HEADER TRANSLATION/RNA 12-MAY-05 1ZO1 TITLE IF2, IF1, AND TRNA FITTED TO CRYO-EM DATA OF E. COLI 70S INITIATION TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: P/I-SITE TRNA; COMPND 3 CHAIN: F; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: TRANSLATION INITIATION FACTOR 2; COMPND 6 CHAIN: I; COMPND 7 SYNONYM: IF2; COMPND 8 MOL_ID: 3; COMPND 9 MOLECULE: TRANSLATION INITIATION FACTOR 1; COMPND 10 CHAIN: W; COMPND 11 SYNONYM: IF1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 6 ORGANISM_TAXID: 562; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 9 ORGANISM_TAXID: 562 KEYWDS E. COLI, RIBOSOME, INITIATION OF PROTEIN SYNTHESIS, INITIATION KEYWDS 2 FACTOR, CRYO-ELETRON MICROSCOPY, TRANSLATION-RNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR G.S.ALLEN,A.ZAVIALOV,R.GURSKY,M.EHRENBERG,J.FRANK REVDAT 4 14-FEB-24 1ZO1 1 REMARK REVDAT 3 18-DEC-19 1ZO1 1 REMARK CRYST1 SCALE REVDAT 2 24-FEB-09 1ZO1 1 VERSN REVDAT 1 14-JUN-05 1ZO1 0 JRNL AUTH G.S.ALLEN,A.ZAVIALOV,R.GURSKY,M.EHRENBERG,J.FRANK JRNL TITL THE CRYO-EM STRUCTURE OF A TRANSLATION INITIATION COMPLEX JRNL TITL 2 FROM ESCHERICHIA COLI. JRNL REF CELL(CAMBRIDGE,MASS.) V. 121 703 2005 JRNL REFN ISSN 0092-8674 JRNL PMID 15935757 JRNL DOI 10.1016/J.CELL.2005.03.023 REMARK 2 REMARK 2 RESOLUTION. 13.80 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 : 1G7T REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : RIGID BODY FIT REMARK 3 REFINEMENT TARGET : BEST FIT USING RSREF REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--COORDINATE FILES WERE FITTED TO THE E. REMARK 3 COLI TRANSLATION INITIATION COMPLEX MAP (EMBL-EMD 3525). REMARK 3 REFINEMENT PROTOCOL--RIGID BODY FIT OF DOMAINS I-V OF IF2, RIGID REMARK 3 BODY FIT OF IF1 AND FMET-TRNA REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 2.820 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 13.80 REMARK 3 NUMBER OF PARTICLES : 20283 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: RESOLUTION 13.8 ANGSTROMS (FSC=0.5) AND 8.6 REMARK 3 ANGSTROMS (3SIGMA) REMARK 4 REMARK 4 1ZO1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000032941. 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 INITIATION COMPLEX REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.03 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : HOLEY CARBON GRID AT 20C FLASH REMARK 245 FROZEN INTO LIQUID ETHAN REMARK 245 SAMPLE BUFFER : POLYMIX BUFFER REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : 70S E. COLI RIBOSOMES, IF1, REMARK 245 IF2(GDPNP), IF3, MRNA, AND FMET-TRNAFMET FORMED IN VITRO REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 01-JAN-04 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 100.00 REMARK 245 MICROSCOPE MODEL : FEI TECNAI F20 REMARK 245 DETECTOR TYPE : KODAK SO-163 FILM REMARK 245 MINIMUM DEFOCUS (NM) : -930.00 REMARK 245 MAXIMUM DEFOCUS (NM) : -3930.00 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) : NULL REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 