HEADER RNA 27-JUL-05 2AGN TITLE FITTING OF HEPATITIS C VIRUS INTERNAL RIBOSOME ENTRY SITE DOMAINS INTO TITLE 2 THE 15 A CRYO-EM MAP OF A HCV IRES-80S RIBOSOME (H. SAPIENS) COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: HCV-1B IRES RNA SUB-DOMAIN IIID; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HCV IRES SUB-DOMAIN IIIB; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HCV IRES DOMAIN II; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: 6 NT A-RNA HELIX; COMPND 15 CHAIN: D; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 5; COMPND 18 MOLECULE: HCV IRES IIIABC; COMPND 19 CHAIN: E; COMPND 20 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 8 ORGANISM_TAXID: 32630; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630; SOURCE 13 MOL_ID: 4; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 16 ORGANISM_TAXID: 32630; SOURCE 17 MOL_ID: 5; SOURCE 18 SYNTHETIC: YES; SOURCE 19 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 20 ORGANISM_TAXID: 32630 KEYWDS HCV, IRES, RNA EXPDTA ELECTRON MICROSCOPY MDLTYP P ATOMS ONLY, CHAIN A, B, C, D, E AUTHOR D.BOEHRINGER,R.THERMANN,A.OSTARECK-LEDERER,J.D.LEWIS,H.STARK REVDAT 5 13-MAR-24 2AGN 1 REMARK REVDAT 4 18-DEC-19 2AGN 1 SOURCE REMARK REVDAT 3 18-DEC-13 2AGN 1 ATOM SEQRES VERSN REVDAT 2 24-FEB-09 2AGN 1 VERSN REVDAT 1 25-JUL-06 2AGN 0 JRNL AUTH D.BOEHRINGER,R.THERMANN,A.OSTARECK-LEDERER,J.D.LEWIS,H.STARK JRNL TITL STRUCTURE OF THE HEPATITIS C VIRUS IRES BOUND TO THE HUMAN JRNL TITL 2 80S RIBOSOME: REMODELING OF THE HCV IRES JRNL REF STRUCTURE V. 13 1695 2005 JRNL REFN ISSN 0969-2126 JRNL PMID 16271893 JRNL DOI 10.1016/J.STR.2005.08.008 REMARK 2 REMARK 2 RESOLUTION. 15.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : IMAGIC, AMIRA REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 1P5P 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 : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 3.600 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 15.00 REMARK 3 NUMBER OF PARTICLES : 24100 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: THIS ENTRY CONTAINS ONLY PHOSPHORUS ATOM IN THE REMARK 3 COORDINATE. REMARK 4 REMARK 4 2AGN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ. REMARK 100 THE DEPOSITION ID IS D_1000033870. 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 : HCV IRES-80S RIBOSOME COMPLEX REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : PERFORATED CORBON FOIL ON A REMARK 245 COPPER GRID REMARK 245 SAMPLE VITRIFICATION DETAILS : PLUNGING INTO LIQUID ETHANE REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.10 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 01-OCT-03 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 77.00 REMARK 245 MICROSCOPE MODEL : FEI/PHILIPS CM200FEG REMARK 245 DETECTOR TYPE : GENERIC 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 : 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 : 50000 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: PENTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 G A 1 REMARK 465 G B 1 REMARK 465 U B 15 REMARK 465 U B 16 REMARK 465 C B 17 REMARK 465 G B 18 REMARK 465 G C 1 REMARK 465 G E 1 REMARK 465 G E 11 REMARK 465 U E 12 REMARK 465 G E 13 REMARK 465 A E 14 REMARK 465 G E 15 REMARK 465 U E 16 REMARK 465 G E 29 REMARK 465 A E 30 REMARK 465 A E 31 REMARK 465 A E 32 REMARK 465 U E 44 REMARK 465 C E 53 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-1138 RELATED DB: EMDB DBREF 2AGN A 1 29 PDB 2AGN 2AGN 1 29 DBREF 2AGN B 1 30 PDB 2AGN 2AGN 1 30 DBREF 2AGN C 1 77 PDB 2AGN 2AGN 1 77 DBREF 2AGN D 2 15 PDB 2AGN 2AGN 2 15 DBREF 2AGN E 1 53 PDB 2AGN 2AGN 1 53 SEQRES 1 A 29 G G C C G A G U A G U G U SEQRES 2 A 29 U G G G U C G C G A A A G SEQRES 3 A 29 G C C SEQRES 1 B 30 G G C G C U C A A U G C U SEQRES 2 B 30 C U U C G G A G A C G A C SEQRES 3 B 30 C G C C SEQRES 1 C 77 G G C U G U G A G G A A C SEQRES 2 C 77 U A C U G U C U U C A C G SEQRES 3 C 77 C A G A A A G C G U C U A SEQRES 4 C 77 G C C A U G G C G U U A G SEQRES 5 C 77 U A U G A G U G U C G U G SEQRES 6 C 77 C A G C C U C C A G C C SEQRES 1 D 14 C C C G G G G C C C G G G SEQRES 2 D 14 G SEQRES 1 E 53 G G C G G A A C C G G U G SEQRES 2 E 53 A G U A C A C C G G A A U SEQRES 3 E 53 C C G A A A G G A U U U G SEQRES 4 E 53 G G C G U G C C C C C G C SEQRES 5 E 53 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