HEADER TRANSLATION 23-JUL-06 2HST TITLE SOLUTION STRUCTURE OF THE MIDDLE DOMAIN OF HUMAN EUKARYOTIC TITLE 2 TRANSLATION TERMINATION FACTOR ERF1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 139-274; COMPND 5 SYNONYM: ERF1, EUKARYOTIC RELEASE FACTOR 1, TB3-1, CL1 PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ETF1, ERF1, RF1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET23B(+) (NOVAGEN) KEYWDS TERMINATION OF PROTEIN SYNTHESIS, PEPTIDYL-TRNA HYDROLYSIS, NMR KEYWDS 2 SOLUTION STRUCTURE, TRANSLATION EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR V.I.POLSHAKOV,B.BIRDSALL,L.L.KISSELEV REVDAT 4 09-MAR-22 2HST 1 REMARK REVDAT 3 24-FEB-09 2HST 1 VERSN REVDAT 2 04-SEP-07 2HST 1 JRNL REVDAT 1 26-JUN-07 2HST 0 JRNL AUTH E.V.IVANOVA,P.M.KOLOSOV,B.BIRDSALL,G.KELLY,A.PASTORE, JRNL AUTH 2 L.L.KISSELEV,V.I.POLSHAKOV JRNL TITL EUKARYOTIC CLASS 1 TRANSLATION TERMINATION FACTOR ERF1 - THE JRNL TITL 2 NMR STRUCTURE AND DYNAMICS OF THE MIDDLE DOMAIN INVOLVED IN JRNL TITL 3 TRIGGERING RIBOSOME-DEPENDENT PEPTIDYL-TRNA HYDROLYSIS JRNL REF FEBS J. V. 274 4223 2007 JRNL REFN ISSN 1742-464X JRNL PMID 17651434 JRNL DOI 10.1111/J.1742-4658.2007.05949.X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1C, XPLOR-NIH 2.11.2 REMARK 3 AUTHORS : VARIAN (VNMR), REMARK 3 C.D.SCHWIETERS,J.J.KUSZEWSKI,N.TJANDRA,G.MARIUS REMARK 3 CLORE (XPLOR-NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2HST COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038718. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 278 REMARK 210 PH : 7.0; 7.0 REMARK 210 IONIC STRENGTH : 50 MM KCL; 50 MM KCL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM M-ERF1 U-15N,13C; 20MM REMARK 210 PHOSPHATE BUFFER K; 95% H2O, 5% REMARK 210 D2O; 1MM M-ERF1 U-15N,13C; 20MM REMARK 210 PHOSPHATE BUFFER K; 100% D2O; REMARK 210 1MM M-ERF1 U-15N; 20MM PHOSPHATE REMARK 210 BUFFER K; 95% H2O, 5% D2O; 1MM M- REMARK 210 ERF1; 20MM PHOSPHATE BUFFER K; REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 2D NOESY; HNHA; REMARK 210 DQF-COSY; HNCA; HNCOCA; HNCACB; REMARK 210 CACBCOHN REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; UNITYPLUS; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.3, SPARKY 3.111, ARIA REMARK 210 1.6, CNS 1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 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: 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 1-25 REMARK 465 RES C SSSEQI REMARK 465 GLU A 276 REMARK 465 HIS A 277 REMARK 465 HIS A 278 REMARK 465 HIS A 279 REMARK 465 HIS A 280 REMARK 465 HIS A 281 REMARK 465 HIS A 282 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 A 215 H LYS A 218 1.31 REMARK 500 O PHE A 146 H LEU A 161 1.45 REMARK 500 O GLY A 260 H PHE A 264 1.47 REMARK 500 O ARG A 194 H LYS A 197 1.48 REMARK 500 O LYS A 145 H ALA A 222 1.54 REMARK 500 O ARG A 203 H GLU A 207 1.57 REMARK 500 O GLU A 261 HD21 ASN A 265 1.58 REMARK 500 O ALA A 209 H PHE A 213 1.60 REMARK 500 O ASP A 152 OH TYR A 201 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 10 PHE A 148 CB - CG - CD1 ANGL. DEV. = -4.4 DEGREES 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 LEU A 176 -161.54 -71.40 REMARK 500 1 PRO A 177 158.06 -17.38 REMARK 500 1 MET A 195 -26.59 -31.69 REMARK 500 1 ASP A 217 13.99 -148.26 REMARK 500 1 SER A 237 -95.51 -38.42 REMARK 500 1 