39000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 200 REMARK 245 IMAGING DETAILS : LOW DOSE MODE 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: F, I, W 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: EMD-1248 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-1249 RELATED DB: EMDB REMARK 900 RELATED ID: 1Z03 RELATED DB: PDB DBREF 1ZO1 I 224 724 UNP P0A705 IF2_ECOLI 388 888 DBREF 1ZO1 W 22 61 UNP P69222 IF1_ECOLI 21 60 DBREF 1ZO1 F 1 76 PDB 1ZO1 1ZO1 1 76 SEQRES 1 F 76 G C G G A U U U A G C U C SEQRES 2 F 76 A G U U G G G A G A G C G SEQRES 3 F 76 C C A G A C U G A A G A U SEQRES 4 F 76 C U G G A G G U C C U G U SEQRES 5 F 76 G U U C G A U C C A C A G SEQRES 6 F 76 A A U U C G C A C C A SEQRES 1 I 501 GLU PRO ARG ALA PRO VAL VAL THR ILE MET GLY HIS VAL SEQRES 2 I 501 ASP HIS GLY LYS THR SER LEU LEU GLU TYR ILE ARG SER SEQRES 3 I 501 THR LYS VAL ALA SER GLY GLU ALA GLY GLY ILE THR GLN SEQRES 4 I 501 HIS ILE GLY ALA TYR HIS VAL GLU THR GLU ASN GLY MET SEQRES 5 I 501 ILE THR PHE LEU ASP THR PRO GLY HIS ALA ALA PHE THR SEQRES 6 I 501 SER MET ARG ALA ARG GLY ALA GLN ALA THR ASP ILE VAL SEQRES 7 I 501 VAL LEU VAL VAL ALA ALA ASP ASP GLY VAL MET PRO GLN SEQRES 8 I 501 THR ILE GLU ALA ILE GLN HIS ALA LYS ALA ALA GLN VAL SEQRES 9 I 501 PRO VAL VAL VAL ALA VAL ASN LYS ILE ASP LYS PRO GLU SEQRES 10 I 501 ALA ASP PRO ASP ARG VAL LYS ASN GLU LEU SER GLN TYR SEQRES 11 I 501 GLY ILE LEU PRO GLU GLU TRP GLY GLY GLU SER GLN PHE SEQRES 12 I 501 VAL HIS VAL SER ALA LYS ALA GLY THR GLY ILE ASP GLU SEQRES 13 I 501 LEU LEU ASP ALA ILE LEU LEU GLN ALA GLU VAL LEU GLU SEQRES 14 I 501 LEU LYS ALA VAL ARG LYS GLY MET ALA SER GLY ALA VAL SEQRES 15 I 501 ILE GLU SER PHE LEU ASP LYS GLY ARG GLY PRO VAL ALA SEQRES 16 I 501 THR VAL LEU VAL ARG GLU GLY THR LEU HIS LYS GLY ASP SEQRES 17 I 501 ILE VAL LEU CYS GLY PHE GLU TYR GLY ARG VAL ARG ALA SEQRES 18 I 501 MET ARG ASN GLU LEU GLY GLN GLU VAL LEU GLU ALA GLY SEQRES 19 I 501 PRO SER ILE PRO VAL GLU ILE LEU GLY LEU SER GLY VAL SEQRES 20 I 501 PRO ALA ALA GLY ASP GLU VAL THR VAL VAL ARG ASP GLU SEQRES 21 I 501 LYS LYS ALA ARG GLU VAL ALA LEU TYR ARG GLN GLY LYS SEQRES 22 I 501 PHE ARG GLU VAL LYS LEU ALA ARG GLN GLN LYS SER LYS SEQRES 23 I 501 LEU GLU ASN MET PHE ALA ASN MET THR GLU GLY GLU VAL SEQRES 24 I 501 HIS GLU VAL ASN ILE VAL LEU LYS ALA ASP VAL GLN GLY SEQRES 25 I 501 SER VAL GLU ALA ILE SER ASP SER LEU LEU LYS LEU SER SEQRES 26 I 501 THR ASP GLU VAL LYS VAL LYS ILE ILE GLY SER GLY VAL SEQRES 27 I 501 GLY GLY ILE THR GLU THR ASP ALA THR LEU ALA ALA ALA SEQRES 28 I 501 SER ASN ALA ILE LEU VAL GLY PHE ASN VAL ARG ALA ASP SEQRES 29 I 501 ALA SER ALA ARG LYS VAL ILE GLU ALA GLU SER LEU ASP SEQRES 30 I 501 LEU ARG TYR TYR SER VAL ILE TYR ASN LEU ILE ASP GLU SEQRES 31 I 501 VAL LYS ALA ALA MET SER GLY MET LEU SER PRO GLU LEU SEQRES 32 I 501 LYS GLN GLN ILE ILE GLY LEU ALA GLU VAL ARG ASP VAL SEQRES 33 I 501 PHE LYS SER PRO LYS PHE GLY ALA ILE ALA GLY CYS MET