HEADER RIBOSOME/RNA 06-NOV-14 4D5N TITLE CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION FACTORS TITLE 2 AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE TRANSLOCATED TITLE 3 STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 5-437; COMPND 5 SYNONYM: EUKARYOTIC RELEASE FACTOR 1, ERF1, PROTEIN CL1, TB3-1, COMPND 6 EUKARYORIC RELEASE FACTOR 1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CRICKET PARALYSIS VIRUS IRES RNA; COMPND 10 CHAIN: X; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: CRICKET PARALYSIS VIRUS; SOURCE 11 ORGANISM_TAXID: 12136 KEYWDS RIBOSOME-RNA COMPLEX, CRPV IRES, RIBOSOME, TERMINATION, RELEASE KEYWDS 2 FACTORS EXPDTA ELECTRON MICROSCOPY AUTHOR M.MUHS,T.HILAL,T.MIELKE,M.A.SKABKIN,K.Y.SANBONMATSU,T.V.PESTOVA, AUTHOR 2 C.M.T.SPAHN REVDAT 4 08-MAY-24 4D5N 1 DBREF REVDAT 3 30-AUG-17 4D5N 1 REMARK ATOM REVDAT 2 04-MAR-15 4D5N 1 JRNL REVDAT 1 04-FEB-15 4D5N 0 JRNL AUTH M.MUHS,T.HILAL,T.MIELKE,M.A.SKABKIN,K.Y.SANBONMATSU, JRNL AUTH 2 T.V.PESTOVA,C.M.T.SPAHN JRNL TITL CRYO-EM OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION FACTORS JRNL TITL 2 REVEALS THE TRANSLOCATED CRICKET PARALYSIS VIRUS IRES. JRNL REF MOL.CELL V. 57 422 2015 JRNL REFN ISSN 1097-2765 JRNL PMID 25601755 JRNL DOI 10.1016/J.MOLCEL.2014.12.016 REMARK 2 REMARK 2 RESOLUTION. 9.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : UCSF CHIMERA, SPARX, SPIDER REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--RIGID BODY, FLEXIBLE FIT REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 1.560 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 9.000 REMARK 3 NUMBER OF PARTICLES : 109596 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: CROSS- -CORRELATION REMARK 3 DENSITIES WITH REFERENCE STRUCTURE REMARK 3 REMARK 3 OTHER DETAILS: SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD REMARK 3 -2810. (DEPOSITION ID: 12907). REMARK 4 REMARK 4 4D5N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE. REMARK 100 THE DEPOSITION ID IS D_1290062207. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : VITREOUS ICE REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : CRICKET PARALYSIS VIRUS IRES REMARK 245 RNA BOUND TO MAMMALIAN 80S REMARK 245 RIBOSOME AND ERF1 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 1.38 REMARK 245 SAMPLE SUPPORT DETAILS : HOLEY CARBON REMARK 245 SAMPLE VITRIFICATION DETAILS : LIQUID ETHANE REMARK 245 SAMPLE BUFFER : 20 MM TRIS PH 7.5, 100 MM KCL, REMARK 245 1 MM DTT, 2.5 MM MGCL2, 0.5 MM REMARK 245 GTP REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : MICROGRAPHS SELECTED FOR REMARK 245 ASTIGMATISM AND DRIFT REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 17-APR-12 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 77.00 REMARK 245 MICROSCOPE MODEL : FEI TECNAI F20 REMARK 245 DETECTOR TYPE : KODAK SO-163 FILM REMARK 245 MINIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 4000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL 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 : 39000 REMARK 245 CALIBRATED MAGNIFICATION : 65520 REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : GOOD MICROGRAPHS SELECTED REMARK 245 FOR ASTIGMATISM AND DRIFT 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, X 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 N7 A X 6056 O2' A X 6161 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 U X6040 C4 U X6040 O4 0.049 REMARK 500 U X6046 N3 U X6046 C4 -0.058 REMARK 500 U X6047 C4 U X6047 O4 0.081 REMARK 500 G X6048 C5 G X6048 N7 0.037 REMARK 500 G X6048 C8 G X6048 N9 -0.043 REMARK 500 A X6050 C6 A X6050 N1 0.054 REMARK 500 U X6053 C2 U X6053 O2 -0.071 REMARK 500 U X6053 C4 U X6053 O4 0.099 REMARK 500 U X6058 O3' U X6059 P 0.091 REMARK 500 A X6078 N9 A X6078 C4 0.074 REMARK 500 C X6079 N3 C X6079 C4 0.134 REMARK 500 G X6082 C5 G X6082 N7 0.038 REMARK 500 U X6091 N1 U X6091 C2 0.084 REMARK 500 U X6091 N1 U X6091 C6 -0.054 REMARK 500 U X6091 C5 U X6091 C6 0.074 REMARK 500 U X6092 C2 U X6092 N3 -0.061 REMARK 500 G X6104 N1 G X6104 C2 -0.052 REMARK 500 G X6104 N3 G X6104 C4 -0.074 REMARK 500 G X6104 C6 G X6104 N1 0.071 REMARK 500 G X6104 N7 G X6104 C8 0.046 REMARK 500 G X6108 N7 G X6108 C8 -0.044 REMARK 500 C X6109 N1 C X6109 C6 -0.044 REMARK 500 C X6109 N3 C X6109 C4 0.046 REMARK 500 A X6115 C6 A X6115 N1 0.069 REMARK 500 G X6141 C6 G X6141 N1 -0.043 REMARK 500 C X6142 N1 C X6142 C6 -0.037 REMARK 500 G X6144 C8 G X6144 N9 -0.064 REMARK 500 G X6144 N9 G X6144 C4 -0.060 REMARK 500 C X6145 C2 C X6145 O2 0.062 REMARK 500 C X6145 N3 C X6145 C4 0.067 REMARK 500 G X6159 C6 G X6159 O6 -0.060 REMARK 500 G X6160 C5 G X6160 N7 0.057 REMARK 500 A X6161 C5 A X6161 N7 0.057 REMARK 500 C X6166 O3' U X6167 P -0.125 REMARK 500 U X6167 O3' C X6168 P -0.084 REMARK 500 C X6170 O3' U X6171 P 0.088 REMARK 500 G X6172 O3' C X6173 P 0.094 REMARK 500 C X6173 O3' G X6174 P -0.243 REMARK 500 U X6177 O3' A X6178 P -0.221 REMARK 500 A X6178 O3' U X6179 P -0.076 REMARK 500 C X6181 O3' A X6182 P 0.078 REMARK 500 A X6182 O3' G X6183 P -0.157 REMARK 500 A X6197 O3' A X6198 P -0.073 REMARK 500 A X6198 O3' A X6199 P 0.160 REMARK 500 A X6199 O3' A X6200 P -0.122 REMARK 500 G X6206 O3' A X6207 P 0.181 REMARK 500 A X6207 O3' A X6208 P -0.142 REMARK 500 A X6213 O3' C X6214 P -0.172 REMARK 500 C X6215 O3' U X6216 P -0.188 REMARK 500 U X6216 O3' U X6217 P 0.123 REMARK 500 REMARK 500 THIS ENTRY HAS 53 BOND DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 A X6030 C2 - N3 - C4 ANGL. DEV. = -3.9 DEGREES REMARK 500 A X6030 N3 - C4 - C5 ANGL. DEV. = 7.9 DEGREES REMARK 500 A X6030 C4 - C5 - C6 ANGL. DEV. = -4.5 DEGREES REMARK 500 A X6030 N3 - C4 - N9 ANGL. DEV. = -7.4 DEGREES REMARK 500 A X6031 C6 - N1 - C2 ANGL. DEV. = 7.0 DEGREES REMARK 500 A X6031 N1 - C2 - N3 ANGL. DEV. = -5.1 DEGREES REMARK 500 A X6031 C5 - C6 - N1 ANGL. DEV. = -3.1 DEGREES REMARK 500 A X6031 N1 - C6 - N6 ANGL. DEV. = 4.3 DEGREES REMARK 500 U X6040 C2 - N3 - C4 ANGL. DEV. = -4.4 