10 20 30 40 50 60 70 80 1LWA - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 30-MAY-02 1LWA
TITLE SOLUTION STRUCTURE OF SRY_DNA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'- COMPND 3 D(*GP*GP*GP*GP*TP*GP*AP*TP*TP*GP*TP*TP*CP*AP*G)-3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: SRY_DNA G-RICH STRAND; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'- COMPND 9 D(*CP*TP*GP*AP*AP*CP*AP*AP*TP*CP*AP*CP*CP*CP*C)-3'; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: SRY_DNA C-RICH STRAND
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: DERIVED FROM THE SEQUENCE RECOGNIZED BY THE SOURCE 4 SEQUENCE-SPECIFIC HMGB PROTEIN SRY.; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: DERIVED FROM THE SEQUENCE RECOGNIZED BY THE SOURCE 8 SEQUENCE-SPECIFIC HMGB PROTEIN SRY.
KEYWDS DOUBLE-STRANDED DNA
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR J.E.MASSE,B.WONG,Y.-M.YEN,F.H.-T.ALLAIN,R.C.JOHNSON,J.FEIGON
REVDAT 2 24-FEB-09 1LWA 1 VERSN REVDAT 1 16-OCT-02 1LWA 0
JRNL AUTH J.E.MASSE,B.WONG,Y.-M.YEN,F.H.-T.ALLAIN, JRNL AUTH 2 R.C.JOHNSON,J.FEIGON JRNL TITL THE S. CEREVISIAE ARCHITECTURAL HMGB PROTEIN NHP6A JRNL TITL 2 COMPLEXED WITH DNA: DNA AND PROTEIN CONFORMATIONAL JRNL TITL 3 CHANGES UPON BINDING JRNL REF J.MOL.BIOL. V. 323 263 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12381320 JRNL DOI 10.1016/S0022-2836(02)00938-5
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES CALCULATED WITH A TOTAL REMARK 3 OF 780 EXPERIMENTAL RESTRAINTS. 76 HYDROGEN BOND RESTRAINTS REMARK 3 FOR WATSON-CRICK BASE PAIRING WERE ALSO INCLUDED.
REMARK 4 REMARK 4 1LWA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JUN-02. REMARK 100 THE RCSB ID CODE IS RCSB016340.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : LOW NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2.2 MM DNA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 6 2D NOESYS (TMIX=25,50,75, REMARK 210 100,200,300 MS), 11 ECHO NOESY 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 : XWINNMR 2.6, FELIX 2000, X- REMARK 210 PLOR 3.1, XWINNMR 3.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 RELAXATION MATRIX REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 15 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 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 1 DG A 1 C5' DG A 1 C4' 0.045 REMARK 500 1 DT A 8 C6 DT A 8 N1 -0.044 REMARK 500 1 DT A 9 C5 DT A 9 C7 0.039 REMARK 500 1 DT B 17 C5 DT B 17 C7 0.042 REMARK 500 2 DG A 1 C5' DG A 1 C4' 0.047 REMARK 500 2 DT A 9 C5 DT A 9 C7 0.036 REMARK 500 2 DT B 17 C5 DT B 17 C7 0.040 REMARK 500 3 DG A 1 C5' DG A 1 C4' 0.047 REMARK 500 3 DT B 17 C5 DT B 17 C7 0.038 REMARK 500 4 DG A 1 C5' DG A 1 C4' 0.045 REMARK 500 4 DT A 9 C5 DT A 9 C7 0.038 REMARK 500 4 DT B 17 C5 DT B 17 C7 0.039 REMARK 500 5 DG A 1 C5' DG A 1 C4' 0.044 REMARK 500 5 DT B 17 C5 DT B 17 C7 0.038 REMARK 500 6 DG A 1 C5' DG A 1 C4' 0.043 REMARK 500 6 DT A 9 C5 DT A 9 C7 0.037 REMARK 500 6 DT B 17 C5 DT B 17 C7 0.040 REMARK 500 7 DG A 1 C5' DG A 1 C4' 0.046 REMARK 500 8 DG A 1 C5' DG A 1 C4' 0.052 REMARK 500 8 DT A 9 C5 DT A 9 C7 0.039 REMARK 500 8 DT B 17 C5 DT B 17 C7 0.038 REMARK 500 9 DG A 1 C5' DG A 1 C4' 0.043 REMARK 500 9 DT B 17 C5 DT B 17 C7 0.037 REMARK 500 10 DG A 1 C5' DG A 1 C4' 0.043 REMARK 500 10 DT B 17 C5 DT B 17 C7 0.039 REMARK 500 11 DG A 1 C5' DG A 1 C4' 0.044 REMARK 500 11 DT B 17 C5 DT B 17 C7 0.039 REMARK 500 12 DG A 1 C5' DG A 1 C4' 0.044 REMARK 500 12 DT B 17 C5 DT B 17 C7 0.039 REMARK 500 13 DG A 1 C5' DG A 1 C4' 0.044 REMARK 500 13 DT B 17 C5 DT B 17 C7 0.040 REMARK 500 14 DG A 1 C5' DG A 1 C4' 0.042 REMARK 500 14 DT B 17 C5 DT B 17 C7 0.043 REMARK 500 15 DG A 1 C5' DG A 1 C4' 0.046 REMARK 500 15 DT A 9 C5 DT A 9 C7 0.037 REMARK 500 15 DT B 17 C5 DT B 17 C7 0.040 REMARK 500 16 DG A 1 C5' DG A 1 C4' 0.042 REMARK 500 16 DT B 17 C5 DT B 17 C7 0.039 REMARK 500 17 DG A 1 C5' DG A 1 C4' 0.044 REMARK 500 17 DT B 17 C5 DT B 17 C7 0.038 REMARK 500 18 DG A 1 C5' DG A 1 C4' 