HEADER RIBOSOME 16-APR-04 1T1O
TITLE COMPONENTS OF THE CONTROL 70S RIBOSOME TO PROVIDE REFERENCE FOR THE
TITLE 2 RRF BINDING SITE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: DODECAMER FRAGMENT OF DOUBLE HELIX FROM 23S RRNA;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: APICAL LOOP OF HELIX 43;
COMPND 5 OTHER_DETAILS: FITTED INTO THE CRYO-EM MAP OF THE 70S RIBOSOME;
COMPND 6 MOL_ID: 2;
COMPND 7 MOLECULE: 19-MER FRAGMENT OF THE 23S RRNA;
COMPND 8 CHAIN: B;
COMPND 9 FRAGMENT: HELIX 69;
COMPND 10 OTHER_DETAILS: FITTED INTO THE CRYO-EM MAP OF THE 70S RIBOSOME;
COMPND 11 MOL_ID: 3;
COMPND 12 MOLECULE: 42-MER FRAGMENT OF DOUBLE HELIX FROM 16S RRNA;
COMPND 13 CHAIN: C;
COMPND 14 FRAGMENT: TOP PORTION OF HELIX 44;
COMPND 15 SYNONYM: RIBOSOME RELEASING FACTOR; RRF;
COMPND 16 OTHER_DETAILS: FITTED INTO THE CRYO-EM MAP OF THE 70S RIBOSOME
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI;
SOURCE 3 ORGANISM_TAXID: 562;
SOURCE 4 STRAIN: MRE600;
SOURCE 5 MOL_ID: 2;
SOURCE 6 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI;
SOURCE 7 ORGANISM_TAXID: 562;
SOURCE 8 STRAIN: MRE600;
SOURCE 9 MOL_ID: 3;
SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI;
SOURCE 11 ORGANISM_TAXID: 562;
SOURCE 12 STRAIN: MRE600
KEYWDS RRF BINDING POSITION ON THE RIBOSOME, RIBOSOME
EXPDTA ELECTRON MICROSCOPY
MDLTYP P ATOMS ONLY, CHAIN A, B, C
AUTHOR R.K.AGRAWAL,M.R.SHARMA,M.C.KIEL,G.HIROKAWA,T.M.BOOTH,C.M.SPAHN,
AUTHOR 2 R.A.GRASSUCCI,A.KAJI,J.FRANK
REVDAT 3 14-FEB-24 1T1O 1 REMARK
REVDAT 2 24-FEB-09 1T1O 1 VERSN
REVDAT 1 15-JUN-04 1T1O 0
JRNL AUTH R.K.AGRAWAL,M.R.SHARMA,M.C.KIEL,G.HIROKAWA,T.M.BOOTH,
JRNL AUTH 2 C.M.SPAHN,R.A.GRASSUCCI,A.KAJI,J.FRANK
JRNL TITL VISUALIZATION OF RIBOSOME-RECYCLING FACTOR ON THE
JRNL TITL 2 ESCHERICHIA COLI 70S RIBOSOME: FUNCTIONAL IMPLICATIONS
JRNL REF PROC.NATL.ACAD.SCI.USA V. 101 8900 2004
JRNL REFN ISSN 0027-8424
JRNL PMID 15178758
JRNL DOI 10.1073/PNAS.0401904101
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 AUTH J.HARMS,F.SCHLUENZEN,R.ZARIVACH,A.BASHAN,S.GAT,I.AGMON,
REMARK 1 AUTH 2 H.BARTELS,F.FRANCESCHI,A.YONATH
REMARK 1 TITL HIGH RESOLUTION STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT
REMARK 1 TITL 2 FROM A MESOPHILIC EUBACTERIUM
REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 107 679 2001
REMARK 1 REFN ISSN 0092-8674
REMARK 1 PMID 11733066
REMARK 1 DOI 10.1016/S0092-8674(01)00546-3
REMARK 1 REFERENCE 2
REMARK 1 AUTH B.T.WIMBERLY,D.E.BRODERSEN,W.M.CLEMONS JR.,
REMARK 1 AUTH 2 R.J.MORGAN-WARREN,A.P.CARTER,C.VONRHEIN,T.HARTSCH,
REMARK 1 AUTH 3 V.RAMAKRISHNAN
REMARK 1 TITL STRUCTURE OF THE 30S RIBOSOMAL SUBUNIT
REMARK 1 REF NATURE V. 407 327 2000
REMARK 1 REFN ISSN 0028-0836
REMARK 1 PMID 11014182
REMARK 1 DOI 10.1038/35030006
REMARK 2
REMARK 2 RESOLUTION. 12.00 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 : 1KC9
REMARK 3 REFINEMENT SPACE : NULL
REMARK 3 REFINEMENT PROTOCOL : OTHER
REMARK 3 REFINEMENT TARGET : NULL
REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL
REMARK 3
REMARK 3 FITTING PROCEDURE : METHOD--CROSS CORELATION COEFFICIENT BASED
REMARK 3 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) : 12.00
REMARK 3 NUMBER OF PARTICLES : 51217
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 1T1O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-APR-04.
