HEADER RNA CAP 25-JUL-97 1AP8 TITLE TRANSLATION INITIATION FACTOR EIF4E IN COMPLEX WITH M7GDP, NMR, 20 TITLE 2 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSLATION INITIATION FACTOR EIF4E; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 CELL_LINE: BL21 (DE3); SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: BL21 KEYWDS RNA CAP, TRANSLATION INITIATION FACTOR EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.MATSUO,H.LI,A.M.MCGUIRE,M.FLETCHER,A.C.GINGRAS,N.SONENBERG,G.WAGNER REVDAT 4 06-MAR-24 1AP8 1 COMPND FORMUL REVDAT 3 16-FEB-22 1AP8 1 REMARK REVDAT 2 24-FEB-09 1AP8 1 VERSN REVDAT 1 28-JAN-98 1AP8 0 JRNL AUTH H.MATSUO,H.LI,A.M.MCGUIRE,C.M.FLETCHER,A.C.GINGRAS, JRNL AUTH 2 N.SONENBERG,G.WAGNER JRNL TITL STRUCTURE OF TRANSLATION FACTOR EIF4E BOUND TO M7GDP AND JRNL TITL 2 INTERACTION WITH 4E-BINDING PROTEIN. JRNL REF NAT.STRUCT.BIOL. V. 4 717 1997 JRNL REFN ISSN 1072-8368 JRNL PMID 9302999 JRNL DOI 10.1038/NSB0997-717 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1AP8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171088. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY (1H; 13C; 15N); HCCHTOCSY; REMARK 210 CT-HNCA; CT-HN(CO)CA; HNCACB; REMARK 210 HN(CO)CACB; HNCACO-D; HNCO; REMARK 210 HN(COCA)NH; HN(CA)HA; HN(COCA)HA; REMARK 210 HCC (CO)NNH REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS750; UNITY500; REMARK 210 UNITYPLUS500 REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : NO VIOLATION ABOVE 0.5 ANGSTROMS REMARK 210 AND 5 DEGREE DIHEDRAL ANGLE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O GLU A 103 H GLU A 107 1.39 REMARK 500 O GLN A 184 H LYS A 187 1.45 REMARK 500 H LYS A 114 O PHE A 197 1.46 REMARK 500 HD21 ASN A 150 O THR A 167 1.50 REMARK 500 O ILE A 78 H ILE A 81 1.50 REMARK 500 H LEU A 39 O GLN A 69 1.56 REMARK 500 O GLU A 83 H HIS A 85 1.58 REMARK 500 O SER A 57 H ASP A 60 1.59 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 5 -179.03 -57.68 REMARK 500 1 LYS A 8 130.84 64.01 REMARK 500 1 GLU A 11 49.93 -154.64 REMARK 500 1 ASP A 18 165.23 55.09 REMARK 500 1 LEU A 27 89.87 -172.48 REMARK 500 1 SER A 30 65.94 -158.78 REMARK 500 1 ALA A 31 -76.17 -49.85 REMARK 500 1 HIS A 32 -153.39 49.75 REMARK 500 1 ASP A 34 -86.62 -104.07 REMARK 500 1 VAL A 35 13.37 57.60 REMARK 500 1 HIS A 37 -60.06 167.43 REMARK 500 1 LEU A 39 -101.98 -93.99 REMARK 500 1 ASN A 40 24.84 -169.22 REMARK 500 1 LYS A 49 -65.72 -103.99 REMARK 500 1 PRO A 50 -160.47 -73.57 REMARK 500 1 ALA A 51 24.15 -165.72 REMARK 500 1 ASP A 53 -29.45 -38.31 REMARK 500 1 GLU A 56 -107.07 -97.33 REMARK 500 1 SER A 57 