HEADER RNA 23-JUN-10 2RRC TITLE SOLUTION STRUCTURE OF RNA APTAMER AGAINST AML1 RUNT DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(P*GP*GP*AP*CP*CP*CP*(AP7) COMPND 3 P*CP*CP*AP*CP*GP*GP*CP*GP*AP*GP*GP*UP*CP*CP*A)-3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: AMPLISCRIBE T7 TRANSCRIPTION KIT KEYWDS RNA APTAMER, AML1/RUNX1, MOLECULAR MIMICRY, RNA EXPDTA SOLUTION NMR NUMMDL 11 AUTHOR Y.NOMURA,K.FUJIWARA,M.CHIBA,J.FUKUNAGA,Y.TANAKA,H.IIBUCHI,T.TANAKA, AUTHOR 2 Y.NAKAMURA,G.KAWAI,T.KOZU,T.SAKAMOTO REVDAT 2 26-FEB-20 2RRC 1 LINK REVDAT 1 29-JUN-11 2RRC 0 JRNL AUTH Y.NOMURA,J.FUKUNAGA,Y.TANAKA,K.FUJIWARA,M.CHIBA,H.IIBUCHI, JRNL AUTH 2 T.TANAKA,Y.NAKAMURA,G.KAWAI,T.SAKAMOTO,T.KOZU JRNL TITL A NOVEL HIGH AFFINITY RNA MOTIF THAT MIMICS DNA IN AML1 RUNT JRNL TITL 2 DOMAIN BINDING JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1, CNS 1.1 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RRC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000150193. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6 MM AML22-1, 0.5 MM [U-100% REMARK 210 13C; U-100% 15N] AML22-2, 100% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 11 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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 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 1 G A 17 0.08 SIDE CHAIN REMARK 500 2 G A 17 0.06 SIDE CHAIN REMARK 500 3 C A 6 0.06 SIDE CHAIN REMARK 500 3 G A 17 0.08 SIDE CHAIN REMARK 500 4 G A 17 0.07 SIDE CHAIN REMARK 500 5 C A 6 0.07 SIDE CHAIN REMARK 500 5 G A 17 0.08 SIDE CHAIN REMARK 500 7 G A 17 0.06 SIDE CHAIN REMARK 500 8 C A 6 0.07 SIDE CHAIN REMARK 500 8 G A 17 0.07 SIDE CHAIN REMARK 500 9 G A 17 0.06 SIDE CHAIN REMARK 500 10 C A 9 0.06 SIDE CHAIN REMARK 500 10 G A 17 0.08 SIDE CHAIN REMARK 500 11 G A 17 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 11176 RELATED DB: BMRB DBREF 2RRC A 1 22 PDB 2RRC 2RRC 1 22 SEQRES 1 A 22 G G A C C C AP7 C C A C G G SEQRES 2 A 22 C G A G G U C C A MODRES 2RRC AP7 A 7 A HET AP7 A 7 34 HETNAM AP7 N1-PROTONATED ADENOSINE-5'-MONOPHOSPHATE FORMUL 1 AP7 C10 H15 N5 O7 P 1+ LINK O3' C A 6 P AP7 A 7 1555 1555 1.64 LINK O3' AP7 A 7 P C A 8 1555 1555 1.64 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