REMARK 100 THE DEPOSITION ID IS D_1000022199.
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 : 70S-RRF COMPLEX
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-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) : 1400.00
REMARK 245 MAXIMUM DEFOCUS (NM) : 4400.00
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: A, B, C
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: 1KC9 RELATED DB: PDB
REMARK 900 X-RAY CRYSTALLOGRAPHIC STRUCTURE OF THE 50S RIBOSOMAL SUBUNIT FROM
REMARK 900 D. RADIODURANS
REMARK 900 RELATED ID: 1FJF RELATED DB: PDB
REMARK 900 X-RAY CRYSTALLOGRAPHIC STRUCTURE OF THE 30S RIBOSOMAL SUBUNIT FROM
REMARK 900 T. THERMOPHILU
REMARK 900 RELATED ID: 1T1M RELATED DB: PDB
REMARK 900 RELATED ID: EMD-1077 RELATED DB: EMDB
DBREF 1T1O A 1061 1072 PDB 1T1O 1T1O 1061 1072
DBREF 1T1O B 1906 1924 PDB 1T1O 1T1O 1906 1924
DBREF 1T1O C 1401 1501 PDB 1T1O 1T1O 1401 1501
SEQRES 1 A 12 U G G C U U A G A A G C
SEQRES 1 B 19 G G C C G U A A C U A U A
SEQRES 2 B 19 A C G G U C
SEQRES 1 C 42 G C C C G U C A C A C C A
SEQRES 2 C 42 U G G G A G U A U G A C U
SEQRES 3 C 42 G G G G U G A A G U C G U
SEQRES 4 C 42 A A 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
ATOM 1 P U A1061 -50.967 4.476 -88.756 1.00 88.72 P
ATOM 2 P G A1062 -50.803 8.850 -87.398 1.00 92.48 P
ATOM 3 P G A1063 -48.764 10.454 -81.417 1.00 90.30 P
ATOM 4 P C A1064 -46.814 8.130 -76.400 1.00 60.38 P
ATOM 5 P U A1065 -44.768 10.730 -72.531 1.00100.31 P
ATOM 6 P U A1066 -42.193 15.381 -70.125 1.00132.67 P
ATOM 7 P A A1067 -39.915 20.643 -71.603 1.00134.62 P
ATOM 8 P G A1068 -40.942 19.987 -77.367 1.00138.55 P
ATOM 9 P A A1069 -40.506 16.590 -81.730 1.00132.45 P
ATOM 10 P A A1070 -38.713 10.950 -83.507 1.00162.07 P
ATOM 11 P G A1071 -36.893 9.953 -90.206 1.00112.73 P
ATOM 12 P C A1072 -32.645 9.139 -86.060 1.00149.00 P
TER 13 C A1072
ATOM 14 P G B1906 -22.148 -0.316 5.233 1.00 67.41 P
ATOM 15 P G B1907 -22.343 -3.897 -0.839 1.00 72.07 P
ATOM 16 P C B1908 -24.417 -5.293 -4.807 1.00 89.20 P
ATOM 17 P C B1909 -29.004 -5.381 -8.824 1.00103.74 P
ATOM 18 P G B1910 -34.694 -3.868 -9.953 1.00105.00 P
ATOM 19 P U B1911 -38.362 -0.822 -11.879 1.00161.61 P
ATOM 20 P A B1912 -37.723 4.926 -11.499 1.00 97.28 P
ATOM 21 P A B1913 -38.794 10.317 -14.640 1.00117.57 P
ATOM 22 P C B1914 -36.866 14.500 -10.805 1.00162.00 P
ATOM 23 P U B1915 -34.150 11.475 -14.990 1.00 27.21 P
ATOM 24 P A B1916 -29.304 8.162 -14.731 1.00 95.30 P
ATOM 25 P U B1917 -28.103 6.064 -9.146 1.00 84.23 P
ATOM 26 P A B1918 -29.985 4.223 -3.096 1.00162.07 P
ATOM 27 P A B1919 -35.113 5.058 0.796 1.00 84.83 P