129.35 -170.23 REMARK 500 1 LEU A 61 -63.30 -95.06 REMARK 500 1 LEU A 62 122.10 -37.90 REMARK 500 1 VAL A 65 -135.60 -151.00 REMARK 500 1 THR A 66 112.49 -13.40 REMARK 500 1 ILE A 81 50.06 33.81 REMARK 500 1 PRO A 84 55.05 -69.01 REMARK 500 1 PRO A 88 41.82 -78.26 REMARK 500 1 LEU A 89 -157.79 36.22 REMARK 500 1 LYS A 90 24.88 45.50 REMARK 500 1 ASP A 92 93.99 -161.44 REMARK 500 1 PHE A 96 -178.57 175.75 REMARK 500 1 ARG A 97 -21.25 163.37 REMARK 500 1 ASN A 98 -71.18 -33.24 REMARK 500 1 VAL A 100 -132.74 -130.04 REMARK 500 1 ARG A 101 23.08 119.69 REMARK 500 1 GLU A 103 167.85 157.83 REMARK 500 1 TRP A 104 -18.02 -49.17 REMARK 500 1 LYS A 111 39.74 91.87 REMARK 500 1 ALA A 124 -10.82 75.64 REMARK 500 1 ASP A 125 40.83 -151.77 REMARK 500 1 GLU A 140 32.54 35.57 REMARK 500 1 THR A 141 29.60 40.85 REMARK 500 1 ASP A 143 158.50 62.97 REMARK 500 1 ASP A 145 -44.19 176.77 REMARK 500 1 LYS A 158 106.61 -45.56 REMARK 500 1 SER A 169 -0.76 151.11 REMARK 500 1 GLU A 170 -18.60 -41.15 REMARK 500 1 ASP A 171 139.67 91.21 REMARK 500 1 THR A 189 -28.29 173.71 REMARK 500 1 ASP A 190 -34.47 -39.01 REMARK 500 1 ASP A 191 33.60 -179.09 REMARK 500 REMARK 500 THIS ENTRY HAS 1128 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 63 0.29 SIDE CHAIN REMARK 500 1 ARG A 97 0.21 SIDE CHAIN REMARK 500 1 ARG A 101 0.12 SIDE CHAIN REMARK 500 1 ARG A 120 0.18 SIDE CHAIN REMARK 500 1 ARG A 132 0.29 SIDE CHAIN REMARK 500 1 ARG A 177 0.25 SIDE CHAIN REMARK 500 1 ARG A 205 0.17 SIDE CHAIN REMARK 500 2 ARG A 63 0.11 SIDE CHAIN REMARK 500 2 ARG A 97 0.31 SIDE CHAIN REMARK 500 2 ARG A 101 0.31 SIDE CHAIN REMARK 500 2 ARG A 120 0.32 SIDE CHAIN REMARK 500 2 ARG A 132 0.24 SIDE CHAIN REMARK 500 2 ARG A 157 0.20 SIDE CHAIN REMARK 500 2 ARG A 177 0.17 SIDE CHAIN REMARK 500 2 ARG A 205 0.32 SIDE CHAIN REMARK 500 3 ARG A 63 0.18 SIDE CHAIN REMARK 500 3 ARG A 97 0.29 SIDE CHAIN REMARK 500 3 ARG A 101 0.31 SIDE CHAIN REMARK 500 3 ARG A 120 0.25 SIDE CHAIN REMARK 500 3 ARG A 132 0.15 SIDE CHAIN REMARK 500 3 ARG A 177 0.23 SIDE CHAIN REMARK 500 3 ARG A 205 0.09 SIDE CHAIN REMARK 500 4 ARG A 63 0.17 SIDE CHAIN REMARK 500 4 ARG A 97 0.19 SIDE CHAIN REMARK 500 4 ARG A 101 0.31 SIDE CHAIN REMARK 500 4 ARG A 120 0.28 SIDE CHAIN REMARK 500 4 ARG A 132 0.24 SIDE CHAIN REMARK 500 4 ARG A 157 0.32 SIDE CHAIN REMARK 500 4 ARG A 177 0.32 SIDE CHAIN REMARK 500 4 ARG A 205 0.26 SIDE CHAIN REMARK 500 5 ARG A 63 0.16 SIDE CHAIN REMARK 500 5 ARG A 97 0.26 SIDE CHAIN REMARK 500 5 ARG A 101 0.29 SIDE CHAIN REMARK 500 5 ARG A 120 0.14 SIDE CHAIN REMARK 500 5 ARG A 132 0.32 SIDE CHAIN REMARK 500 5 ARG A 