HEADER BIOSYNTHETIC PROTEIN, TRANSLATION 07-NOV-03 1RF8 TITLE SOLUTION STRUCTURE OF THE YEAST TRANSLATION INITIATION FACTOR EIF4E IN TITLE 2 COMPLEX WITH M7GDP AND EIF4GI RESIDUES 393 TO 490 COMPND MOL_ID: 1; COMPND 2 MOLECULE: EUKARYOTIC TRANSLATION INITIATION FACTOR 4E; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EIF4E, EIF-4E, MRNA CAP-BINDING PROTEIN, EIF-4F 25 KDA COMPND 5 SUBUNIT; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: EUKARYOTIC INITIATION FACTOR 4F SUBUNIT P150; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: RESIDUES 391-488 (SWS:P39935); COMPND 11 SYNONYM: EIF4F P150, EIF-4F P150, MRNA CAP-BINDING PROTEIN COMPLEX COMPND 12 SUBUNIT P150; COMPND 13 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 GENE: TIF45, CDC33, YOL139C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET30A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 12 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 13 ORGANISM_TAXID: 4932; SOURCE 14 GENE: TIF4631, YGR162W; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: BL21; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS INITIATION FACTOR, PROTEIN BIOSYNTHESIS, TRANSLATION REGULATION, KEYWDS 2 BIOSYNTHETIC PROTEIN, TRANSLATION EXPDTA SOLUTION NMR NUMMDL 11 AUTHOR J.D.GROSS,N.J.MOERKE,T.VON DER HAAR,A.A.LUGOVSKOY,A.B.SACHS, AUTHOR 2 J.E.G.MCCARTHY,G.WAGNER REVDAT 4 06-MAR-24 1RF8 1 COMPND REMARK SEQADV FORMUL REVDAT 4 2 1 LINK ATOM REVDAT 3 13-JUL-11 1RF8 1 VERSN REVDAT 2 24-FEB-09 1RF8 1 VERSN REVDAT 1 23-DEC-03 1RF8 0 JRNL AUTH J.D.GROSS,N.J.MOERKE,T.VON DER HAAR,A.A.LUGOVSKOY,A.B.SACHS, JRNL AUTH 2 J.E.MCCARTHY,G.WAGNER JRNL TITL RIBOSOME LOADING ONTO THE MRNA CAP IS DRIVEN BY JRNL TITL 2 CONFORMATIONAL COUPLING BETWEEN EIF4G AND EIF4E. JRNL REF CELL(CAMBRIDGE,MASS.) V. 115 739 2003 JRNL REFN ISSN 0092-8674 JRNL PMID 14675538 JRNL DOI 10.1016/S0092-8674(03)00975-9 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 1RF8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000020694. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6 MM 1:1:1 REMARK 210 M7GDP/EIF4E/EIF4G(393-490) REMARK 210 COMPLEX REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851 REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 11 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 SER B 301 H SER B 304 1.51 REMARK 500 O ILE A 78 H ILE A 81 1.51 REMARK 500 O GLN A 184 H LYS A 187 1.52 REMARK 500 O SER A 57 H ASP A 60 1.53 REMARK 500 O GLU A 103 H GLU A 107 1.57 REMARK 500 O ASP A 34 H THR B 248 1.58 REMARK 500 O TRP B 298 HG1 THR B 302 1.58 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 4 96.58 -44.55 REMARK 500 1 GLU A 5 -63.56 -144.70 REMARK 500 1 VAL A 14 92.29 -65.93 REMARK 500 1 SER A 15 127.90 178.97 REMARK 500 1 ASP A 17 125.40 171.72 REMARK 500 1 ASP A 18 29.79 46.81 REMARK 500 1 THR A 19 96.98 -41.77 REMARK 500 1 THR A 20 173.08 -51.14 REMARK 500 1 ALA A 21 173.21 66.45 REMARK 500 1 THR A 22 84.63 171.60 REMARK 500 1 ASP A 29 -76.93 -79.29 REMARK 500 1 SER A 30 0.84 84.91 REMARK 500 1 ALA A 31 35.89 171.42 REMARK 500 1 HIS A 32 75.17 175.15 REMARK 500 1 ALA A 51 -43.30 -164.24 REMARK 500 1 SER A 55 4.89 -150.48 REMARK 500 1 GLU A 56 -98.52 -74.44 REMARK 500 1 SER A 57 131.91 171.62 REMARK 500 1 LEU A 62 125.99 -34.24 REMARK 500 1 VAL A 65 -138.76 -143.08 REMARK 500 1 THR A 66 109.20 -13.98 REMARK 500 1 THR A 70 -152.29 -124.55 REMARK 500 1 VAL A 71 -32.98 -141.06 REMARK 500 1 GLU A 73 -76.45 -74.57 REMARK 500 1 GLU A 83 -173.47 51.39 REMARK 500 1 HIS A 85 30.42 -167.31 REMARK 500 1 LEU A 89 -169.34 -50.52 REMARK 500 1 PHE A 96 -171.88 177.44 REMARK 500 1 ARG A 97 -25.86 146.63 REMARK 500 1 ASN A 98 -31.45 -33.22 REMARK 500 1 VAL A 100 -128.43 -128.42 REMARK 500 1 ARG A 101 -53.47 164.31 REMARK 500 1 PRO A 102 -71.97 -22.01 REMARK 500 1 GLU A 103 -166.95 156.61 REMARK 500 1 ASP A 106 -42.96 -153.19 REMARK 500 1 ALA A 110 -77.09 -81.78 REMARK 500 1 LYS A 122 -76.99 -125.06 REMARK 500 1 ALA A 124 -74.56 -144.50 REMARK 500 1 ASP A 125 33.86 -157.01 REMARK 500 1 CYS A 132 -32.58 -36.85 REMARK 500 1 ASP A 143 175.04 178.54 REMARK 500 1 GLU A 144 -64.29 75.75 REMARK 500 1 ASP A 145 -82.82 -84.29 REMARK 500 1 ASP A 146 44.68 -88.91 REMARK 500 1 ILE A 149 171.66 -42.26 REMARK 500 1 SER A 155 107.73 -161.01 REMARK 500 1 LYS A 168 -33.26 -35.28 REMARK 500 1 CYS A 169 -73.00 134.83 REMARK 500 1 GLU A 170 33.20 32.14 REMARK 500 1 ASP A 171 135.91 82.15 REMARK 500 REMARK 500 THIS ENTRY HAS 918 RAMACHANDRAN OUTLIERS. 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 MTN A 320 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTN A 321 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTN A 322 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTN A 323 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE M7G A 325 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AP8 RELATED DB: PDB REMARK 900 YEAST TRANSLATION INITATION FACTOR EIF4E IN COMPLEX WITH M7GDP DBREF 1RF8 A 1 213 UNP P07260 IF4E_YEAST 1 213 DBREF 1RF8 B 215 314 UNP P39935 IF4F1_YEAST 391 488 SEQADV 1RF8 CYS A 120 UNP P07260 ARG 120 CONFLICT SEQADV 1RF8 CYS A 132 UNP P07260 ARG 132 CONFLICT SEQADV 1RF8 CYS A 169 UNP P07260 SER 169 CONFLICT SEQADV 1RF8 CYS A 200 UNP P07260 SER 200 CONFLICT SEQADV 