SEQRES 34 I 501 VAL THR GLU GLY VAL VAL LYS ARG HIS ASN PRO ILE ARG SEQRES 35 I 501 VAL LEU ARG ASP ASN VAL VAL ILE TYR GLU GLY GLU LEU SEQRES 36 I 501 GLU SER LEU ARG ARG PHE LYS ASP ASP VAL ASN GLU VAL SEQRES 37 I 501 ARG ASN GLY MET GLU CYS GLY ILE GLY VAL LYS ASN TYR SEQRES 38 I 501 ASN ASP VAL ARG THR GLY ASP VAL ILE GLU VAL PHE GLU SEQRES 39 I 501 ILE ILE GLU ILE GLN ARG THR SEQRES 1 W 71 ALA LYS GLU LYS ASP THR ILE ARG THR GLU GLY VAL VAL SEQRES 2 W 71 THR GLU ALA LEU PRO ASN ALA THR PHE ARG VAL LYS LEU SEQRES 3 W 71 ASP SER GLY PRO GLU ILE LEU ALA TYR ILE SER GLY LYS SEQRES 4 W 71 MET ARG MET HIS TYR ILE ARG ILE LEU PRO GLY ASP ARG SEQRES 5 W 71 VAL VAL VAL GLU ILE THR PRO TYR ASP PRO THR ARG GLY SEQRES 6 W 71 ARG ILE VAL TYR ARG LYS HELIX 1 1 LYS I 240 ALA I 253 1 14 HELIX 2 2 THR I 315 ALA I 325 1 11 HELIX 3 3 GLU I 379 ILE I 384 1 6 HELIX 4 4 GLU I 499 GLU I 511 1 13 HELIX 5 5 VAL I 533 LEU I 545 1 13 HELIX 6 6 ILE I 564 ALA I 569 1 6 HELIX 7 7 ALA I 573 ALA I 577 5 5 HELIX 8 8 ASP I 587 LYS I 592 1 6 HELIX 9 9 TYR I 608 VAL I 614 1 7 HELIX 10 10 VAL I 614 SER I 619 1 6 HELIX 11 11 SER W 37 HIS W 43 1 7 SHEET 1 A 5 PHE I 278 LEU I 279 0 SHEET 2 A 5 VAL I 230 GLY I 234 1 N VAL I 230 O LEU I 279 SHEET 3 A 5 VAL I 301 ALA I 306 1 O VAL I 304 N MET I 233 SHEET 4 A 5 VAL I 329 ASN I 334 1 O ALA I 332 N LEU I 303 SHEET 5 A 5 GLN I 365 HIS I 368 1 O VAL I 367 N VAL I 331 SHEET 1 B 5 SER I 402 LEU I 410 0 SHEET 2 B 5 PRO I 416 GLU I 424 -1 O VAL I 417 N PHE I 409 SHEET 3 B 5 ASP I 475 VAL I 480 -1 O VAL I 479 N ALA I 418 SHEET 4 B 5 VAL I 453 ALA I 456 -1 N LEU I 454 O THR I 478 SHEET 5 B 5 LEU I 465 LEU I 467 -1 O GLY I 466 N GLU I 455 SHEET 1 C 2 ILE I 432 GLY I 436 0 SHEET 2 C 2 ARG I 441 MET I 445 -1 O ALA I 444 N VAL I 433 SHEET 1 D 2 LEU I 579 GLY I 581 0 SHEET 2 D 2 LEU I 601 TYR I 603 1 O ARG I 602 N GLY I 581 SHEET 1 E 6 TYR I 674 GLU I 677 0 SHEET 2 E 6 PRO I 663 ARG I 665 -1 N ILE I 664 O GLY I 676 SHEET 3 E 6 VAL I 712 VAL I 715 -1 O GLU I 714 N ARG I 665 SHEET 4 E 6 ALA I 634 ASP I 638 -1 N VAL I 636 O ILE I 713 SHEET 5 E 6 ILE I 648 LYS I 659 -1 O MET I 652 N ARG I 637 SHEET 6 E 6 GLU I 690 ARG I 692 -1 O VAL I 691 N VAL I 658 SHEET 1 F 6 TYR I 674 GLU I 677 0 SHEET 2 F 6 PRO I 663 ARG I 665 -1 N ILE I 664 O GLY I 676 SHEET 3 F 6 VAL I 712 VAL I 715 -1 O GLU I 714 N ARG I 665 SHEET 4 F 6 ALA I 634 ASP I 638 -1 N VAL I 636 O ILE I 713 SHEET 5 F 6 ILE I 648 LYS I 659 -1 O MET I 652 N ARG I 637 SHEET 6 F 6 CYS I 697 GLY I 700 -1 O CYS I 697 N CYS I 651 SHEET 1 G 2 LEU I 681 ARG I 683 0 SHEET 2 G 2 ASP I 686 VAL I 688 -1 O ASP I 686 N ARG I 683 SHEET 1 H 3 LYS W 25 LEU W 26 0 SHEET 2 H 3 GLU W 10 VAL W 12 -1 N VAL W 12 O LYS W 25 SHEET 3 H 3 ARG W 52 VAL W 54 -1 O VAL W 53 N GLY W 11 SHEET 1 I 2 ALA W 16 LEU W 17 0 SHEET 2 I 2 THR W 21 PHE W 22 -1 O THR W 21 N LEU W 17 SHEET 1 J 2 TYR W 35 ILE W 36 0 SHEET 2 J 2 ARG W 66 ILE W 67 1 O ILE W 67 N TYR W 35 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