ATOM 28 P C B1920 -38.688 6.012 4.499 1.00113.68 P
ATOM 29 P G B1921 -40.025 -0.476 6.468 1.00107.14 P
ATOM 30 P G B1922 -39.847 -6.201 6.409 1.00100.36 P
ATOM 31 P U B1923 -39.899 -12.137 7.084 1.00135.00 P
ATOM 32 P C B1924 -34.477 -14.677 5.302 1.00129.47 P
TER 33 C B1924
ATOM 34 P G C1401 -58.833 16.167 3.186 1.00 51.68 P
ATOM 35 P C C1402 -56.316 20.287 5.445 1.00 43.91 P
ATOM 36 P C C1403 -50.864 21.848 7.254 1.00 63.28 P
ATOM 37 P C C1404 -44.960 20.357 6.848 1.00 53.55 P
ATOM 38 P G C1405 -39.685 19.225 5.114 1.00 59.94 P
ATOM 39 P U C1406 -35.747 18.043 0.614 1.00 73.43 P
ATOM 40 P C C1407 -32.819 16.884 -4.002 1.00 76.27 P
ATOM 41 P A C1408 -33.387 18.644 -9.954 1.00 81.58 P
ATOM 42 P C C1409 -35.356 22.862 -13.317 1.00 86.68 P
ATOM 43 P A C1410 -36.463 28.221 -14.058 1.00 95.83 P
ATOM 44 P C C1411 -35.649 33.439 -12.106 1.00163.78 P
ATOM 45 P C C1412 -33.015 37.408 -8.297 1.00170.59 P
ATOM 46 P A C1413 -29.407 39.325 -4.185 1.00107.44 P
ATOM 47 P U C1414 -24.617 38.585 -0.316 1.00 85.87 P
ATOM 48 P G C1415 -20.262 34.924 2.122 1.00 84.46 P
ATOM 49 P G C1416 -16.170 31.637 2.899 1.00 85.98 P
ATOM 50 P G C1417 -11.590 29.073 1.100 1.00124.72 P
ATOM 51 P A C1418 -8.282 29.578 -4.086 1.00150.89 P
ATOM 52 P G C1419 -3.657 29.502 -7.228 1.00182.21 P
ATOM 53 P U C1420 -1.684 34.313 -10.649 1.00149.75 P
ATOM 54 P A C1480 -14.928 43.207 -0.977 1.00134.12 P
ATOM 55 P U C1481 -16.692 42.626 -6.504 1.00133.09 P
ATOM 56 P G C1482 -17.539 39.084 -11.064 1.00126.17 P
ATOM 57 P A C1483 -17.497 33.080 -12.431 1.00131.52 P
ATOM 58 P C C1484 -18.247 27.992 -14.750 1.00124.28 P
ATOM 59 P U C1485 -19.195 23.011 -11.445 1.00116.70 P
ATOM 60 P G C1486 -21.920 21.033 -6.193 1.00108.72 P
ATOM 61 P G C1487 -25.827 20.297 -2.231 1.00119.99 P
ATOM 62 P G C1488 -30.602 22.542 1.944 1.00 73.32 P
ATOM 63 P G C1489 -34.380 26.081 4.120 1.00 89.26 P
ATOM 64 P U C1490 -39.079 29.637 4.421 1.00139.41 P
ATOM 65 P G C1491 -43.409 31.805 1.491 1.00184.39 P
ATOM 66 P A C1492 -47.355 31.636 -2.413 1.00160.38 P
ATOM 67 P A C1493 -49.581 25.708 -5.275 1.00200.93 P
ATOM 68 P G C1494 -50.203 21.115 -7.723 1.00118.15 P
ATOM 69 P U C1495 -48.714 16.146 -10.216 1.00 79.93 P
ATOM 70 P C C1496 -46.807 11.263 -9.715 1.00 76.77 P
ATOM 71 P G C1497 -46.413 6.875 -6.579 1.00 65.71 P
ATOM 72 P U C1498 -46.959 4.896 -0.196 1.00 53.61 P
ATOM 73 P A C1499 -45.628 6.302 6.205 1.00 39.64 P
ATOM 74 P A C1500 -44.985 7.431 10.843 1.00 36.81 P
ATOM 75 P C C1501 -46.849 9.887 15.309 1.00 28.55 P
TER 76 C C1501
MASTER 123 0 0 0 0 0 0 6 73 3 0 7
END