1RF8 GLY B 215 UNP P39935 CLONING ARTIFACT SEQADV 1RF8 SER B 216 UNP P39935 CLONING ARTIFACT 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 CYS GLY LYS GLY ALA ASP ILE ASP GLU LEU TRP SEQRES 11 A 213 LEU CYS 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 CYS 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 CYS SER ALA ASN GLY ARG HIS PRO GLN SEQRES 17 A 213 PRO SER ILE THR LEU SEQRES 1 B 100 GLY SER ILE GLY LEU GLU ALA GLU ILE GLU THR THR THR SEQRES 2 B 100 ASP GLU THR ASP ASP GLY THR ASN THR VAL SER HIS ILE SEQRES 3 B 100 LEU ASN VAL LEU LYS ASP ALA THR PRO ILE GLU ASP VAL SEQRES 4 B 100 PHE SER PHE ASN TYR PRO GLU GLY ILE GLU GLY PRO ASP SEQRES 5 B 100 ILE LYS TYR LYS LYS GLU HIS VAL LYS TYR THR TYR GLY SEQRES 6 B 100 PRO THR PHE LEU LEU GLN PHE LYS ASP LYS LEU ASN VAL SEQRES 7 B 100 LYS ALA ASP ALA GLU TRP VAL GLN SER THR ALA SER LYS SEQRES 8 B 100 ILE VAL ILE PRO PRO GLY MET GLY ARG HET MTN A 320 27 HET MTN A 321 27 HET MTN A 322 27 HET MTN A 323 27 HET M7G A 325 44 HETNAM MTN S-[(1-OXYL-2,2,5,5-TETRAMETHYL-2,5-DIHYDRO-1H-PYRROL-3- HETNAM 2 MTN YL)METHYL] METHANESULFONOTHIOATE HETNAM M7G 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE HETSYN MTN MTSL FORMUL 3 MTN 4(C10 H18 N O3 S2) FORMUL 7 M7G C11 H18 N5 O11 P2 1+ HELIX 1 1 THR A 25 SER A 30 1 6 HELIX 2 2 SER A 57 LEU A 62 1 6 HELIX 3 3 VAL A 71 ASN A 80 1 10 HELIX 4 4 ILE A 81 ILE A 81 5 1 HELIX 5 5 PRO A 82 GLU A 86 5 5 HELIX 6 6 ASP A 106 GLY A 112 1 7 HELIX 7 7 ASP A 125 GLU A 140 1 16 HELIX 8 8 ASP A 171 LEU A 186 1 16 HELIX 9 9 HIS A 199 ASN A 203 1 5 HELIX 10 10 THR B 236 ASP B 246 1 11 HELIX 11 11 ASP B 252 PHE B 256 5 5 HELIX 12 12 LYS B 268 GLU B 272 5 5 HELIX 13 13 GLY B 279 ASN B 291 1 13 HELIX 14 14 ALA B 296 ALA B 303 1 8 SHEET 1 A 8 ARG A 63 VAL A 65 0 SHEET 2 A 8 TRP A 43 THR A 48 -1 N LEU A 45 O VAL A 65 SHEET 3 A 8 ASP A 92 ARG A 97 -1 O PHE A 96 N THR A 44 SHEET 4 A 8 GLY A 151 SER A 155 -1 O VAL A 152 N VAL A 95 SHEET 5 A 8 ASN A 161 THR A 167 -1 O ALA A 164 N VAL A 153 SHEET 6 A 8 GLY A 113 LEU A 119 -1 N TRP A 115 O LEU A 165 SHEET 7 A 8 GLU A 195 PRO A 198 -1 O PHE A 197 N LYS A 114 SHEET 8 A 8 ILE A 211 THR A 212 -1 O ILE A 211 N PHE A 196 LINK SG CYS A 120 S1 MTN A 320 1555 1555 2.03 LINK SG CYS A 132 S1 MTN A 321 1555 1555 2.03 LINK SG CYS A 169 S1 MTN A 322 1555 1555 2.03 LINK SG CYS A 200 S1 MTN A 323 1555 1555 2.03 SITE 1 AC1 1 CYS A 120 SITE 1 AC2 3 GLU A 128 CYS A 132 LEU B 284 SITE 1 AC3 1 CYS A 169 SITE 1 AC4 2 CYS A 200 ASN A 203 SITE 1 AC5 6 TRP A 58 ASP A 92 GLU A 103 TRP A 104 SITE 2 AC5 6 GLU A 105 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