HEADER DNA 03-APR-14 2MNF TITLE AIK-18/51 DNA RECOGNITION SEQUENCE D(CGACTAGTCG)2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*GP*AP*CP*TP*AP*GP*TP*CP*G)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS THIAZOTROPSINS, DNA RECOGNITION, ISOTHERMAL TITRATION CALORIMETRY KEYWDS 2 NMR, SELF-ASSEMBLY, MINOR GROOVE BINDER, DNA EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR H.Y.ALNISS,M.-V.SALVIA,M.SADIKOV,I.GOLOVCHENKO,N.G.ANTHONY, AUTHOR 2 A.I.KHALAF,S.P.MACKAY,C.J.SUCKLING,J.A.PARKINSON REVDAT 2 17-SEP-14 2MNF 1 JRNL REVDAT 1 30-JUL-14 2MNF 0 JRNL AUTH H.Y.ALNISS,M.V.SALVIA,M.SADIKOV,I.GOLOVCHENKO,N.G.ANTHONY, JRNL AUTH 2 A.I.KHALAF,S.P.MACKAY,C.J.SUCKLING,J.A.PARKINSON JRNL TITL RECOGNITION OF THE DNA MINOR GROOVE BY THIAZOTROPSIN JRNL TITL 2 ANALOGUES. JRNL REF CHEMBIOCHEM V. 15 1978 2014 JRNL REFN ISSN 1439-4227 JRNL PMID 25045155 JRNL DOI 10.1002/CBIC.201402202 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MNF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUL-14. REMARK 100 THE RCSB ID CODE IS RCSB103824. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 0.05 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM 5'-D(*CP*GP*AP*CP*TP*AP*GP* REMARK 210 TP*CP*G)-3', 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H COSY; REMARK 210 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, SPARKY, SYBYL, REMARK 210 MARDIGRAS, AMBER REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DC A 1 C2 DC A 1 N3 0.090 REMARK 500 DC A 1 N3 DC A 1 C4 -0.063 REMARK 500 DC A 1 C4 DC A 1 C5 0.055 REMARK 500 DG A 2 N3 DG A 2 C4 0.090 REMARK 500 DG A 2 C4 DG A 2 C5 -0.049 REMARK 500 DG A 2 C5 DG A 2 N7 0.049 REMARK 500 DG A 2 N7 DG A 2 C8 -0.044 REMARK 500 DG A 2 C8 DG A 2 N9 -0.071 REMARK 500 DG A 2 N9 DG A 2 C4 -0.064 REMARK 500 DA A 3 C5 DA A 3 N7 -0.050 REMARK 500 DA A 3 N7 DA A 3 C8 -0.046 REMARK 500 DA A 3 C8 DA A 3 N9 -0.066 REMARK 500 DC A 4 C2 DC A 4 N3 0.090 REMARK 500 DC A 4 N3 DC A 4 C4 -0.065 REMARK 500 DC A 4 C4 DC A 4 C5 0.055 REMARK 500 DA A 6 C5 DA A 6 N7 -0.050 REMARK 500 DA A 6 N7 DA A 6 C8 -0.043 REMARK 500 DA A 6 C8 DA A 6 N9 -0.065 REMARK 500 DG A 7 N3 DG A 7 C4 0.090 REMARK 500 DG A 7 C4 DG A 7 C5 -0.048 REMARK 500 DG A 7 C5 DG A 7 N7 0.048 REMARK 500 DG A 7 N7 DG A 7 C8 -0.044 REMARK 500 DG A 7 C8 DG A 7 N9 -0.071 REMARK 500 DG A 7 N9 DG A 7 C4 -0.063 REMARK 500 DC A 9 C2 DC A 9 N3 0.090 REMARK 500 DC A 9 N3 DC A 9 C4 -0.064 REMARK 500 DC A 9 C4 DC A 9 C5 0.054 REMARK 500 DG A 10 N3 DG A 10 C4 0.090 REMARK 500 DG A 10 C4 DG A 10 C5 -0.048 REMARK 500 DG A 10 C5 DG A 10 N7 0.048 REMARK 500 DG A 10 N7 DG A 10 C8 -0.043 REMARK 500 DG A 10 C8 DG A 10 N9 -0.069 REMARK 500 DG A 10 N9 DG A 10 C4 -0.064 REMARK 500 DC B 11 C2 DC B 11 N3 0.091 REMARK 500 DC B 11 N3 DC B 11 C4 -0.062 REMARK 500 DC B 11 C4 DC B 11 C5 0.054 REMARK 500 DG B 12 N3 DG B 12 C4 0.089 REMARK 500 DG B 12 C4 DG B 12 C5 -0.049 REMARK 500 DG B 12 C5 DG B 12 N7 0.048 REMARK 500 DG B 12 N7 DG B 12 C8 -0.043 REMARK 500 DG B 12 C8 DG B 12 N9 -0.071 REMARK 500 DG B 12 N9 DG B 12 C4 -0.065 REMARK 500 DA B 13 C5 DA B 13 N7 -0.050 REMARK 500 DA B 13 N7 DA B 13 C8 -0.044 REMARK 500 DA B 13 C8 DA B 13 N9 -0.062 REMARK 500 DC B 14 C2 DC B 14 N3 0.089 REMARK 500 DC B 14 N3 DC B 14 C4 -0.064 REMARK 500 DC B 14 C4 DC B 14 C5 0.053 REMARK 500 DA B 16 C5 DA B 16 N7 -0.050 REMARK 500 DA B 16 N7 DA B 16 C8 -0.043 REMARK 500 REMARK 500 THIS ENTRY HAS 66 BOND DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL 