HEADER VIRAL PROTEIN 21-DEC-18 6NFW TITLE POTYVIRUS VIRAL PROTEIN GENOME LINKED (VPG) EMULATES THE M7G CAP TO TITLE 2 RECRUIT THE EUKARYOTIC TRANSLATION INITIATION FACTOR EIF4E COMPND MOL_ID: 1; COMPND 2 MOLECULE: VPG; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: POTATO VIRUS Y; SOURCE 3 ORGANISM_TAXID: 12216; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS POTYVIRUS, VIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR K.BORDEN,L.VOLPON,M.OSBORNE REVDAT 7 15-MAY-24 6NFW 1 REMARK REVDAT 6 14-JUN-23 6NFW 1 REMARK REVDAT 5 18-DEC-19 6NFW 1 REMARK REVDAT 4 11-DEC-19 6NFW 1 JRNL REVDAT 3 27-NOV-19 6NFW 1 JRNL REVDAT 2 13-NOV-19 6NFW 1 JRNL REVDAT 1 06-NOV-19 6NFW 0 JRNL AUTH L.COUTINHO DE OLIVEIRA,L.VOLPON,A.K.RAHARDJO,M.J.OSBORNE, JRNL AUTH 2 B.CULJKOVIC-KRALJACIC,C.TRAHAN,M.OEFFINGER,B.H.KWOK, JRNL AUTH 3 K.L.B.BORDEN JRNL TITL STRUCTURAL STUDIES OF THE EIF4E-VPG COMPLEX REVEAL A DIRECT JRNL TITL 2 COMPETITION FOR CAPPED RNA: IMPLICATIONS FOR TRANSLATION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 116 24056 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31712417 JRNL DOI 10.1073/PNAS.1904752116 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.98 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6NFW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000238693. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 450 UM [U-13C; U-15N] PVY-VPG, REMARK 210 50 MM SODIUM PHOSPHATE, 150 MM REMARK 210 SODIUM CHLORIDE, 1 MM DTT, 0.02 % REMARK 210 V/V SODIUM AZIDE, 100 UM DSS, REMARK 210 93% H2O/7% D2O; 450 UM [U-13C; U- REMARK 210 15N] PVY-VPG, 50 MM SODIUM REMARK 210 PHOSPHATE, 150 MM SODIUM REMARK 210 CHLORIDE, 1 MM DTT, 0.02 % V/V REMARK 210 SODIUM AZIDE, 100 UM DSS, 100% REMARK 210 D2O; 450 UM ILV LABELED PVY-VPG, REMARK 210 50 MM SODIUM PHOSPHATE, 150 MM REMARK 210 SODIUM CHLORIDE, 1 MM DTT, 0.02 % REMARK 210 V/V SODIUM AZIDE, 100 UM DSS, REMARK 210 93% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D 1H-15N NOESY; 3D 1H-13C NOESY; REMARK 210 4D METHYL-METHYL 13C-RESOLVED REMARK 210 HMQC-NOESY-HMQC; 3D 1H-13C NOESY REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 3.98, SPARKY REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 LYS A 2 REMARK 465 ASN A 3 REMARK 465 LYS A 4 REMARK 465 SER A 5 REMARK 465 LYS A 6 REMARK 465 ARG A 7 REMARK 465 ILE A 8 REMARK 465 GLN A 9 REMARK 465 ALA A 10 REMARK 465 LEU A 11 REMARK 465 LYS A 12 REMARK 465 PHE A 13 REMARK 465 ARG A 14 REMARK 465 HIS A 15 REMARK 465 ALA A 16 REMARK 465 ARG A 17 REMARK 465 ASP A 18 REMARK 465 LYS A 19 REMARK 465 ARG A 20 REMARK 465 ALA A 21 REMARK 465 GLY A 22 REMARK 465 PHE A 23 REMARK 465 GLU A 24 REMARK 465 ILE A 25 REMARK 465 ASP A 26 REMARK 465 ASN A 27 REMARK 465 ASN A 28 REMARK 465 ASP A 29 REMARK 465 ASP A 30 REMARK 465 THR A 31 REMARK 465 ILE A 32 REMARK 465 GLU A 33 REMARK 465 GLU A 34 REMARK 465 PHE A 35 REMARK 465 PHE A 36 REMARK 465 GLY A 37 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 1 LYS A 42 77.86 -116.18 REMARK 500 1 LYS A 45 41.58 39.45 REMARK 500 1 ASP A 67 72.57 -114.38 REMARK 500 1 PRO A 68 98.56 -69.79 REMARK 500 1 LEU A 80 -75.99 -50.28 REMARK 500 1 THR A 81 -68.97 -97.31 REMARK 500 1 ASP A 111 80.47 64.45 REMARK 500 1 MET A 115 15.04 -140.87 REMARK 