0.047 REMARK 500 18 DT B 17 C5 DT B 17 C7 0.037 REMARK 500 19 DT B 17 C5 DT B 17 C7 0.038 REMARK 500 20 DG A 1 C5' DG A 1 C4' 0.045 REMARK 500 20 DT B 17 C5 DT B 17 C7 0.037 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 DG A 3 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 1 DG A 4 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 1 DT A 5 C6 - C5 - C7 ANGL. DEV. = -4.5 DEGREES REMARK 500 1 DG A 6 O4' - C1' - C2' ANGL. DEV. = -4.9 DEGREES REMARK 500 1 DG A 6 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DA A 7 O4' - C4' - C3' ANGL. DEV. = 4.0 DEGREES REMARK 500 1 DT A 8 O4' - C1' - N1 ANGL. DEV. = 6.0 DEGREES REMARK 500 1 DT A 8 C4 - C5 - C6 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DT A 8 C4 - C5 - C7 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DT A 8 C6 - C5 - C7 ANGL. DEV. = -8.2 DEGREES REMARK 500 1 DT A 9 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DT A 11 O4' - C4' - C3' ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DG B 18 O4' - C1' - C2' ANGL. DEV. = -5.4 DEGREES REMARK 500 1 DG B 18 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 DC B 21 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 DA B 23 O4' - C4' - C3' ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DT B 24 O4' - C1' - N1 ANGL. DEV. = 6.2 DEGREES REMARK 500 1 DT B 24 C4 - C5 - C6 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 DT B 24 C4 - C5 - C7 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 DT B 24 C6 - C5 - C7 ANGL. DEV. = -8.2 DEGREES REMARK 500 1 DC B 28 O4' - C1' - C2' ANGL. DEV. = -5.7 DEGREES REMARK 500 2 DG A 3 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 2 DG A 4 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 2 DT A 5 C6 - C5 - C7 ANGL. DEV. = -4.8 DEGREES REMARK 500 2 DG A 6 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 2 DA A 7 O4' - C4' - C3' ANGL. DEV. = 4.0 DEGREES REMARK 500 2 DT A 8 O4' - C1' - N1 ANGL. DEV. = 5.7 DEGREES REMARK 500 2 DT A 8 C4 - C5 - C7 ANGL. DEV. = 4.8 DEGREES REMARK 500 2 DT A 8 C6 - C5 - C7 ANGL. DEV. = -8.3 DEGREES REMARK 500 2 DT A 9 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 2 DT A 11 O4' - C4' - C3' ANGL. DEV. = 3.7 DEGREES REMARK 500 2 DG B 18 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 2 DG B 18 O4' - C1' - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 2 DA B 19 O4' - C4' - C3' ANGL. DEV. = 3.7 DEGREES REMARK 500 2 DA B 19 O4' - C1' - N9 ANGL. DEV. = -4.5 DEGREES REMARK 500 2 DC B 21 O4' - C1' - C2' ANGL. DEV. = -6.0 DEGREES REMARK 500 2 DC B 21 O4' - C1' - N1 ANGL. DEV. = 6.4 DEGREES REMARK 500 2 DA B 23 O4' - C4' - C3' ANGL. DEV. = 4.6 DEGREES REMARK 500 2 DT B 24 O4' - C1' - N1 ANGL. DEV. = 6.0 DEGREES REMARK 500 2 DT B 24 C4 - C5 - C6 ANGL. DEV. = 4.3 DEGREES REMARK 500 2 DT B 24 C4 - C5 - C7 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 DT B 24 C6 - C5 - C7 ANGL. DEV. = -8.3 DEGREES REMARK 500 2 DC B 28 O4' - C1' - C2' ANGL. DEV. = -5.5 DEGREES REMARK 500 2 DC B 29 O4' - C1' - N1 ANGL. DEV. = -4.4 DEGREES REMARK 500 3 DG A 3 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 3 DG A 4 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 3 DT A 5 C6 - C5 - C7 ANGL. DEV. = -4.5 DEGREES REMARK 500 3 DA A 7 O4' - C4' - C3' ANGL. DEV. = 3.7 DEGREES REMARK 500 3 DT A 8 O4' - C4' - C3' ANGL. DEV. = 3.6 DEGREES REMARK 500 3 DT A 8 O4' - C1' - N1 ANGL. DEV. = 5.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 405 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CG7 RELATED DB: PDB REMARK 900 FREE NHP6A PROTEIN STRUCTURE REMARK 900 RELATED ID: 1J5N RELATED DB: PDB REMARK 900 NHP6A/SRY_DNA COMPLEX REMARK 900 RELATED ID: 1LWM RELATED DB: PDB REMARK 900 FREE NHP6A PROTEIN STRUCTURE
DBREF 1LWA A 1 15 PDB 1LWA 1LWA 1 15 DBREF 1LWA B 16 30 PDB 1LWA 1LWA 16 30
SEQRES 1 A 15 DG DG DG DG DT DG DA DT DT DG DT DT DC SEQRES 2 A 15 DA DG SEQRES 1 B 15 DC DT DG DA DA DC DA DA DT DC DA DC DC SEQRES 2 B 15 DC 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