HEADER TRANSLATION 27-NOV-06 2O0F TITLE DOCKING OF THE MODIFIED RF3 X-RAY STRUCTURE INTO CRYO-EM MAP OF E.COLI TITLE 2 70S RIBOSOME BOUND WITH RF3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE CHAIN RELEASE FACTOR 3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RF-3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RF3, RIBOSOME, CRYO-EM, TRANSLATION EXPDTA ELECTRON MICROSCOPY MDLTYP CA ATOMS ONLY, CHAIN A AUTHOR H.GAO,Z.ZHOU,U.RAWAT,C.HUANG,L.BOUAKAZ,C.WANG,Y.LIU,A.ZAVIALOV, AUTHOR 2 R.GURSKY,S.SANYAL,M.EHRENBERG,J.FRANK,H.SONG REVDAT 5 27-DEC-23 2O0F 1 REMARK REVDAT 4 18-JUL-18 2O0F 1 REMARK REVDAT 3 02-FEB-10 2O0F 1 REMARK REVDAT 2 24-FEB-09 2O0F 1 VERSN REVDAT 1 24-JUL-07 2O0F 0 JRNL AUTH H.GAO,Z.ZHOU,U.RAWAT,C.HUANG,L.BOUAKAZ,C.WANG,Z.CHENG,Y.LIU, JRNL AUTH 2 A.ZAVIALOV,R.GURSKY,S.SANYAL,M.EHRENBERG,J.FRANK,H.SONG JRNL TITL RF3 INDUCES RIBOSOMAL CONFORMATIONAL CHANGES RESPONSIBLE FOR JRNL TITL 2 DISSOCIATION OF CLASS I RELEASE FACTORS JRNL REF CELL(CAMBRIDGE,MASS.) V. 129 929 2007 JRNL REFN ISSN 0092-8674 JRNL PMID 17540173 JRNL DOI 10.1016/J.CELL.2007.03.050 REMARK 2 REMARK 2 RESOLUTION. 15.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RSREF, RSREF, SPIDER REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 2H5E REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : RIGID BODY FIT REMARK 3 REFINEMENT TARGET : CROSS-CORRELATION COEFFICIENT REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--AUTO REFINEMENT PROTOCOL--MULTI-RIGID REMARK 3 BODY, REAL-SPACE REFINEMENT REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 2.800 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 15.50 REMARK 3 NUMBER OF PARTICLES : 45000 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: TMV REMARK 3 REMARK 3 OTHER DETAILS: SPIDER PACKAGE, 0.5 CUTOFF OF FSC, THIS ENTRY REMARK 3 CONTAINS CA ATOMS ONLY REMARK 4 REMARK 4 2O0F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040529. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : VITREOUS ICE (CRYO EM) REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : RIBOSOMAL RELEASE COMPLEX BOUND REMARK 245 WITH RF3 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.08 REMARK 245 SAMPLE SUPPORT DETAILS : QUANTI-FOIL GRIDS COATED WITH A REMARK 245 THIN CARBON LAYER REMARK 245 SAMPLE VITRIFICATION DETAILS : RAPID-FREEZING IN LIQUID ETHANE REMARK 245 SAMPLE BUFFER : POLYMIX BUFFER REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 01-JAN-02 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 93.00 REMARK 245 MICROSCOPE MODEL : FEI TECNAI F20 REMARK 245 DETECTOR TYPE : KODAK SO-163 FILM REMARK 245 MINIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 4000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : 0.00 REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : 0.00 REMARK 245 NOMINAL CS : 2.00 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 2000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 50000 REMARK 245 CALIBRATED MAGNIFICATION : 49696 REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 200 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 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ALA A 39 REMARK 465 ILE A 40 REMARK 465 GLN A 41 REMARK 465 THR A 42 REMARK 465 ALA A 43 REMARK 465 GLY A 44 REMARK 465 THR A 45 REMARK 465 VAL A 46 REMARK 465 LYS A 47 REMARK 465 GLY A 48 REMARK 465 ARG A 49 REMARK 465 GLY A 50 REMARK 465 SER A 51 REMARK 465 ASN A 52 REMARK 465 GLN A 53 REMARK 465 HIS A 54 REMARK 465 ALA A 55 REMARK 465 