HEADER DNA 25-JUL-97 1BJH TITLE HAIRPIN LOOPS CONSISTING OF SINGLE ADENINE RESIDUES CLOSED TITLE 2 BY SHEARED A(DOT)A AND G(DOT)G PAIRS FORMED BY THE DNA TITLE 3 TRIPLETS AAA AND GAG: SOLUTION STRUCTURE OF THE TITLE 4 D(GTACAAAGTAC) HAIRPIN, NMR, 16 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*GP*TP*AP*CP*AP*AP*AP*GP*TP*AP*C)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS DNA LOOP, SHEARED A:A, AAA LOOP, SINGLE RESIDUE LOOP, KEYWDS 2 DEOXYRIBONUCLEIC ACID EXPDTA SOLUTION NMR NUMMDL 16 AUTHOR S.-H.CHOU,L.ZHU,Z.GAO,J.-W.CHENG,B.R.REID REVDAT 3 24-FEB-09 1BJH 1 VERSN REVDAT 2 01-APR-03 1BJH 1 JRNL REVDAT 1 03-DEC-97 1BJH 0 JRNL AUTH S.H.CHOU,L.ZHU,Z.GAO,J.W.CHENG,B.R.REID JRNL TITL HAIRPIN LOOPS CONSISTING OF SINGLE ADENINE JRNL TITL 2 RESIDUES CLOSED BY SHEARED A.A AND G.G PAIRS JRNL TITL 3 FORMED BY THE DNA TRIPLETS AAA AND GAG: SOLUTION JRNL TITL 4 STRUCTURE OF THE D(GTACAAAGTAC) HAIRPIN. JRNL REF J.MOL.BIOL. V. 264 981 1996 JRNL REFN ISSN 0022-2836 JRNL PMID 9000625 JRNL DOI 10.1006/JMBI.1996.0691 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER REMARK 3 AUTHORS : BIOSYM TECHNOLOGIES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BJH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : NULL REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 16 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: AMBER FORCE FIELD IS USED 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 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. = 3.1 DEGREES REMARK 500 1 DT A 2 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DC A 4 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 1 DA A 5 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 DA A 6 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 1 DA A 10 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DC A 11 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 2 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 2 DT A 2 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 2 DC A 4 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 2 DA A 5 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 2 DA A 6 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 2 DT A 9 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 2 DA A 10 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 2 DC A 11 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 3 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 3 DT A 2 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 3 DC A 4 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 3 DA A 5 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 3 DA A 6 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 3 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 3 DA A 10 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 3 DC A 11 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 4 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 4 DT A 2 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 4 DC A 4 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 4 DA A 5 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 4 DA A 6 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 4 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 4 DT A 9 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 4 DA A 10 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 4 DC A 11 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 5 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 5 DT A 2 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 5 DC A 4 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 5 DA A 5 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 5 DA A 6 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 5 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 5 DT A 9 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 5 DA A 10 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 5 DC A 11 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 6 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 6 DT A 2 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 6 DC A 4 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 6 DA A 5 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 6 DA A 6 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 6 DT A 9 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 6 DT A 9 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 136 ANGLE DEVIATIONS. 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 DT A 2 0.07 SIDE_CHAIN REMARK 500 1 DA A 3 0.05 SIDE_CHAIN REMARK 500 1 DA A 7 0.10 SIDE_CHAIN REMARK 500 2 DT A 2 0.07 SIDE_CHAIN REMARK 500 2 DA A 3 0.06 SIDE_CHAIN REMARK 500 2 DA A 7 0.10 SIDE_CHAIN REMARK 500 3 DT A 2 0.07 SIDE_CHAIN REMARK 500 3 DA A 3 0.05 SIDE_CHAIN REMARK 500 3 DA A 7 0.10 SIDE_CHAIN REMARK 500 4 DT A 2 0.07 SIDE_CHAIN REMARK 500 4 DA A 3 0.05 SIDE_CHAIN REMARK 500 4 DA A 7 0.10 SIDE_CHAIN REMARK 500 5 DT A 2 0.07 SIDE_CHAIN REMARK 500 5 DA A 3 0.05 SIDE_CHAIN REMARK 500 5 DA A 7 0.10 SIDE_CHAIN REMARK 500 6 DT A 2 0.07 SIDE_CHAIN REMARK 500 6 DA A 3 0.05 SIDE_CHAIN REMARK 500 6 DA A 7 0.10 SIDE_CHAIN REMARK 500 7 DT A 2 0.07 SIDE_CHAIN REMARK 500 7 DA A 3 0.06 SIDE_CHAIN REMARK 500 7 DA A 7 0.10 SIDE_CHAIN REMARK 500 8 DT A 2 0.07 SIDE_CHAIN REMARK 500 8 DA A 3 0.05 SIDE_CHAIN REMARK 500 8 DA A 7 0.10 SIDE_CHAIN REMARK 500 9 DT A 2 0.07 SIDE_CHAIN REMARK 500 9 DA A 3 0.05 SIDE_CHAIN REMARK 500 9 DA A 7 0.10 SIDE_CHAIN REMARK 500 10 DT A 2 0.06 SIDE_CHAIN REMARK 500 10 DA A 7 0.09 SIDE_CHAIN REMARK 500 10 DA A 10 0.07 SIDE_CHAIN REMARK 500 11 DT A 2 0.07 SIDE_CHAIN REMARK 500 11 DA A 3 0.05 SIDE_CHAIN REMARK 500 11 DA A 7 0.10 SIDE_CHAIN REMARK 500 12 DT A 2 0.07 SIDE_CHAIN REMARK 500 12 DA A 3 0.05 SIDE_CHAIN REMARK 500 12 DA A 7 0.09 SIDE_CHAIN REMARK 500 13 DT A 2 0.07 SIDE_CHAIN REMARK 500 13 DA A 3 0.05 SIDE_CHAIN REMARK 500 13 DA A 7 0.10 SIDE_CHAIN REMARK 500 14 DT A 2 0.07 SIDE_CHAIN REMARK 500 14 DA A 3 0.05 SIDE_CHAIN REMARK 500 14 DA A 7 0.10 SIDE_CHAIN REMARK 500 15 DT A 2 0.06 SIDE_CHAIN REMARK 500 15 DA A 3 0.05 SIDE_CHAIN REMARK 500 15 DA A 7 0.10 SIDE_CHAIN REMARK 500 16 DT A 2 0.07 SIDE_CHAIN REMARK 500 16 DA A 3 0.06 SIDE_CHAIN REMARK 500 16 DA A 7 0.10 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1BJH A 1 11 PDB 1BJH 1BJH 1 11 SEQRES 1 A 11 DG DT DA DC DA DA DA DG DT DA DC 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 177 0 0 0 0 0 0 6 0 0 0 1 END