DEGREES REMARK 500 U X6040 N3 - C4 - C5 ANGL. DEV. = 5.0 DEGREES REMARK 500 U X6040 N1 - C2 - O2 ANGL. DEV. = -6.5 DEGREES REMARK 500 U X6046 N1 - C2 - N3 ANGL. DEV. = 5.8 DEGREES REMARK 500 U X6046 C2 - N3 - C4 ANGL. DEV. = -8.8 DEGREES REMARK 500 U X6046 N3 - C4 - C5 ANGL. DEV. = 7.8 DEGREES REMARK 500 U X6046 C5 - C4 - O4 ANGL. DEV. = -5.7 DEGREES REMARK 500 U X6047 N1 - C2 - N3 ANGL. DEV. = 5.3 DEGREES REMARK 500 U X6047 C2 - N3 - C4 ANGL. DEV. = -6.1 DEGREES REMARK 500 U X6047 N1 - C2 - O2 ANGL. DEV. = -5.6 DEGREES REMARK 500 G X6048 C2 - N3 - C4 ANGL. DEV. = 5.5 DEGREES REMARK 500 G X6048 N3 - C4 - C5 ANGL. DEV. = -3.3 DEGREES REMARK 500 G X6048 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 G X6048 C8 - N9 - C4 ANGL. DEV. = 3.0 DEGREES REMARK 500 G X6048 N3 - C4 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 G X6048 C6 - C5 - N7 ANGL. DEV. = 3.7 DEGREES REMARK 500 G X6048 N1 - C6 - O6 ANGL. DEV. = 4.2 DEGREES REMARK 500 G X6048 C5 - C6 - O6 ANGL. DEV. = -7.8 DEGREES REMARK 500 U X6049 C2 - N3 - C4 ANGL. DEV. = -5.2 DEGREES REMARK 500 U X6049 N3 - C4 - C5 ANGL. DEV. = 5.3 DEGREES REMARK 500 U X6049 N1 - C2 - O2 ANGL. DEV. = 7.0 DEGREES REMARK 500 U X6049 N3 - C2 - O2 ANGL. DEV. = -10.2 DEGREES REMARK 500 U X6049 C5 - C4 - O4 ANGL. DEV. = -7.1 DEGREES REMARK 500 A X6050 C8 - N9 - C4 ANGL. DEV. = -3.1 DEGREES REMARK 500 A X6050 N9 - C4 - C5 ANGL. DEV. = 3.6 DEGREES REMARK 500 A X6050 N3 - C4 - N9 ANGL. DEV. = -4.9 DEGREES REMARK 500 A X6051 C6 - N1 - C2 ANGL. DEV. = 3.9 DEGREES REMARK 500 U X6053 C6 - N1 - C2 ANGL. DEV. = -4.5 DEGREES REMARK 500 U X6053 N1 - C2 - N3 ANGL. DEV. = 4.2 DEGREES REMARK 500 U X6053 C2 - N3 - C4 ANGL. DEV. = -5.4 DEGREES REMARK 500 U X6053 N3 - C4 - C5 ANGL. DEV. = 5.2 DEGREES REMARK 500 U X6053 C4 - C5 - C6 ANGL. DEV. = -4.3 DEGREES REMARK 500 U X6053 C5 - C6 - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 U X6053 C5 - C4 - O4 ANGL. DEV. = -4.5 DEGREES REMARK 500 A X6070 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES REMARK 500 U X6077 C2 - N3 - C4 ANGL. DEV. = -9.0 DEGREES REMARK 500 U X6077 N3 - C4 - C5 ANGL. DEV. = 8.0 DEGREES REMARK 500 U X6077 N3 - C4 - O4 ANGL. DEV. = -6.2 DEGREES REMARK 500 A X6078 N1 - C2 - N3 ANGL. DEV. = -3.6 DEGREES REMARK 500 A X6078 C4 - C5 - N7 ANGL. DEV. = -3.0 DEGREES REMARK 500 A X6078 C5 - N7 - C8 ANGL. DEV. = 5.8 DEGREES REMARK 500 A X6078 N7 - C8 - N9 ANGL. DEV. = -3.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 171 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 8 -38.21 68.59 REMARK 500 VAL A 66 -58.28 -134.91 REMARK 500 LYS A 145 177.90 25.07 REMARK 500 LEU A 169 -70.01 -84.76 REMARK 500 PRO A 177 90.31 -66.49 REMARK 500 ALA A 187 -46.52 57.77 REMARK 500 ARG A 245 -1.83 63.79 REMARK 500 PHE A 419 -159.93 59.