HEADER SIGNALING PROTEIN 21-JUN-04 1TRJ TITLE HOMOLOGY MODEL OF YEAST RACK1 PROTEIN FITTED INTO 11.7A CRYO-EM MAP OF TITLE 2 YEAST 80S RIBOSOME COMPND MOL_ID: 1; COMPND 2 MOLECULE: HELIX 39 OF 18S RRNA; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HELIX 40 OF 18S RRNA; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: GUANINE NUCLEOTIDE-BINDING PROTEIN BETA SUBUNIT-LIKE COMPND 11 PROTEIN; COMPND 12 CHAIN: A; COMPND 13 SYNONYM: RACK1 PROTEIN SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 7 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 8 ORGANISM_TAXID: 4932 KEYWDS RACK1, RIBOSOME, HOMOLOGY MODEL, SIGNALING PROTEIN EXPDTA ELECTRON MICROSCOPY MDLTYP CA ATOMS ONLY, CHAIN A; P ATOMS ONLY, CHAIN B, C AUTHOR J.SENGUPTA,J.NILSSON,R.GURSKY,C.M.SPAHN,P.NISSEN,J.FRANK REVDAT 5 14-FEB-24 1TRJ 1 REMARK REVDAT 4 18-JUL-18 1TRJ 1 REMARK REVDAT 3 24-FEB-09 1TRJ 1 VERSN REVDAT 2 05-OCT-04 1TRJ 1 JRNL REVDAT 1 28-SEP-04 1TRJ 0 JRNL AUTH J.SENGUPTA,J.NILSSON,R.GURSKY,C.M.SPAHN,P.NISSEN,J.FRANK JRNL TITL IDENTIFICATION OF THE VERSATILE SCAFFOLD PROTEIN RACK1 ON JRNL TITL 2 THE EUKARYOTIC RIBOSOME BY CRYO-EM JRNL REF NAT.STRUCT.MOL.BIOL. V. 11 957 2004 JRNL REFN ISSN 1545-9993 JRNL PMID 15334071 JRNL DOI 10.1038/NSMB822 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.CECI,C.GAVIRAGHI,C.GORRINI,L.A.SALA,N.OFFENHAUSER, REMARK 1 AUTH 2 P.C.MARCHISIO,S.BIFFO REMARK 1 TITL RELEASE OF EIF6 (P27BBP) FROM THE 60S SUBUNIT ALLOWS 80S REMARK 1 TITL 2 RIBOSOME ASSEMBLY REMARK 1 REF NATURE V. 426 579 2003 REMARK 1 REFN ISSN 0028-0836 REMARK 1 REFERENCE 2 REMARK 1 AUTH B.SHOR,J.CALAYCAY,J.RUSHBROOK,M.MCLEOD REMARK 1 TITL CPC2/RACK1 IS A RIBOSOME-ASSOCIATED PROTEIN THAT PROMOTES REMARK 1 TITL 2 EFFICIENT TRANSLATION IN SCHIZOSACCHAROMYCES POMBE REMARK 1 REF J.BIOL.CHEM. V. 278 49119 2003 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 3 REMARK 1 AUTH S.BAUM,M.BITTINS,S.FREY,M.SEEDORF REMARK 1 TITL ASC1P, A WD40-DOMAIN CONTAINING ADAPTOR PROTEIN, IS REQUIRED REMARK 1 TITL 2 FOR THE INTERACTION OF THE RNA-BINDING PROTEIN SCP160P WITH REMARK 1 TITL 3 POLYSOMES REMARK 1 REF BIOCHEM.J. V. 380 823 2004 REMARK 1 REFN ISSN 0264-6021 REMARK 2 REMARK 2 RESOLUTION. 11.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : 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 : OTHER REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--USING A RAPID MOTIF SEARCH MODULE OF REMARK 3 SPIDER (THE CRYO-EM MAP USED FOR FITTING WAS INTERPOLATED TO REMARK 3 PIXEL SIZE 2.82) 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) : 11.70 REMARK 3 NUMBER OF PARTICLES : NULL 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 1TRJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000022866. 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 : 80S RIBOSOME 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-FEB-01 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 93.00 REMARK 245 MICROSCOPE MODEL : FEI TECNAI 20 REMARK 245 DETECTOR TYPE : KODAK SO-163 FILM REMARK 245 MINIMUM DEFOCUS (NM) : 4900.