HEADER DNA 28-MAR-02 1LAE TITLE SOLUTION STRUCTURE OF THE DNA 13-MER HAIRPIN CGCGGTXTCCGCG (X=PDG) TITLE 2 CONTAINING THE 1,N2-PROPANODEOXYGUANOSINE ADDUCT AT THE SEVENTH TITLE 3 POSITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*GP*CP*GP*GP*TP*(P)P*TP*CP*CP*GP*CP*G)-3'; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SYNTHETIC DNA SEQUENCE WAS DERIVED FROM THE SOURCE 4 HISD3052 GENE OF SALMONELLA TYPHIMURIUM. KEYWDS DNA, HAIRPIN, PROPANPODEOXYGUANOSINE EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR J.P.WEISENSEEL,G.R.REDDY,L.J.MARNETT,M.P.STONE REVDAT 4 22-MAY-24 1LAE 1 REMARK REVDAT 3 23-FEB-22 1LAE 1 REMARK SEQRES LINK REVDAT 2 24-FEB-09 1LAE 1 VERSN REVDAT 1 17-APR-02 1LAE 0 JRNL AUTH J.P.WEISENSEEL,G.R.REDDY,L.J.MARNETT,M.P.STONE JRNL TITL STRUCTURE OF THE 1,N(2)-PROPANODEOXYGUANOSINE ADDUCT IN A JRNL TITL 2 THREE-BASE DNA HAIRPIN LOOP DERIVED FROM A PALINDROME IN THE JRNL TITL 3 SALMONELLA TYPHIMURIUM HISD3052 GENE. JRNL REF CHEM.RES.TOXICOL. V. 15 140 2002 JRNL REFN ISSN 0893-228X JRNL PMID 11849039 JRNL DOI 10.1021/TX010107F REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : UXNMR 3.0, X-PLOR 3.8 REMARK 3 AUTHORS : BRUKER (UXNMR), BRUNGER, A. (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LAE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1000015792. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303; 278 REMARK 210 PH : 6.8; 6.8 REMARK 210 IONIC STRENGTH : 100 MM NACL; 100 MM NACL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1.8 MM DNA, 10 MM SODIUM REMARK 210 PHOSPHATE, 100 MM NACL, 50 UM REMARK 210 EDTA; 1.8 MM DNA, 1 MM SODIUM REMARK 210 PHOSPHATE, 100 MM NACL, 50 UM REMARK 210 EDTA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 31P-1H COSY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 97.0, 2000, MARDIGRAS 3.2 REMARK 210 METHOD USED : MOLECULAR DYNAMICS USING A REMARK 210 SIMULATED ANNEALING PROTOCOL. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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: 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 DC A 1 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG A 2 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 DC A 3 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DG A 4 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 4 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 DG A 5 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 DG A 5 C8 - N9 - C4 ANGL. DEV. = -3.2 DEGREES REMARK 500 DT A 6 O4' - C1' - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT A 6 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC A 9 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC A 10 O4' - C1' - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG A 11 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG A 11 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DC A 12 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG A 13 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG A 13 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 13 C8 - N9 - C4 ANGL. DEV. = -3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LA8 RELATED DB: PDB REMARK 900 1LA8 IS THE SOLUTION STRUCTURE OF THE DNA 13-MER HAIRPIN REMARK 900 CGCGGTGTCCGCG. REMARK 900 RELATED ID: 1LAI RELATED DB: PDB REMARK 900 1LAI IS THE SOLUTION STRUCTURE OF THE B-DNA DUPLEX CGCGGTGTCCGCG. REMARK 900 RELATED ID: 1LAQ RELATED DB: PDB REMARK 900 1LAQ IS THE SOLUTION STRUCTURE OF THE B-DNA DUPLEX CGCGGTXTCCGCG (X= REMARK 900 PDG) CONTAINING THE 1,N2-PROPANOGEOXYGUANOSINE ADDUCT WITH THE REMARK 900 DEOXYRIBOSE AT C20 OPPOSITE PDG IN THE C2' ENDO CONFORMATION. REMARK 900 RELATED ID: 1LAS RELATED DB: PDB REMARK 900 1LAS IS THE SOLUTION STRUCTURE OF THE B-DNA DUPLEX CGCGGTXTCCGCG (X= REMARK 900 PDG) CONTAINING THE 1,N2-PROPANOGEOXYGUANOSINE ADDUCT WITH THE REMARK 900 DEOXYRIBOSE AT C20 OPPOSITE PDG IN THE C3' ENDO CONFORMATION. DBREF 1LAE A 1 13 PDB 1LAE 1LAE 1 13 SEQRES 1 A 13 DC DG DC DG DG DT P DT DC DC DG DC DG MODRES 1LAE P A 7 DG HET P A 7 40 HETNAM P 2'-DEOXY-N1,N2-PROPANO GUANOSINE MONOPHOSPHATE FORMUL 1 P C13 H18 N5 O7 P LINK O3' DT A 6 P P A 7 1555 1555 1.61 LINK O3' P A 7 P DT 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