR ARG ASN SEQRES 8 A 153 ARG ILE ILE GLU VAL GLU ASN GLN ALA ASN PRO THR THR SEQRES 9 A 153 ALA GLU THR LEU ASP ALA THR ARG ARG VAL ASP ASP ALA SEQRES 10 A 153 THR VAL ALA ILE ARG SER ALA ILE ASN ASN LEU ILE VAL SEQRES 11 A 153 GLU LEU ILE ARG GLY THR GLY SER TYR ASN ARG SER SER SEQRES 12 A 153 PHE GLU SER SER SER GLY LEU VAL TRP THR HELIX 1 AA1 THR A 7 SER A 15 5 9 HELIX 2 AA2 ASP A 20 LEU A 32 1 13 HELIX 3 AA3 THR A 38 VAL A 52 1 15 HELIX 4 AA4 VAL A 76 PHE A 88 1 13 HELIX 5 AA5 ASN A 92 VAL A 97 1 6 HELIX 6 AA6 THR A 104 GLY A 136 1 33 HELIX 7 AA7 ASN A 141 GLY A 150 1 10 SHEET 1 AA1 3 TRP A 18 ALA A 19 0 SHEET 2 AA1 3 LYS A 69 TYR A 71 -1 O VAL A 70 N ALA A 19 SHEET 3 AA1 3 SER A 139 TYR A 140 -1 O TYR A 140 N LYS A 69 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