500 1 THR A 122 -59.32 -152.03 REMARK 500 1 HIS A 144 49.52 -103.33 REMARK 500 1 ASP A 151 138.69 -175.45 REMARK 500 1 ALA A 157 40.05 -100.32 REMARK 500 1 PRO A 160 82.59 -69.70 REMARK 500 1 LEU A 164 102.17 -55.37 REMARK 500 1 PRO A 181 78.93 -69.79 REMARK 500 2 ASP A 67 72.82 -177.70 REMARK 500 2 LEU A 80 -70.25 -48.88 REMARK 500 2 ASP A 111 68.78 65.04 REMARK 500 2 SER A 120 -169.69 -105.76 REMARK 500 2 LYS A 130 81.86 58.05 REMARK 500 2 TRP A 132 -65.00 -135.04 REMARK 500 2 ASN A 145 69.56 -177.11 REMARK 500 2 PHE A 159 70.72 -152.13 REMARK 500 2 GLU A 165 -74.36 -94.87 REMARK 500 2 THR A 169 35.42 -94.81 REMARK 500 2 PRO A 171 -171.60 -69.78 REMARK 500 2 PRO A 181 78.49 -69.71 REMARK 500 3 LYS A 47 107.68 -54.98 REMARK 500 3 LYS A 55 49.96 -96.25 REMARK 500 3 ASN A 62 115.38 -175.06 REMARK 500 3 ASP A 67 72.73 -179.11 REMARK 500 3 THR A 69 -73.63 -99.40 REMARK 500 3 SER A 72 112.62 -177.64 REMARK 500 3 ASP A 111 74.38 63.84 REMARK 500 3 ASP A 112 -42.21 -141.60 REMARK 500 3 GLU A 114 -40.34 -133.74 REMARK 500 3 MET A 115 25.23 -151.20 REMARK 500 3 SER A 120 -68.29 -96.15 REMARK 500 3 THR A 122 -42.04 -143.00 REMARK 500 3 ASP A 134 76.53 -105.25 REMARK 500 3 PRO A 143 92.07 -69.74 REMARK 500 3 ASN A 145 -60.98 179.74 REMARK 500 3 VAL A 149 146.60 -175.94 REMARK 500 3 LYS A 152 -72.86 -102.69 REMARK 500 3 PHE A 159 73.22 62.43 REMARK 500 3 PRO A 160 -171.25 -69.70 REMARK 500 3 GLU A 165 -73.53 -70.48 REMARK 500 3 THR A 169 100.29 -59.92 REMARK 500 3 PRO A 181 78.59 -69.83 REMARK 500 3 GLU A 184 106.46 -51.66 REMARK 500 REMARK 500 THIS ENTRY HAS 164 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27506 RELATED DB: BMRB DBREF 6NFW A 1 185 UNP A6YPB3 A6YPB3_9POTV 1 185 SEQADV 6NFW VAL A 149 UNP A6YPB3 ILE 149 CONFLICT SEQADV 6NFW GLU A 186 UNP A6YPB3 EXPRESSION TAG SEQADV 6NFW HIS A 187 UNP A6YPB3 EXPRESSION TAG SEQADV 6NFW GLU A 188 UNP A6YPB3 EXPRESSION TAG SEQRES 1 A 188 GLY LYS ASN LYS SER LYS ARG ILE GLN ALA LEU LYS PHE SEQRES 2 A 188 ARG HIS ALA ARG ASP LYS ARG ALA GLY PHE GLU ILE ASP SEQRES 3 A 188 ASN ASN ASP ASP THR ILE GLU GLU PHE PHE GLY SER ALA SEQRES 4 A 188 TYR ARG LYS LYS GLY LYS GLY LYS GLY THR THR VAL GLY SEQRES 5 A 188 MET GLY LYS SER SER ARG ARG PHE ILE ASN MET TYR GLY SEQRES 6 A 188 PHE ASP PRO THR GLU TYR SER PHE ILE GLN PHE VAL ASP SEQRES 7 A 188 PRO LEU THR GLY ALA GLN ILE GLU GLU ASN VAL TYR ALA SEQRES 8 A 188 ASP ILE ARG ASP ILE GLN GLU ARG PHE SER GLU VAL ARG SEQRES 9 A 188 LYS LYS MET VAL GLU ASN ASP ASP ILE GLU MET GLN ALA SEQRES 10 A 188 LEU GLY SER ASN THR THR ILE HIS ALA TYR PHE ARG LYS SEQRES 11 A 188 ASP TRP SER ASP LYS ALA LEU LYS ILE ASP LEU MET PRO SEQRES 12 A 188 HIS ASN PRO LEU LYS VAL CYS ASP LYS THR ASN GLY ILE SEQRES 13 A 188 ALA LYS PHE PRO GLU ARG GLU LEU GLU LEU ARG GLN THR SEQRES 14 A 188 GLY PRO ALA VAL GLU VAL ASP VAL LYS ASP ILE PRO ALA SEQRES 15 A 188 GLN GLU VAL GLU HIS GLU HELIX 1 AA1 ASP A 92 ASP A 111 1 20 SHEET 1 AA1 5 ILE A 85 GLU A 87 0 SHEET 2 AA1 5 ILE A 74 VAL A 77 -1 N PHE A 76 O ILE A 85 SHEET 3 AA1 5 ILE A 124 ARG A 129 -1 O TYR A 127 N GLN A 75 SHEET 4 AA1 5 LYS A 135 LEU A 141 -1 O LEU A 141 N ILE A 124 SHEET 5 AA1 5 VAL A 173 ASP A 176 -1 O VAL A 175 N ALA A 136 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 MODEL 1