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 G X6160 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4D5L RELATED DB: PDB REMARK 900 CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION REMARK 900 FACTORS AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE REMARK 900 TRANSLOCATED STATE REMARK 900 RELATED ID: 4D5Y RELATED DB: PDB REMARK 900 CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION REMARK 900 FACTORS AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE REMARK 900 TRANSLOCATED STATE REMARK 900 RELATED ID: 4D61 RELATED DB: PDB REMARK 900 CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION REMARK 900 FACTORS AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE REMARK 900 TRANSLOCATED STATE REMARK 900 RELATED ID: 4D66 RELATED DB: PDB REMARK 900 CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION REMARK 900 FACTORS AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE REMARK 900 TRANSLOCATED STATE REMARK 900 RELATED ID: 4D67 RELATED DB: PDB REMARK 900 CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION REMARK 900 FACTORS AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE REMARK 900 TRANSLOCATED STATE REMARK 900 RELATED ID: 4D68 RELATED DB: PDB REMARK 900 CRYO-EM STRUCTURES OF RIBOSOMAL 80S COMPLEXES WITH TERMINATION REMARK 900 FACTORS AND CRICKET PARALYSIS VIRUS IRES REVEAL THE IRES IN THE REMARK 900 TRANSLOCATED STATE REMARK 900 RELATED ID: EMD-2810 RELATED DB: EMDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 FIRST CODING TRIPLET MUTATED TO STOP DBREF 4D5N A 5 437 UNP P62495 ERF1_HUMAN 5 437 DBREF 4D5N X 6030 6216 GB 8895506 AF218039.1 6030 6216 DBREF 4D5N X 6217 6230 PDB 4D5N 4D5N 6217 6230 SEQADV 4D5N LEU A 438 UNP P62495 EXPRESSION TAG SEQADV 4D5N GLU A 439 UNP P62495 EXPRESSION TAG SEQADV 4D5N HIS A 440 UNP P62495 EXPRESSION TAG SEQADV 4D5N A X 6178 GB 8895506 U 6178 CONFLICT SEQRES 1 A 436 PRO SER ALA ALA ASP ARG ASN VAL GLU ILE TRP LYS ILE SEQRES 2 A 436 LYS LYS LEU ILE LYS SER LEU GLU ALA ALA ARG GLY ASN SEQRES 3 A 436 GLY THR SER MET ILE SER LEU ILE ILE PRO PRO LYS ASP SEQRES 4 A 436 GLN ILE SER ARG VAL ALA LYS MET LEU ALA ASP GLU PHE SEQRES 5 A 436 GLY THR ALA SER ASN ILE LYS SER ARG VAL ASN ARG LEU SEQRES 6 A 436 SER VAL LEU GLY ALA ILE THR SER VAL GLN GLN ARG LEU SEQRES 7 A 436 LYS LEU TYR ASN LYS VAL PRO PRO ASN GLY LEU VAL VAL SEQRES 8 A 436 TYR CYS GLY THR ILE VAL THR GLU GLU GLY LYS GLU LYS SEQRES 9 A 436 LYS VAL ASN ILE ASP PHE GLU PRO PHE LYS PRO ILE ASN SEQRES 10 A 436 THR SER LEU TYR LEU CYS ASP ASN LYS PHE HIS THR GLU SEQRES 11 A 436 ALA LEU THR ALA LEU LEU SER ASP ASP SER LYS PHE GLY SEQRES 12 A 436 PHE ILE VAL ILE ASP GLY SER GLY ALA LEU PHE GLY THR SEQRES 13 A 436 LEU GLN GLY ASN THR ARG GLU VAL LEU HIS LYS PHE THR SEQRES 14 A 436 VAL ASP LEU PRO LYS LYS HIS GLY ARG GLY GLY GLN SER SEQRES 15 A 436 ALA LEU ARG PHE ALA ARG LEU ARG MET GLU LYS ARG HIS SEQRES 16 A 436 ASN TYR VAL ARG LYS VAL ALA GLU THR ALA VAL GLN LEU SEQRES 17 A 436 PHE ILE SER GLY ASP LYS VAL ASN VAL ALA GLY LEU VAL SEQRES 18 A 436 LEU ALA GLY SER ALA ASP PHE LYS THR GLU LEU SER GLN SEQRES 19 A 436 SER ASP MET PHE ASP GLN ARG LEU GLN SER LYS VAL LEU