GLN A 238 96.32 31.92 REMARK 500 1 GLU A 261 -68.86 -23.86 REMARK 500 1 SER A 271 70.39 -117.43 REMARK 500 2 LEU A 176 -161.38 -66.64 REMARK 500 2 PRO A 177 156.58 -19.16 REMARK 500 2 MET A 195 -32.79 -32.79 REMARK 500 2 ASP A 217 13.09 -148.67 REMARK 500 2 SER A 237 -97.46 -37.78 REMARK 500 2 GLN A 238 98.50 32.78 REMARK 500 2 GLU A 261 -70.50 -24.03 REMARK 500 2 SER A 271 70.92 -119.25 REMARK 500 3 LEU A 176 -162.58 -51.08 REMARK 500 3 PRO A 177 156.32 -17.00 REMARK 500 3 ASP A 217 15.70 -148.15 REMARK 500 3 ALA A 230 26.90 44.43 REMARK 500 3 SER A 237 -99.46 -46.98 REMARK 500 3 GLN A 238 95.94 40.38 REMARK 500 3 GLU A 261 -67.99 -23.45 REMARK 500 3 SER A 271 71.41 -114.41 REMARK 500 4 LEU A 176 -161.36 -62.72 REMARK 500 4 PRO A 177 169.23 -20.60 REMARK 500 4 MET A 195 -31.92 -32.87 REMARK 500 4 ASP A 217 12.33 -148.24 REMARK 500 4 SER A 237 -94.68 -32.35 REMARK 500 4 GLN A 238 99.34 25.83 REMARK 500 4 GLU A 261 -71.02 -24.28 REMARK 500 5 LEU A 176 -160.36 -61.66 REMARK 500 5 PRO A 177 153.12 -25.27 REMARK 500 5 MET A 195 -32.11 -30.75 REMARK 500 5 ASP A 217 13.56 -148.25 REMARK 500 5 SER A 237 -96.99 -42.71 REMARK 500 5 GLN A 238 95.11 35.69 REMARK 500 5 GLU A 261 -67.50 -23.43 REMARK 500 5 SER A 271 69.21 -114.52 REMARK 500 6 LEU A 176 -160.15 -56.86 REMARK 500 6 PRO A 177 160.41 -16.42 REMARK 500 6 ASP A 217 13.99 -150.00 REMARK 500 6 SER A 237 -97.22 -42.83 REMARK 500 6 GLN A 238 96.93 35.19 REMARK 500 6 SER A 271 67.51 -110.95 REMARK 500 7 LEU A 176 -163.56 -55.72 REMARK 500 7 PRO A 177 160.85 -17.00 REMARK 500 7 MET A 195 -38.86 -36.34 REMARK 500 7 ASP A 217 13.71 -148.93 REMARK 500 7 ALA A 230 27.79 44.40 REMARK 500 REMARK 500 THIS ENTRY HAS 195 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 2 ARG A 166 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DT9 RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF HUMAN EUKARYOTIC RELEASE FACTOR ERF1- REMARK 900 MECHANISM OF STOP CODON RECOGNITION AND PEPTIDYL-TRNA HYDROLYSIS DBREF 2HST A 140 275 UNP P62495 ERF1_HUMAN 139 274 SEQRES 1 A 143 LEU SER ASP ASP SER LYS PHE GLY PHE ILE VAL ILE ASP SEQRES 2 A 143 GLY SER GLY ALA LEU PHE GLY THR LEU GLN GLY ASN THR SEQRES 3 A 143 ARG GLU VAL LEU HIS LYS PHE THR VAL ASP LEU PRO LYS SEQRES 4 A 143 LYS HIS GLY ARG GLY GLY GLN SER ALA LEU ARG PHE ALA SEQRES 5 A 143 ARG LEU ARG MET GLU LYS ARG HIS ASN TYR VAL ARG LYS SEQRES 6 A 143 VAL ALA GLU THR ALA VAL GLN LEU PHE ILE SER GLY ASP SEQRES 7 A 143 LYS VAL ASN VAL ALA GLY LEU VAL LEU ALA GLY SER ALA SEQRES 8 A 143 ASP PHE LYS THR GLU LEU SER GLN SER ASP MET PHE ASP SEQRES 9 A 143 GLN ARG LEU GLN SER LYS VAL LEU LYS LEU VAL ASP ILE SEQRES 10 A 143 SER TYR GLY GLY GLU ASN GLY PHE ASN GLN ALA ILE GLU SEQRES 11 A 143 LEU SER THR GLU VAL LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 SER A 186 PHE A 213 1 28 HELIX 2 2 ASP A 231 SER A 237 1 7 HELIX 3 3 ASP A 243 SER A 248 1 6 HELIX 4 4 GLY A 260 SER A 271 1 12 SHEET 1 A 5 THR A 165 PHE A 172 0 SHEET 2 A 5 GLY A 155 GLN A 162 -1 N GLN A 162 O THR A 165 SHEET 3 A 5 LYS A 145 ASP A 152 -1 N PHE A 146 O LEU A 161 SHEET 4 A 5 LEU A 224 GLY A 228 1 O ALA A 227 N ILE A 149 SHEET 5 A 5 VAL A 250 VAL A 254 1 O LYS A 252 N LEU A 226 SHEET 1 B 2 ILE A 214 SER A 215 0 SHEET 2 B 2 LYS A 218 VAL A 219 -1 O LYS A 218 N SER A 215 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