157 0.19 SIDE CHAIN REMARK 500 5 ARG A 205 0.32 SIDE CHAIN REMARK 500 6 ARG A 63 0.28 SIDE CHAIN REMARK 500 6 ARG A 97 0.21 SIDE CHAIN REMARK 500 6 ARG A 132 0.13 SIDE CHAIN REMARK 500 6 ARG A 157 0.14 SIDE CHAIN REMARK 500 6 ARG A 177 0.28 SIDE CHAIN REMARK 500 6 ARG A 205 0.17 SIDE CHAIN REMARK 500 7 ARG A 63 0.16 SIDE CHAIN REMARK 500 7 ARG A 97 0.31 SIDE CHAIN REMARK 500 7 ARG A 101 0.30 SIDE CHAIN REMARK 500 7 ARG A 120 0.30 SIDE CHAIN REMARK 500 7 ARG A 132 0.32 SIDE CHAIN REMARK 500 7 ARG A 157 0.18 SIDE CHAIN REMARK 500 7 ARG A 177 0.32 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 145 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE M7G A 214 DBREF 1AP8 A 1 213 UNP P07260 IF4E_YEAST 1 213 SEQRES 1 A 213 MET SER VAL GLU GLU VAL SER LYS LYS PHE GLU GLU ASN SEQRES 2 A 213 VAL SER VAL ASP ASP THR THR ALA THR PRO LYS THR VAL SEQRES 3 A 213 LEU SER ASP SER ALA HIS PHE ASP VAL LYS HIS PRO LEU SEQRES 4 A 213 ASN THR LYS TRP THR LEU TRP TYR THR LYS PRO ALA VAL SEQRES 5 A 213 ASP LYS SER GLU SER TRP SER ASP LEU LEU ARG PRO VAL SEQRES 6 A 213 THR SER PHE GLN THR VAL GLU GLU PHE TRP ALA ILE ILE SEQRES 7 A 213 GLN ASN ILE PRO GLU PRO HIS GLU LEU PRO LEU LYS SER SEQRES 8 A 213 ASP TYR HIS VAL PHE ARG ASN ASP VAL ARG PRO GLU TRP SEQRES 9 A 213 GLU ASP GLU ALA ASN ALA LYS GLY GLY LYS TRP SER PHE SEQRES 10 A 213 GLN LEU ARG GLY LYS GLY ALA ASP ILE ASP GLU LEU TRP SEQRES 11 A 213 LEU ARG THR LEU LEU ALA VAL ILE GLY GLU THR ILE ASP SEQRES 12 A 213 GLU ASP ASP SER GLN ILE ASN GLY VAL VAL LEU SER ILE SEQRES 13 A 213 ARG LYS GLY GLY ASN LYS PHE ALA LEU TRP THR LYS SER SEQRES 14 A 213 GLU ASP LYS GLU PRO LEU LEU ARG ILE GLY GLY LYS PHE SEQRES 15 A 213 LYS GLN VAL LEU LYS LEU THR ASP ASP GLY HIS LEU GLU SEQRES 16 A 213 PHE PHE PRO HIS SER SER ALA ASN GLY ARG HIS PRO GLN SEQRES 17 A 213 PRO SER ILE THR LEU HET M7G A 214 44 HETNAM M7G 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE FORMUL 2 M7G C11 H18 N5 O11 P2 1+ HELIX 1 H1 TRP A 58 ASP A 60 1 3 HELIX 2 H2 VAL A 71 ASN A 80 1 10 HELIX 3 H3 ASP A 106 ALA A 110 1 5 HELIX 4 H4 ILE A 126 ILE A 138 1 13 HELIX 5 H5 GLU A 173 VAL A 185 1 13 HELIX 6 H6 HIS A 199 ALA A 202 1 4 SHEET 1 S1 8 LEU A 62 GLN A 69 0 SHEET 2 S1 8 LEU A 39 THR A 48 -1 SHEET 3 S1 8 SER A 91 PHE A 96 -1 SHEET 4 S1 8 GLY A 151 ARG A 157 -1 SHEET 5 S1 8 ASN A 161 THR A 167 -1 SHEET 6 S1 8 GLY A 113 LEU A 119 -1 SHEET 7 S1 8 LEU A 194 PHE A 197 -1 SHEET 8 S1 8 ILE A 211 LEU A 213 -1 SITE 1 AC1 7 TRP A 58 ASP A 92 GLU A 103 TRP A 104 SITE 2 AC1 7 GLU A 105 ILE A 156 ARG A 157 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