HEADER DNA 07-SEP-01 1IR5 TITLE SOLUTION STRUCTURE OF THE 17MER TF1 BINDING SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*AP*CP*TP*AP*CP*TP*CP*TP*TP*TP*GP*TP*AP*GP*TP*G)- COMPND 3 3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: TF1 BINDING SITE; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*CP*AP*CP*TP*AP*CP*AP*AP*AP*GP*AP*GP*TP*AP*GP*TP*G)- COMPND 9 3'; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN BACILLUS SUBTILIS SOURCE 4 PHAGE SPO1; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES KEYWDS 17MER DOUBLE HELIX DNA, DNA EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.LIU,H.M.VU,D.R.KEARNS REVDAT 4 27-DEC-23 1IR5 1 REMARK REVDAT 3 23-FEB-22 1IR5 1 REMARK REVDAT 2 24-FEB-09 1IR5 1 VERSN REVDAT 1 23-SEP-03 1IR5 0 JRNL AUTH W.LIU,H.M.VU,D.R.KEARNS JRNL TITL 1H NMR STUDIES OF A 17-MER DNA DUPLEX JRNL REF ACTA BIOCHIM.BIOPHYS.SINICA V.1574 93 2002 JRNL REFN ISSN 0582-9879 JRNL PMID 11955617 JRNL DOI 10.1016/S0167-4781(01)00350-5 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 3.1 REMARK 3 AUTHORS : MOLECULAR SIMULATIONS INC. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IR5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-SEP-01. REMARK 100 THE DEPOSITION ID IS D_1000005204. 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 : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM DNA, 100MM PHOSPHATE BUFFER, REMARK 210 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY; 2D TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED REMARK 210 USING STANDARD 2D HOMONUCLEAR REMARK 210 TECHNIQUES 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 H41 DC A 8 N6 DA B 9 1.37 REMARK 500 N7 DG A 15 H72 DT A 16 1.40 REMARK 500 N3 DC A 1 H21 DG B 17 1.41 REMARK 500 O6 DG A 15 H61 DA B 2 1.47 REMARK 500 O4 DT A 9 H61 DA B 8 1.47 REMARK 500 C8 DG A 15 H72 DT A 16 1.55 REMARK 500 C6 DT A 10 H73 DT A 11 1.56 REMARK 500 O6 DG A 15 N6 DA B 2 2.01 REMARK 500 N6 DA A 2 O6 DG B 15 2.02 REMARK 500 N4 DC A 8 N6 DA B 9 2.05 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 1 DC A 1 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 1 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DA A 2 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 1 DA A 2 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA A 2 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 1 DT A 4 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 1 DA A 5 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DA A 5 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA A 5 N1 - C6 - N6 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DT A 7 C6 - C5 - C7 ANGL. DEV. = -4.6 DEGREES REMARK 500 1 DT A 9 C6 - C5 - C7 ANGL. DEV. = -4.3 DEGREES REMARK 500 1 DT A 10 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 1 DT A 10 C6 - C5 - C7 ANGL. DEV. = -4.3 DEGREES REMARK 500 1 DT A 11 C6 - C5 - C7 ANGL. DEV. = -4.4 DEGREES REMARK 500 1 DG A 12 N1 - C6 - O6 ANGL. DEV. = -3.6 DEGREES REMARK 500 1 DT A 13 C6 - C5 - C7 ANGL. DEV. = -4.5 DEGREES REMARK 500 1 DA A 14 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 1 DA A 14 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 1 DA A 14 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DA A 14 N1 - C6 - N6 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DG A 15 N1 - C6 - O6 ANGL. DEV. = -3.7 DEGREES REMARK 500 1 DT A 16 C6 - C5 - C7 ANGL. DEV. = -4.5 DEGREES REMARK 500 1 DG A 17 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 1 DG A 17 N1 - C6 - O6 ANGL. DEV. = -3.8 DEGREES REMARK 500 1 DA B 2 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DA B 2 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA B 2 N1 - C6 - N6 ANGL. DEV. = -5.1 DEGREES REMARK 500 1 DT B 4 C6 - C5 - C7 ANGL. DEV. = -4.5 DEGREES REMARK 500 1 DA B 5 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 1 DA B 5 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DA B 5 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA B 5 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 1 DA B 7 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DA B 7 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA B 7 N1 - C6 - N6 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DA B 8 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 1 DA B 8 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA B 8 N1 - C6 - N6 ANGL. DEV. = -5.3 DEGREES REMARK 500 1 DA B 9 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DA B 9 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA B 9 N1 - C6 - N6 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DG B 10 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DG B 10 N1 - C6 - O6 ANGL. DEV. = -3.7 DEGREES REMARK 500 1 DA B 11 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 1 DA B 11 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DA B 11 N1 - C6 - N6 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DG B 12 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 1 DG B 12 N1 - C6 - O6 ANGL. DEV. = -3.6 DEGREES REMARK 500 1 DT B 13 C6 - C5 - C7 ANGL. DEV. = -4.4 DEGREES REMARK 500 1 DA B 14 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 1170 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1IR5 A 1 17 PDB 1IR5 1IR5 1 17 DBREF 1IR5 B 1 17 PDB 1IR5 1IR5 1 17 SEQRES 1 A 17 DC DA DC DT DA DC DT DC DT DT DT DG DT SEQRES 2 A 17 DA DG DT DG SEQRES 1 B 17 DC DA DC DT DA DC DA DA DA DG DA DG DT SEQRES 2 B 17 DA DG DT DG CRYST1 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