HEADER RNA 02-OCT-00 1FYP TITLE EUKARYOTIC DECODING REGION A-SITE RNA-PAROMOMYCIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: FRAGMENT OF 18S RIBOSOMAL RNA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: 18S RNA - NUCLEOTIDES 1404-1412, 1488-1497 (E. COLI COMPND 5 NUMBERING); COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: EUKARYOTIC DECODING REGION A-SITE RNA SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OF 18S RNA OCCURS IN TETRAHYMENA SOURCE 4 THERMOPHILA KEYWDS RNA-PAROMOMYCIN COMPLEX, AMINOGLYCOSIDE, STEM-INTERNAL LOOP-STEM- KEYWDS 2 TETRALOOP, RNA-DRUG, G-A BASE PAIR, RNA EXPDTA SOLUTION NMR NUMMDL 29 AUTHOR S.R.LYNCH,J.D.PUGLISI REVDAT 4 23-FEB-22 1FYP 1 REMARK HETSYN REVDAT 3 24-FEB-09 1FYP 1 VERSN REVDAT 2 09-JAN-02 1FYP 1 COMPND SOURCE REMARK REVDAT 1 14-MAR-01 1FYP 0 JRNL AUTH S.R.LYNCH,J.D.PUGLISI JRNL TITL STRUCTURAL ORIGINS OF AMINOGLYCOSIDE SPECIFICITY FOR JRNL TITL 2 PROKARYOTIC RIBOSOMES. JRNL REF J.MOL.BIOL. V. 306 1037 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11237617 JRNL DOI 10.1006/JMBI.2000.4420 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1, X-PLOR 3.83 REMARK 3 AUTHORS : BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 605 NOES, 122 DIHEDRAL CONSTRAINTS, AND REMARK 3 36 HYDROGEN BONDS REMARK 4 REMARK 4 1FYP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-OCT-00. REMARK 100 THE DEPOSITION ID IS D_1000012022. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 6.3 REMARK 210 IONIC STRENGTH : 10 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 3 MM RNA, 3 MM PAROMOMYCIN, 10 REMARK 210 MM NAPHOSPHATE, PH 6.3, 13C/15N REMARK 210 RNA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1, FELIX 98, X-PLOR 3.83 REMARK 210 METHOD USED : SIMULATED ANNEALING MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 29 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 11 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAR A 28 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FYO RELATED DB: PDB REMARK 900 EUKARYOTIC DECODING REGION A-SITE RNA, FREE IN SOLUTION REMARK 900 RELATED ID: 1PBR RELATED DB: PDB REMARK 900 PROKARYOTIC DECODING REGION A-SITE RNA, BOUND TO PAROMOMYCIN REMARK 900 RELATED ID: 1A3M RELATED DB: PDB REMARK 900 PROKARYOTIC DECODING REGION A-SITE RNA, FREE IN SOLUTION DBREF 1FYP A 1 27 PDB 1FYP 1FYP 1 27 SEQRES 1 A 27 G G C G U C G C A C C U U SEQRES 2 A 27 C G G G U G A A G U C G C SEQRES 3 A 27 C HET PAR A 28 87 HETNAM PAR PAROMOMYCIN HETSYN PAR PAROMOMYCIN I; AMMINOSIDIN; CATENULIN; CRESTOMYCIN; HETSYN 2 PAR MONOMYCIN A; NEOMYCIN E FORMUL 2 PAR C23 H45 N5 O14 SITE 1 AC1 13 G A 2 C A 3 G A 4 U A 5 SITE 2 AC1 13 C A 6 G A 7 G A 17 U A 18 SITE 3 AC1 13 G A 19 A A 20 A A 21 G A 22 SITE 4 AC1 13 U A 23 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 MODEL 1