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' - C4' - C3' ANGL. DEV. = -3.8 DEGREES REMARK 500 DC A 1 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC A 1 N3 - C4 - C5 ANGL. DEV. = -5.3 DEGREES REMARK 500 DC A 1 C4 - C5 - C6 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC A 1 N1 - C2 - O2 ANGL. DEV. = 4.1 DEGREES REMARK 500 DC A 1 N3 - C2 - O2 ANGL. DEV. = -5.3 DEGREES REMARK 500 DC A 1 N3 - C4 - N4 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 2 OP1 - P - OP2 ANGL. DEV. = -9.7 DEGREES REMARK 500 DG A 2 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG A 2 C2 - N3 - C4 ANGL. DEV. = 8.9 DEGREES REMARK 500 DG A 2 N3 - C4 - C5 ANGL. DEV. = -9.4 DEGREES REMARK 500 DG A 2 C5 - C6 - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 DG A 2 C4 - C5 - N7 ANGL. DEV. = -9.5 DEGREES REMARK 500 DG A 2 C5 - N7 - C8 ANGL. DEV. = 4.9 DEGREES REMARK 500 DG A 2 N7 - C8 - N9 ANGL. DEV. = -3.1 DEGREES REMARK 500 DG A 2 N9 - C4 - C5 ANGL. DEV. = 6.1 DEGREES REMARK 500 DG A 2 C6 - C5 - N7 ANGL. DEV. = 8.0 DEGREES REMARK 500 DG A 2 N1 - C6 - O6 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG A 2 C5 - C6 - O6 ANGL. DEV. = -8.5 DEGREES REMARK 500 DA A 3 OP1 - P - OP2 ANGL. DEV. = -10.8 DEGREES REMARK 500 DA A 3 N1 - C2 - N3 ANGL. DEV. = -6.8 DEGREES REMARK 500 DA A 3 C2 - N3 - C4 ANGL. DEV. = 7.4 DEGREES REMARK 500 DA A 3 N3 - C4 - C5 ANGL. DEV. = -7.5 DEGREES REMARK 500 DA A 3 C4 - C5 - C6 ANGL. DEV. = 5.9 DEGREES REMARK 500 DA A 3 C4 - C5 - N7 ANGL. DEV. = -5.1 DEGREES REMARK 500 DA A 3 C5 - N7 - C8 ANGL. DEV. = 5.7 DEGREES REMARK 500 DA A 3 N3 - C4 - N9 ANGL. DEV. = 7.0 DEGREES REMARK 500 DA A 3 N1 - C6 - N6 ANGL. DEV. = 5.0 DEGREES REMARK 500 DC A 4 OP1 - P - OP2 ANGL. DEV. = -9.9 DEGREES REMARK 500 DC A 4 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 DC A 4 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 DC A 4 N3 - C4 - C5 ANGL. DEV. = -5.4 DEGREES REMARK 500 DC A 4 C4 - C5 - C6 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC A 4 N1 - C2 - O2 ANGL. DEV. = 4.6 DEGREES REMARK 500 DC A 4 N3 - C2 - O2 ANGL. DEV. = -5.9 DEGREES REMARK 500 DC A 4 N3 - C4 - N4 ANGL. DEV. = 4.5 DEGREES REMARK 500 DT A 5 OP1 - P - OP2 ANGL. DEV. = -10.2 DEGREES REMARK 500 DT A 5 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT A 5 N1 - C2 - N3 ANGL. DEV. = 4.3 DEGREES REMARK 500 DT A 5 C2 - N3 - C4 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT A 5 C5 - C4 - O4 ANGL. DEV. = -5.4 DEGREES REMARK 500 DA A 6 OP1 - P - OP2 ANGL. DEV. = -10.4 DEGREES REMARK 500 DA A 6 O4' - C1' - C2' ANGL. DEV. = -5.7 DEGREES REMARK 500 DA A 6 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DA A 6 C6 - N1 - C2 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA A 6 N1 - C2 - N3 ANGL. DEV. = -7.0 DEGREES REMARK 500 DA A 6 C2 - N3 - C4 ANGL. DEV. = 7.3 DEGREES REMARK 500 DA A 6 N3 - C4 - C5 ANGL. DEV. = -6.8 DEGREES REMARK 500 DA A 6 C4 - C5 - C6 ANGL. DEV. = 5.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 182 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19890 RELATED DB: BMRB REMARK 900 RELATED ID: 2MND RELATED DB: PDB REMARK 900 RELATED ID: 2MNE RELATED DB: PDB DBREF 2MNF A 1 10 PDB 2MNF 2MNF 1 10 DBREF 2MNF B 11 20 PDB 2MNF 2MNF 11 20 SEQRES 1 A 10 DC DG DA DC DT DA DG DT DC DG SEQRES 1 B 10 DC DG DA DC DT DA DG DT DC DG 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 MASTER 213 0 0 0 0 0 0 6 0 0 0 2 END