PDB Short entry for 1PN7 HEADER RNA BINDING PROTEIN/RNA 12-JUN-03 1PN7 TITLE COORDINATES OF S12, L11 PROTEINS AND P-TRNA, FROM THE 70S X-RAY TITLE 2 STRUCTURE ALIGNED TO THE 70S CRYO-EM MAP OF E.COLI RIBOSOME COMPND MOL_ID: 1; COMPND 2 MOLECULE: P-TRNA; COMPND 3 CHAIN: C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 30S RIBOSOMAL PROTEIN S12; COMPND 7 CHAIN: O; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: 50S RIBOSOMAL PROTEIN L11; COMPND 10 CHAIN: L SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 5 ORGANISM_TAXID: 274; SOURCE 6 MOL_ID: 3; SOURCE 7 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 8 ORGANISM_TAXID: 2336 KEYWDS RIBOSOMAL PROTEIN, TRNA BINDING PROTEIN, TRNA, RNA BINDING PROTEIN- KEYWDS 2 RNA COMPLEX EXPDTA ELECTRON MICROSCOPY MDLTYP CA ATOMS ONLY, CHAIN O, L; P ATOMS ONLY, CHAIN C AUTHOR M.VALLE,A.ZAVIALOV,J.SENGUPTA,U.RAWAT,M.EHRENBERG,J.FRANK REVDAT 4 14-FEB-24 1PN7 1 REMARK REVDAT 3 02-FEB-10 1PN7 1 REMARK REVDAT 2 24-FEB-09 1PN7 1 VERSN REVDAT 1 15-JUL-03 1PN7 0 JRNL AUTH M.VALLE,A.ZAVIALOV,J.SENGUPTA,U.RAWAT,M.EHRENBERG,J.FRANK JRNL TITL LOCKING AND UNLOCKING OF RIBOSOMAL MOTIONS JRNL REF CELL(CAMBRIDGE,MASS.) V. 114 123 2003 JRNL REFN ISSN 0092-8674 JRNL PMID 12859903 JRNL DOI 10.1016/S0092-8674(03)00476-8 REMARK 2 REMARK 2 RESOLUTION. 10.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 1GIX 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 FITTING IN O 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) : 10.80 REMARK 3 NUMBER OF PARTICLES : NULL REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: TMV REMARK 3 REMARK 3 OTHER DETAILS: SPIDER PACKAGE. CRYSTAL STRUCTURE OF THERMUS REMARK 3 THERMOPHILUS 70S RIBOSOME REMARK 4 REMARK 4 1PN7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JUN-03. REMARK 100 THE DEPOSITION ID IS D_1000019444. 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; P-TRNA; REMARK 245 30S RIBOSOMAL PROTEIN S12; 50S REMARK 245 RIBOSOMAL PROTEIN L11 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 32.00 REMARK 245 SAMPLE SUPPORT DETAILS : QUANTIFOIL HOLLEY-CARBON FILM REMARK 245 GRIDS REMARK 245 SAMPLE VITRIFICATION DETAILS : RAPID-FREEZING IN LIQUID ETHANE REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 01-JUN-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) : 1500.00 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, O, L 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GIX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE RIBOSOME AT 5.5A RESOLUTION -- 30S REMARK 900 RIBOSOME SUBUNIT, THREE TRNA, AND MRNA MOLECULES REMARK 900 RELATED ID: 1GIY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE RIBOSOME AT 5.5A RESOLUTION -- 50S REMARK 900 RIBOSOME SUBUNIT REMARK 900 RELATED ID: 1PN6 RELATED DB: PDB REMARK 900 ELONGATION FACTOR-G, E.COLI 70S RIBOSOME, POST-TERMINATION COMPLEX, REMARK 900 FITTING OF CRYSTAL STRUCTURE, CRYO-EM REMARK 900 RELATED ID: 1PN8 RELATED DB: PDB REMARK 900 COORDINATES OF S12, L11 PROTEINS AND E-SITE TRNA FROM 70S CRYSTAL REMARK 900 STRUCTURE SEPARATELY FITTED INTO THE CRYO-EM MAP OF E.COLI 70S.EF- REMARK 900 G.GDPNP COMPLEX REMARK 900 RELATED ID: EMD-1055 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1362 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1363 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1364 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1365 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1366 RELATED DB: EMDB REMARK 999 REMARK 999 THE STRUCTURE CONTAINS C ALPHA ATOMS ONLY DBREF 1PN7 O 5 128 UNP Q5SHN3 RS12_THET8 1 124 DBREF 1PN7 L 8 140 UNP P29395 RL11_THEMA 7 139 DBREF 1PN7 C 1 76 PDB 1PN7 1PN7 1 76 SEQRES 1 C 62 G C G G A U U U A C U C A SEQRES 2 C 62 G G G G A G A G C C C A G SEQRES 3 C 62 A U A A A U G G A G U C U SEQRES 4 C 62 G U G C G U C C A C A G A SEQRES 5 C 62 A U U C G C A C C A SEQRES 1 O 124 PRO THR ILE ASN GLN LEU VAL ARG LYS GLY ARG GLU LYS SEQRES 2 O 124 VAL ARG LYS LYS SER LYS VAL PRO ALA LEU LYS GLY ALA SEQRES 3 O 124 PRO PHE ARG ARG GLY VAL CYS THR VAL VAL ARG THR VAL SEQRES 4 O 124 THR PRO LYS LYS PRO ASN SER ALA LEU ARG LYS VAL ALA SEQRES 5 O 124 LYS VAL ARG LEU THR SER GLY TYR GLU VAL THR ALA TYR SEQRES 6 O 124 ILE PRO GLY GLU GLY HIS ASN LEU GLN GLU HIS SER VAL SEQRES 7 O 124 VAL LEU ILE ARG GLY GLY ARG VAL LYS ASP LEU PRO GLY SEQRES 8 O 124 VAL ARG TYR HIS ILE VAL ARG GLY VAL TYR ASP ALA ALA SEQRES 9 O 124 GLY VAL LYS ASP ARG LYS LYS SER ARG SER LYS TYR GLY SEQRES 10 O 124 THR LYS LYS PRO LYS GLU ALA SEQRES 1 L 133 GLN ILE LYS LEU GLN LEU PRO ALA GLY LYS ALA THR PRO SEQRES 2 L 133 ALA PRO PRO VAL GLY PRO ALA LEU GLY GLN HIS GLY VAL SEQRES 3 L 133 ASN ILE MET GLU PHE CYS LYS ARG PHE ASN ALA GLU THR SEQRES 4 L 133 ALA ASP LYS ALA GLY MET ILE LEU PRO VAL VAL ILE THR SEQRES 5 L 133 VAL TYR GLU ASP LYS SER PHE THR PHE ILE ILE LYS THR SEQRES 6 L 133 PRO PRO ALA SER PHE LEU LEU LYS LYS ALA ALA GLY ILE SEQRES 7 L 133 GLU LYS GLY SER SER GLU PRO LYS ARG LYS ILE VAL GLY SEQRES 8 L 133 LYS VAL THR ARG LYS GLN ILE GLU GLU ILE ALA LYS THR SEQRES 9 L 133 LYS MET PRO ASP LEU ASN ALA ASN SER LEU GLU ALA ALA SEQRES 10 L 133 MET LYS ILE ILE GLU GLY THR ALA LYS SER MET GLY ILE SEQRES 11 L 133 GLU VAL VAL 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