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1400.00 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) : 1500.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 50000 REMARK 245 CALIBRATED MAGNIFICATION : 52000 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: B, C, A 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: 1GOT RELATED DB: PDB REMARK 900 HETEROTRIMERIC COMPLEX OF A GT-ALPHA/GI-ALPHA CHIMERA AND THE GT- REMARK 900 BETA-GAMMA SUBUNITS REMARK 900 RELATED ID: 1S1H RELATED DB: PDB REMARK 900 STRUCTURE OF THE RIBOSOMAL 80S-EEF2-SORDARIN COMPLEX FROM YEAST REMARK 900 OBTAINED BY DOCKING ATOMIC MODELS FOR RNA AND PROTEIN COMPONENTS REMARK 900 INTO A 11.7 A CRYO-EM MAP. THIS FILE, 1S1H, CONTAINS 40S SUBUNIT. REMARK 900 RELATED ID: EMD-1067 RELATED DB: EMDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 ONLY COORDINATES FOR CA ATOMS FROM THE PROTEIN AND REMARK 999 P ATOMS FROM THE NUCLEIC ACIDS WERE INCLUDED IN THE REMARK 999 STRUCTURE. DBREF 1TRJ A 1 314 UNP P38011 GBLP_YEAST 1 314 DBREF 1TRJ B 1115 1155 PDB 1TRJ 1TRJ 1115 1155 DBREF 1TRJ C 1156 1183 PDB 1TRJ 1TRJ 1156 1183 SEQRES 1 B 41 C C G C C G U U A G U U G SEQRES 2 B 41 C C A G C G G U U C G G C SEQRES 3 B 41 C G G G C A C U C U A A C SEQRES 4 B 41 G G SEQRES 1 C 27 G A C U G C C C G C G A A SEQRES 2 C 27 A G C G G G A G G A A G G SEQRES 3 C 27 A SEQRES 1 A 314 MET ALA SER ASN GLU VAL LEU VAL LEU ARG GLY THR LEU SEQRES 2 A 314 GLU GLY HIS ASN GLY TRP VAL THR SER LEU ALA THR SER SEQRES 3 A 314 ALA GLY GLN PRO ASN LEU LEU LEU SER ALA SER ARG ASP SEQRES 4 A 314 LYS THR LEU ILE SER TRP LYS LEU THR GLY ASP ASP GLN SEQRES 5 A 314 LYS PHE GLY VAL PRO VAL ARG SER PHE LYS GLY HIS SER SEQRES 6 A 314 HIS ILE VAL GLN ASP CYS THR LEU THR ALA ASP GLY ALA SEQRES 7 A 314 TYR ALA LEU SER ALA SER TRP ASP LYS THR LEU ARG LEU SEQRES 8 A 314 TRP ASP VAL ALA THR GLY GLU THR TYR GLN ARG PHE VAL SEQRES 9 A 314 GLY HIS LYS SER ASP VAL MET SER VAL ASP ILE ASP LYS SEQRES 10 A 314 LYS ALA SER MET ILE ILE SER GLY SER ARG ASP LYS THR SEQRES 11 A 314 ILE LYS VAL TRP THR ILE LYS GLY GLN CYS LEU ALA THR SEQRES 12 A 314 LEU LEU GLY HIS ASN ASP TRP VAL SER GLN VAL ARG VAL SEQRES 13 A 314 VAL PRO ASN GLU LYS ALA ASP ASP ASP SER VAL THR ILE SEQRES 14 A 314 ILE SER ALA GLY ASN ASP LYS MET VAL LYS ALA TRP ASN SEQRES 15 A 314 LEU ASN GLN PHE GLN ILE GLU ALA ASP PHE ILE GLY HIS SEQRES 16 A 314 ASN SER ASN ILE ASN THR LEU THR ALA SER PRO ASP GLY SEQRES 17 A 314 THR LEU ILE ALA SER ALA GLY LYS ASP GLY GLU ILE MET SEQRES 18 A 314 LEU TRP ASN LEU ALA ALA LYS LYS ALA MET TYR THR LEU SEQRES 19 A 314 SER ALA GLN ASP GLU VAL PHE SER LEU ALA PHE SER PRO SEQRES 20 A 314 ASN ARG TYR TRP LEU ALA ALA ALA THR ALA THR GLY ILE SEQRES 21 A 314 LYS VAL PHE SER LEU ASP PRO GLN TYR LEU VAL ASP ASP SEQRES 22 A 314 LEU ARG PRO GLU PHE ALA GLY TYR SER LYS ALA ALA GLU SEQRES 23 A 314 PRO HIS ALA VAL SER LEU ALA TRP SER ALA ASP GLY GLN SEQRES 24 A 314 THR LEU PHE ALA GLY TYR THR ASP ASN VAL ILE ARG VAL SEQRES 25 A 314 TRP GLN 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