HEADER TRANSLATION, RIBOSOME 22-AUG-02 1MI6 TITLE DOCKING OF THE MODIFIED RF2 X-RAY STRUCTURE INTO THE LOW RESOLUTION TITLE 2 CRYO-EM MAP OF RF2 E.COLI 70S RIBOSOME COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE CHAIN RELEASE FACTOR RF-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RELEASE FACTOR 2; RF2 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12 KEYWDS RF2, RELEASE COMPLEX, CONFORMATIONAL CHANGES, TRANSLATION, RIBOSOME EXPDTA ELECTRON MICROSCOPY MDLTYP CA ATOMS ONLY, CHAIN A AUTHOR U.B.S.RAWAT,A.V.ZAVIALOV,J.SENGUPTA,M.VALLE,R.A.GRASSUCCI,J.LINDE, AUTHOR 2 B.VESTERGAARD,M.EHRENBERG,J.FRANK REVDAT 6 14-FEB-24 1MI6 1 REMARK SEQADV REVDAT 5 18-JUL-18 1MI6 1 REMARK REVDAT 4 01-FEB-17 1MI6 1 AUTHOR REVDAT 3 13-JUL-11 1MI6 1 VERSN REVDAT 2 24-FEB-09 1MI6 1 VERSN REVDAT 1 14-JAN-03 1MI6 0 JRNL AUTH U.B.S.RAWAT,A.V.ZAVIALOV,J.SENGUPTA,M.VALLE,R.A.GRASSUCCI, JRNL AUTH 2 J.LINDE,B.VESTERGAARD,M.EHRENBERG,J.FRANK JRNL TITL A CRYO-ELECTRON MICROSCOPIC STUDY OF RIBOSOME-BOUND JRNL TITL 2 TERMINATION FACTOR RF2 JRNL REF NATURE V. 421 87 2003 JRNL REFN ISSN 0028-0836 JRNL PMID 12511960 JRNL DOI 10.1038/NATURE01224 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 TITL THE CRYSTAL STRUCTURE OF HUMAN EUKARYOTIC RELEASE FACTOR REMARK 1 TITL 2 ERF1-MECHANISM OF STOP CODON RECOGNITION AND PEPTIDYL-TRNA REMARK 1 TITL 3 HYDROLYSIS REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 100 311 2000 REMARK 1 REFN ISSN 0092-8674 REMARK 1 REFERENCE 2 REMARK 1 TITL BACTERIAL POLYPEPTIDE RELEASE FACTOR RF2 IS STRUCTURALLY REMARK 1 TITL 2 DISTINCT FROM EUKARYOTIC ERF1 REMARK 1 REF MOL.CELL V. 8 1375 2001 REMARK 1 REFN ISSN 1097-2765 REMARK 2 REMARK 2 RESOLUTION. 12.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : O, SPIDER REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 1GQE REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : OTHER REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--MANUAL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 12.80 REMARK 3 NUMBER OF PARTICLES : 18199 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: TMV REMARK 3 REMARK 3 OTHER DETAILS: SPIDER PACKAGE REMARK 4 REMARK 4 1MI6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-AUG-02. REMARK 100 THE DEPOSITION ID IS D_1000016929. 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 : E.COLI 70S RIBOSOME - RF2(WT) REMARK 245 COMPLEX REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 32.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL 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 : 08-NOV-01 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) : 2500.00 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 PHE A 2 REMARK 465 GLU A 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GQE RELATED DB: PDB REMARK 900 POLYPEPTIDE CHAIN RELEASE FACTOR 2 (RF2) FROM E. COLI REMARK 900 RELATED ID: 1DT9 RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF HUMAN EUKARYOTIC RELEASE FACTOR ERF1 REMARK 900 RELATED ID: EMD-1006 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1007 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1008 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1009 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1010 RELATED DB: EMDB DBREF 1MI6 A 1 365 UNP P07012 RF2_ECOLI 1 365 SEQADV 1MI6 ALA A 246 UNP P07012 THR 246 CONFLICT SEQADV 1MI6 VAL A 298 UNP P07012 LEU 298 CONFLICT SEQRES 1 A 365 MET PHE GLU ILE ASN PRO VAL ASN ASN ARG ILE GLN ASP SEQRES 2 A 365 LEU THR GLU ARG SER ASP VAL LEU ARG GLY TYR LEU ASP SEQRES 3 A 365 TYR ASP ALA LYS LYS GLU ARG LEU GLU GLU VAL ASN ALA SEQRES 4 A 365 GLU LEU GLU GLN PRO ASP VAL TRP ASN GLU PRO GLU ARG SEQRES 5 A 365 ALA GLN ALA LEU GLY LYS GLU ARG SER SER LEU GLU ALA SEQRES 6 A 365 VAL VAL ASP THR LEU ASP GLN MET LYS GLN GLY LEU GLU SEQRES 7 A 365 ASP VAL SER GLY LEU LEU GLU LEU ALA VAL GLU ALA ASP SEQRES 8 A 365 ASP GLU GLU THR PHE ASN GLU ALA VAL ALA GLU LEU ASP SEQRES 9 A 365 ALA LEU GLU GLU LYS LEU ALA GLN LEU GLU PHE ARG ARG SEQRES 10 A 365 MET PHE SER GLY GLU TYR ASP SER ALA ASP CYS TYR LEU SEQRES 11 A 365 ASP ILE GLN ALA GLY SER GLY GLY THR GLU ALA GLN ASP SEQRES 12 A 365 TRP ALA SER MET LEU GLU ARG MET TYR LEU ARG TRP ALA SEQRES 13 A 365 GLU SER ARG GLY PHE LYS THR GLU ILE ILE GLU GLU SER SEQRES 14 A 365 GLU GLY GLU VAL ALA GLY ILE LYS SER VAL THR ILE LYS SEQRES 15 A 365 ILE SER GLY ASP TYR ALA TYR GLY TRP LEU ARG THR GLU SEQRES 16 A 365 THR GLY VAL HIS ARG LEU VAL ARG LYS SER PRO PHE ASP SEQRES 17 A 365 SER GLY GLY ARG ARG HIS THR SER PHE SER SER ALA PHE SEQRES 18 A 365 VAL TYR PRO GLU VAL ASP ASP ASP ILE ASP ILE GLU ILE SEQRES 19 A 365 ASN PRO ALA ASP LEU ARG ILE ASP VAL TYR ARG ALA SER SEQRES 20 A 365 GLY ALA GLY GLY GLN HIS VAL ASN ARG THR GLU SER ALA SEQRES 21 A 365 VAL ARG ILE THR HIS ILE PRO THR GLY ILE VAL THR GLN SEQRES 22 A 365 CYS GLN ASN ASP ARG SER GLN HIS LYS ASN LYS ASP GLN SEQRES 23 A 365 ALA MET LYS GLN MET LYS ALA LYS LEU TYR GLU VAL GLU SEQRES 24 A 365 MET GLN LYS LYS ASN ALA GLU LYS GLN ALA MET GLU ASP SEQRES 25 A 365 ASN LYS SER ASP ILE GLY TRP GLY SER GLN ILE ARG SER SEQRES 26 A 365 TYR VAL LEU ASP ASP SER ARG ILE LYS ASP LEU ARG THR SEQRES 27 A 365 GLY VAL GLU THR ARG ASN THR GLN ALA VAL LEU ASP GLY SEQRES 28 A 365 SER LEU ASP GLN PHE ILE GLU ALA SER LEU LYS ALA GLY SEQRES 29 A 365 LEU 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