10 20 30 40 50 60 70 80 1QZA - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 16-SEP-03 1QZA
TITLE COORDINATES OF THE A/T SITE TRNA MODEL FITTED INTO THE CRYO- TITLE 2 EM MAP OF EF-TU TERNARY COMPLEX (GDP.KIRROMYCIN) BOUND 70S TITLE 3 RIBOSOME
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHE-TRNA; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES
KEYWDS TRNA MODEL, DECODING, A/T-SITE TRNA.
EXPDTA ELECTRON MICROSCOPY
MDLTYP P ATOMS ONLY, CHAIN B
AUTHOR M.VALLE,A.ZAVIALOV,W.LI,S.M.STAGG,J.SENGUPTA,R.C.NIELSEN, AUTHOR 2 P.NISSEN,S.C.HARVEY,M.EHRENBERG,J.FRANK
REVDAT 2 24-FEB-09 1QZA 1 VERSN REVDAT 1 04-NOV-03 1QZA 0
JRNL AUTH M.VALLE,A.ZAVIALOV,W.LI,S.M.STAGG,J.SENGUPTA, JRNL AUTH 2 R.C.NIELSEN,P.NISSEN,S.C.HARVEY,M.EHRENBERG,J.FRANK JRNL TITL INCORPORATION OF AMINOACYL-TRNA INTO THE RIBOSOME JRNL TITL 2 AS SEEN BY CRYO-ELECTRON MICROSCOPY JRNL REF NAT.STRUCT.BIOL. V. 10 899 2003 JRNL REFN ISSN 1072-8368 JRNL PMID 14566331 JRNL DOI 10.1038/NSB1003
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 10.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : 3D PROJECTION MATCHING; CONJUGATE REMARK 3 GRADIENT WITH REGULARIZATION REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 1OB2 REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : 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) : 2.820 REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 10.000 REMARK 3 NUMBER OF PARTICLES : NULL REMARK 3 CTF CORRECTION METHOD : CTF CORRECTION OF 3D MAPS REMARK 3 BY WIENER FILTERATION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: TMV REMARK 3 REMARK 3 OTHER DETAILS: SPIDER PACKAGE
REMARK 4 REMARK 4 1QZA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-SEP-03. REMARK 100 THE RCSB ID CODE IS RCSB020251.
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 : ASYMMETRIC REMARK 245 NAME OF SAMPLE : NULL REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 32.00 REMARK 245 SAMPLE SUPPORT DETAILS : QUANTIFOIL HOLLEY CARBON REMARK 245 FILM GRIDS REMARK 245 SAMPLE VITRIFICATION DETAILS : RAPID-FREEZING IN LIQUID REMARK 245 ETHANE REMARK 245 SAMPLE BUFFER : POLYMIX BUFFER REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : 70S + FMET-TRNA + PHETRNA + REMARK 245 EF-TU + GDP + KIR MRNA CODES FOR MP-STOP REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL 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 SO163 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 : NULL 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 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
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: 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OB2 RELATED DB: PDB REMARK 900 E. COLI ELONGATION FACTOR EF-TU COMPLEXED WITH THE REMARK 900 ANTIBIOTIC KIRROMYCIN, A GTP ANALOG, AND PHE-TRNA REMARK 900 RELATED ID: 1QZB RELATED DB: PDB REMARK 900 COORDINATES OF THE A-SITE TRNA MODEL FITTED INTO THE CRYO- REMARK 900 EM MAP OF 70S RIBOSOME IN THE PRE-TRANSLOCATIONAL STATE REMARK 900 RELATED ID: 1QZC RELATED DB: PDB REMARK 900 COORDINATES OF S12, SH44, LH69 AND SRL SEPARATELY FITTED REMARK 900 INTO THE CRYO-EM MAP OF EF-TU TERNARY COMPLEX REMARK 900 (GDP.KIRROMYCIN)BOUND 70S RIBOSOME REMARK 900 RELATED ID: 1QZD RELATED DB: PDB REMARK 900 EF-TU.KIRROMYCIN COORDINATES FITTED INTO THE CRYO-EM MAP OF REMARK 900 EF-TU TERNARY COMPLEX (GDP.KIRROMYCIN)BOUND 70S RIBOSOME REMARK 900 RELATED ID: 1R2W RELATED DB: PDB REMARK 900 COORDINATES OF L11 WITH 58NTS OF 23S RRNA FITTED INTO THE REMARK 900 CRYO-EM MAP OF THE 70S RIBOSOME REMARK 900 RELATED ID: 1R2X RELATED DB: PDB REMARK 900 COORDINATES OF L11 WITH 58NTS OF 23S RRNA FITTED INTO THE REMARK 900 CRYO-EM MAP OF EF-TU TERNARY COMPLEX (GDP.KIRROMYCIN) BOUND REMARK 900 70S RIBOSOME REMARK 900 RELATED ID: EMD-1055 RELATED DB: EMDB
REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE STRUCTURE CONTAINS P ATOMS ONLY
DBREF 1QZA B 1 75 PDB 1QZA 1QZA 1 75
SEQRES 1 B 75 G C G G A U U U A G C U C SEQRES 2 B 75 A G U U G G G A G A G C G SEQRES 3 B 75 C C A G A C U G A A G A U SEQRES 4 B 75 C U G G A G G U C C U G U SEQRES 5 B 75 G U U C G A U C C A C A G SEQRES 6 B 75 A A U U C G C A C C
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