LYS A 56 REMARK 465 SER A 57 REMARK 465 ASP A 58 REMARK 465 TRP A 59 REMARK 465 MET A 60 REMARK 465 GLU A 61 REMARK 465 MET A 62 REMARK 465 GLU A 63 REMARK 465 LYS A 64 REMARK 465 GLN A 65 REMARK 465 ARG A 66 REMARK 465 GLY A 67 REMARK 465 ILE A 68 REMARK 465 SER A 69 REMARK 465 GLY A 351 REMARK 465 ASP A 352 REMARK 465 ARG A 353 REMARK 465 SER A 354 REMARK 465 HIS A 355 REMARK 465 LEU A 407 REMARK 465 LYS A 408 REMARK 465 GLN A 409 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2H5E RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF E.COLI POLYPEPTIDE RELEASE FACTOR RF3 REMARK 900 RELATED ID: EMD-1302 RELATED DB: EMDB DBREF 2O0F A 1 529 UNP Q0T8T9 Q0T8T9_ECOL5 10 538 SEQRES 1 A 529 MET THR LEU SER PRO TYR LEU GLN GLU VAL ALA LYS ARG SEQRES 2 A 529 ARG THR PHE ALA ILE ILE SER HIS PRO ASP ALA GLY LYS SEQRES 3 A 529 THR THR ILE THR GLU LYS VAL LEU LEU PHE GLY GLN ALA SEQRES 4 A 529 ILE GLN THR ALA GLY THR VAL LYS GLY ARG GLY SER ASN SEQRES 5 A 529 GLN HIS ALA LYS SER ASP TRP MET GLU MET GLU LYS GLN SEQRES 6 A 529 ARG GLY ILE SER ILE THR THR SER VAL MET GLN PHE PRO SEQRES 7 A 529 TYR HIS ASP CYS LEU VAL ASN LEU LEU ASP THR PRO GLY SEQRES 8 A 529 HIS GLU ASP PHE SER GLU ASP THR TYR ARG THR LEU THR SEQRES 9 A 529 ALA VAL ASP CYS CYS LEU MET VAL ILE ASP ALA ALA LYS SEQRES 10 A 529 GLY VAL GLU ASP ARG THR ARG LYS LEU MET GLU VAL THR SEQRES 11 A 529 ARG LEU ARG ASP THR PRO ILE LEU THR PHE MET ASN LYS SEQRES 12 A 529 LEU ASP ARG ASP ILE ARG ASP PRO MET GLU LEU LEU ASP SEQRES 13 A 529 GLU VAL GLU ASN GLU LEU LYS ILE GLY CYS ALA PRO ILE SEQRES 14 A 529 THR TRP PRO ILE GLY CYS GLY LYS LEU PHE LYS GLY VAL SEQRES 15 A 529 TYR HIS LEU TYR LYS ASP GLU THR TYR LEU TYR GLN SER SEQRES 16 A 529 GLY LYS GLY HIS THR ILE GLN GLU VAL ARG ILE VAL LYS SEQRES 17 A 529 GLY LEU ASN ASN PRO ASP LEU ASP ALA ALA VAL GLY GLU SEQRES 18 A 529 ASP LEU ALA GLN GLN LEU ARG ASP GLU LEU GLU LEU VAL SEQRES 19 A 529 LYS GLY ALA SER ASN GLU PHE ASP LYS GLU LEU PHE LEU SEQRES 20 A 529 ALA GLY GLU ILE THR PRO VAL PHE PHE GLY THR ALA LEU SEQRES 21 A 529 GLY ASN PHE GLY VAL ASP HIS MET LEU ASP GLY LEU VAL SEQRES 22 A 529 GLU TRP ALA PRO ALA PRO MET PRO ARG GLN THR ASP THR SEQRES 23 A 529 ARG THR VAL GLU ALA SER GLU ASP LYS PHE THR GLY PHE SEQRES 24 A 529 VAL PHE LYS ILE GLN ALA ASN MET ASP PRO LYS HIS ARG SEQRES 25 A 529 ASP ARG VAL ALA PHE MET ARG VAL VAL SER GLY LYS TYR SEQRES 26 A 529 GLU LYS GLY MET LYS LEU ARG GLN VAL ARG THR ALA LYS SEQRES 27 A 529 ASP VAL VAL ILE SER ASP ALA LEU THR PHE MET ALA GLY SEQRES 28 A 529 ASP ARG SER HIS VAL GLU GLU ALA TYR PRO GLY ASP ILE SEQRES 29 A 529 LEU GLY LEU HIS ASN HIS GLY THR ILE GLN ILE GLY ASP SEQRES 30 A 529 THR PHE THR GLN GLY GLU MET MET LYS PHE THR GLY ILE SEQRES 31 A 529 PRO ASN PHE ALA PRO GLU LEU PHE ARG ARG ILE ARG LEU SEQRES 32 A 529 LYS ASP PRO LEU LYS GLN LYS GLN LEU LEU LYS GLY LEU SEQRES 33 A 529 VAL GLN LEU SER GLU GLU GLY ALA VAL GLN VAL PHE ARG SEQRES 34 A 529 PRO ILE SER ASN ASN ASP LEU ILE VAL GLY ALA VAL GLY SEQRES 35 A 529 VAL LEU GLN PHE ASP VAL VAL VAL ALA ARG LEU LYS SER SEQRES 36 A 529 GLU TYR ASN VAL GLU ALA VAL TYR GLU SER VAL ASN VAL SEQRES 37 A 529 ALA THR ALA ARG TRP VAL GLU CYS ALA ASP ALA LYS LYS SEQRES 38 A 529 PHE GLU GLU PHE LYS ARG LYS ASN GLU SER GLN LEU ALA SEQRES 39 A 529 LEU ASP GLY GLY ASP ASN LEU ALA TYR ILE ALA THR SER SEQRES 40 A 529 MET VAL ASN LEU ARG LEU ALA GLN GLU ARG TYR PRO ASP SEQRES 41 A 529 VAL GLN PHE HIS GLN THR ARG GLU HIS 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