HEADER DNA-RNA HYBRID 10-FEB-00 1EFS TITLE CONFORMATION OF A DNA-RNA HYBRID COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*GP*AP*GP*AP*GP*GP*AP*AP*GP*AP*GP*AP*A)-3'); COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: RNA (5'- COMPND 8 R(*UP*UP*CP*UP*CP*UP*UP*CP*CP*UP*CP*UP*C)-3'); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES KEYWDS RNA-DNA HYBRID DUPLEX, DNA/RNA COMPLEX, DNA-RNA HYBRID EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR V.LARUE,E.HANTZ REVDAT 4 24-FEB-09 1EFS 1 VERSN REVDAT 3 01-APR-03 1EFS 1 JRNL REVDAT 2 27-APR-01 1EFS 3 ATOM JRNL REMARK REVDAT 1 06-MAR-00 1EFS 0 JRNL AUTH E.HANTZ,V.LARUE,P.LADAM,L.LE MOYEC,C.GOUYETTE, JRNL AUTH 2 T.HUYNH DINH JRNL TITL SOLUTION CONFORMATION OF AN RNA--DNA HYBRID DUPLEX JRNL TITL 2 CONTAINING A PYRIMIDINE RNA STRAND AND A PURINE JRNL TITL 3 DNA STRAND. JRNL REF INT.J.BIOL.MACROMOL. V. 28 273 2001 JRNL REFN ISSN 0141-8130 JRNL PMID 11311717 JRNL DOI 10.1016/S0141-8130(01)00123-4 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : IRMA 95 REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1EFS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-00. REMARK 100 THE RCSB ID CODE IS RCSB010533. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 291 REMARK 210 PH : 7.0; 7.0 REMARK 210 IONIC STRENGTH : 80 MM NACL; 80 MM NACL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2MM EACH STRAND; 150MM REMARK 210 NACL, 0.1 MM EDTA, PH 7, 90% REMARK 210 H2O,10% D2O; 1.2MM EACH REMARK 210 STRAND; 150MM NACL, 0.1 MM REMARK 210 EDTA, PH 7, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, REVERSE REMARK 210 1H-31P COSY, 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1B, FELIX 95, JUMNA 10 REMARK 210 METHOD USED : MOLECULAR MECHANICS DISTANCE REMARK 210 GEOMETRY MATRIX RELAXATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE REMARK 210 WITH EXPERIMENTAL NOESY REMARK 210 SPECTRUM, STRUCTURES WITH THE REMARK 210 LEAST RESTRAINT VIOLATIONS, REMARK 210 STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 3 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS(RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-10 REMARK 470 RES CSSEQI ATOMS REMARK 470 DG A 1 O5' REMARK 470 U B 26 O5' 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 1 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 1 DA A 2 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DG A 3 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DA A 4 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 DG A 5 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DG A 6 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 DA A 7 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 1 DA A 8 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 DG A 9 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 1 DA A 10 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 DG A 11 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 1 DA A 12 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DA A 13 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 2 DG A 1 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 2 DA A 2 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 2 DG A 3 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 2 DA A 4 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 2 DG A 5 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 DG A 6 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 2 DA A 7 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 2 DA A 8 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 2 DG A 9 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 2 DA A 10 O4' - C1' - C2' ANGL. DEV. = -4.9 DEGREES REMARK 500 2 DA A 10 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 2 DG A 11 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 2 DA A 12 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 2 DA A 13 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 3 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 3 DA A 2 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 3 DG A 3 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 DA A 4 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 3 DG A 5 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 DG A 6 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 3 DA A 7 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 3 DA A 8 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 DG A 9 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 3 DA A 10 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 3 DG A 11 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 3 DA A 12 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 3 DA A 13 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 4 DG A 1 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 4 DA A 2 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 4 DG A 3 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 4 DA A 4 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 4 DG A 5 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 4 DG A 6 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 4 DA A 7 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 4 DA A 8 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 4 DG A 9 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 4 DA A 10 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 131 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1EFS A 1 13 PDB 1EFS 1EFS 1 13 DBREF 1EFS B 26 14 PDB 1EFS 1EFS 26 14 SEQRES 1 A 13 DG DA DG DA DG DG DA DA DG DA DG DA DA SEQRES 1 B 13 U U C U C U U C C U C U 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 MODEL 1