HEADER DNA 03-MAR-10 2KV0 TITLE 2-AMINOPURINE INCORPORATION PERTURBS THE DYNAMICS AND STRUCTURE OF DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*GP*CP*TP*GP*CP*AP*(2PR)P*AP*CP*GP*TP*CP*G)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*CP*GP*AP*CP*GP*TP*TP*TP*GP*CP*AP*GP*C)-3'); COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES KEYWDS DNA, 2-AMINOPURINE, FLUOROPHORE, STRUCTURE PERTURBATION EXPDTA SOLUTION NMR NUMMDL 11 MDLTYP MINIMIZED AVERAGE AUTHOR A.DALLMANN,L.DEHMEL,T.PETERS,C.MUEGGE,C.P.GRIESINGER,J.TUMA, AUTHOR 2 N.P.ERNSTING REVDAT 2 01-MAY-24 2KV0 1 REMARK LINK REVDAT 1 19-JAN-11 2KV0 0 JRNL AUTH A.DALLMANN,L.DEHMEL,T.PETERS,C.MUGGE,C.GRIESINGER,J.TUMA, JRNL AUTH 2 N.P.ERNSTING JRNL TITL 2-AMINOPURINE INCORPORATION PERTURBS THE DYNAMICS AND JRNL TITL 2 STRUCTURE OF DNA. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 49 5989 2010 JRNL REFN ISSN 1433-7851 JRNL PMID 20632340 JRNL DOI 10.1002/ANIE.201001312 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH 2.17 REMARK 3 AUTHORS : SCHWIETERS, C. ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TORSION ANGLE DYNAMICS,50K AT 20,000K REMARK 3 WITH SUBSEQUENT GRADUAL COOLING TO 25K IN 154 STEPS OF 0.5 PS REMARK 3 LENGTH (34 STEPS TO COOL DOWN TO 3,000 K, FOLLOWED BY 120 STEPS REMARK 3 TO REACH THE END TEMPERATURE) AND A FINAL MINIMIZATION (3,000 REMARK 3 STEPS). REMARK 4 REMARK 4 2KV0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000101606. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 3 MM DNAMODSTRAND, 3 MM REMARK 210 DNASTRANDII, 10 MM SODIUM REMARK 210 PHOSPHATE, 150 MM SODIUM REMARK 210 CHLORIDE, 100% D2O; 3 MM REMARK 210 DNAMODSTRAND, 3 MM DNASTRANDII, REMARK 210 10 MM SODIUM PHOSPHATE, 150 MM REMARK 210 SODIUM CHLORIDE, 90% H2O/10% D2O; REMARK 210 3 MM DNAMODSTRAND, 3 MM REMARK 210 DNASTRANDII, 10 MM SODIUM REMARK 210 PHOSPHATE, 150 MM SODIUM REMARK 210 CHLORIDE, 20 MG/ML PF1 PHAGE, REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HMQC; 2D 1H-1H NOESY; REMARK 210 2D DQF-COSY; 2D 1H-1H TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AV REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH 2.17, CARA 1.8.4, REMARK 210 GIFA 4, TOPSPIN 2.0, 3DNA, PALES 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 H22 DG A 13 O2 DC B 14 1.59 REMARK 500 O2 DC A 9 H22 DG B 18 1.60 REMARK 500 H22 DG A 10 O2 DC B 17 1.60 REMARK 500 H22 DG A 1 O2 DC B 26 1.60 REMARK 500 O2 DC A 2 H22 DG B 25 1.60 REMARK 500 O2 DC A 5 H22 DG B 22 1.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KUZ RELATED DB: PDB REMARK 900 REFERENCE DUPLEX DBREF 2KV0 A 1 13 PDB 2KV0 2KV0 1 13 DBREF 2KV0 B 14 26 PDB 2KV0 2KV0 14 26 SEQRES 1 A 13 DG DC DT DG DC DA 2PR DA DC DG DT DC DG SEQRES 1 B 13 DC DG DA DC DG DT DT DT DG DC DA DG DC MODRES 2KV0 2PR A 7 DG HET 2PR A 7 32 HETNAM 2PR 2-AMINO-9-[2-DEOXYRIBOFURANOSYL]-9H-PURINE-5'- HETNAM 2 2PR MONOPHOSPHATE HETSYN 2PR 2-AMINOPURINE-2'-DEOXYRIBO-5'-MONOPHOSPHATE FORMUL 1 2PR C10 H14 N5 O6 P LINK O3' DA A 6 P 2PR A 7 1555 1555 1.61 LINK O3' 2PR A 7 P DA A 8 1555 1555 1.61 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