SEQRES 20 A 436 LYS LEU VAL ASP ILE SER TYR GLY GLY GLU ASN GLY PHE SEQRES 21 A 436 ASN GLN ALA ILE GLU LEU SER THR GLU VAL LEU SER ASN SEQRES 22 A 436 VAL LYS PHE ILE GLN GLU LYS LYS LEU ILE GLY ARG TYR SEQRES 23 A 436 PHE ASP GLU ILE SER GLN ASP THR GLY LYS TYR CYS PHE SEQRES 24 A 436 GLY VAL GLU ASP THR LEU LYS ALA LEU GLU MET GLY ALA SEQRES 25 A 436 VAL GLU ILE LEU ILE VAL TYR GLU ASN LEU ASP ILE MET SEQRES 26 A 436 ARG TYR VAL LEU HIS CYS GLN GLY THR GLU GLU GLU LYS SEQRES 27 A 436 ILE LEU TYR LEU THR PRO GLU GLN GLU LYS ASP LYS SER SEQRES 28 A 436 HIS PHE THR ASP LYS GLU THR GLY GLN GLU HIS GLU LEU SEQRES 29 A 436 ILE GLU SER MET PRO LEU LEU GLU TRP PHE ALA ASN ASN SEQRES 30 A 436 TYR LYS LYS PHE GLY ALA THR LEU GLU ILE VAL THR ASP SEQRES 31 A 436 LYS SER GLN GLU GLY SER GLN PHE VAL LYS GLY PHE GLY SEQRES 32 A 436 GLY ILE GLY GLY ILE LEU ARG TYR ARG VAL ASP PHE GLN SEQRES 33 A 436 GLY MET GLU TYR GLN GLY GLY ASP ASP GLU PHE PHE ASP SEQRES 34 A 436 LEU ASP ASP TYR LEU GLU HIS SEQRES 1 X 201 A A A A A U G U G A U C U SEQRES 2 X 201 U G C U U G U A A A U A C SEQRES 3 X 201 A A U U U U G A G A G G U SEQRES 4 X 201 U A A U A A A U U A C A A SEQRES 5 X 201 G U A G U G C U A U U U U SEQRES 6 X 201 U G U A U U U A G G U U A SEQRES 7 X 201 G C U A U U U A G C U U U SEQRES 8 X 201 A C G U U C C A G G A U G SEQRES 9 X 201 C C U A G U G G C A G C C SEQRES 10 X 201 C C A C A A U A U C C A G SEQRES 11 X 201 G A A G C C C U C U C U G SEQRES 12 X 201 C G G U U A U U C A G A U SEQRES 13 X 201 U A G G U A G U C G A A A SEQRES 14 X 201 A A C C U A A G A A A U U SEQRES 15 X 201 U A C C U U A A G G C U U SEQRES 16 X 201 C C U C G A HELIX 1 1 ALA A 8 ALA A 27 1 20 HELIX 2 2 GLN A 44 LYS A 63 1 20 HELIX 3 3 VAL A 66 TYR A 85 1 20 HELIX 4 4 GLU A 103 GLY A 105 5 3 HELIX 5 5 THR A 133 SER A 141 1 9 HELIX 6 6 ARG A 189 ILE A 214 1 26 HELIX 7 7 ASP A 231 GLN A 238 1 8 HELIX 8 8 SER A 239 GLN A 244 1 6 HELIX 9 9 GLY A 263 ASP A 297 1 35 HELIX 10 10 GLY A 304 GLY A 315 1 12 HELIX 11 11 THR A 347 ASP A 353 1 7 HELIX 12 12 LEU A 374 GLY A 386 1 13 HELIX 13 13 SER A 396 GLY A 405 1 10 HELIX 14 14 ASP A 433 HIS A 440 1 8 SHEET 1 AA 4 GLU A 107 PHE A 114 0 SHEET 2 AA 4 LEU A 93 VAL A 101 -1 O VAL A 94 N PHE A 114 SHEET 3 AA 4 MET A 34 ILE A 39 -1 O ILE A 35 N CYS A 97 SHEET 4 AA 4 TYR A 125 ASP A 128 -1 O LEU A 126 N SER A 36 SHEET 1 AB 5 THR A 165 PHE A 172 0 SHEET 2 AB 5 GLY A 155 GLN A 162 -1 O ALA A 156 N PHE A 172 SHEET 3 AB 5 PHE A 146 ASP A 152 -1 O PHE A 146 N LEU A 161 SHEET 4 AB 5 GLY A 223 GLY A 228 1 O GLY A 223 N GLY A 147 SHEET 5 AB 5 VAL A 254 ASP A 255 1 O VAL A 254 N GLY A 228 SHEET 1 AC 3 THR A 388 VAL A 392 0 SHEET 2 AC 3 VAL A 317 TYR A 323 1 O GLU A 318 N THR A 388 SHEET 3 AC 3 ILE A 409 LEU A 413 -1 O GLY A 410 N ILE A 321 SHEET 1 AD 3 GLU A 341 LEU A 346 0 SHEET 2 AD 3 MET A 329 HIS A 334 -1 O MET A 329 N LEU A 346 SHEET 3 AD 3 LEU A 368 PRO A 373 -1 N ILE A 369 O VAL A 332 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