10 20 30 40 50 60 70 80 2ELG - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 27-MAR-07 2ELG
TITLE THE RARE CRYSTALLOGRAPHIC STRUCTURE OF D(CGCGCG)2: THE TITLE 2 NATURAL SPERMIDINE MOLECULE BOUND TO THE MINOR GROOVE OF TITLE 3 LEFT-HANDED Z-DNA D(CGCGCG)2 AT 10 DEGREE CELSIUS
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*DCP*DGP*DCP*DGP*DCP*DG)-3'); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN HUMANS.
KEYWDS D(CGCGCG)2, LEFT-HANDED Z-DNA, SPERMIDINE, X-RAY KEYWDS 2 CRYSTALLOGRAPHY, POLYAMINE
EXPDTA X-RAY DIFFRACTION
AUTHOR H.OHISHI,Y.TOZUKA,D.Y.ZHOU,T.ISHIDA,K.NAKATANI
REVDAT 2 24-FEB-09 2ELG 1 VERSN REVDAT 1 01-APR-08 2ELG 0
JRNL AUTH H.OHISHI,Y.TOZUKA,Z.DA-YANG,T.ISHIDA,K.NAKATANI JRNL TITL THE RARE CRYSTALLOGRAPHIC STRUCTURE OF JRNL TITL 2 D(CGCGCG)(2): THE NATURAL SPERMIDINE MOLECULE JRNL TITL 3 BOUND TO THE MINOR GROOVE OF LEFT-HANDED Z-DNA JRNL TITL 4 D(CGCGCG)(2) AT 10 DEGREES C JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 358 24 2007 JRNL REFN ISSN 0006-291X JRNL PMID 17467661 JRNL DOI 10.1016/J.BBRC.2007.04.026
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 1.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 11232 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.232 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 520 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 273 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 201 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 5.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2ELG COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-MAR-08. REMARK 100 THE RCSB ID CODE IS RCSB026810.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11287 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.000 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : 0.05700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.04700 REMARK 200 R SYM FOR SHELL (I) : 0.05700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 20.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MERLOT REMARK 200 STARTING MODEL: PDB ENTRY 1DJ6 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 26.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10MM SODIUM CACODILATE, 1M REMARK 280 MAGNESIUM CHLORIDE, 100MM SPERMIDINE TRICHLORIDE, 8%MPD, PH REMARK 280 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 283K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 8.92350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.01100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.49400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 22.01100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 8.92350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 15.49400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TETRAMERIC 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 8.92350 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 22.01100 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 2590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.2 KCAL/MOL 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 THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 MG MG A 94 O HOH A 100 3645 1.64 REMARK 500 REMARK 500 REMARK: NULL 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 C3' DC A 1 C2' 0.088 REMARK 500 DG A 2 C5 DG A 2 N7 0.057 REMARK 500 DC A 3 P DC A 3 OP2 0.127 REMARK 500 DC A 3 P DC A 3 O5' 0.073 REMARK 500 DC A 3 C4 DC A 3 C5 0.064 REMARK 500 DG A 2 O3' DC A 3 P 0.088 REMARK 500 DG A 4 P DG A 4 O5' 0.113 REMARK 500 DG A 4 N1 DG A 4 C2 0.056 REMARK 500 DG A 4 C2 DG A 4 N3 0.052 REMARK 500 DG A 4 N3 DG A 4 C4 0.048 REMARK 500 DG A 4 C5 DG A 4 C6 0.064 REMARK 500 DG A 4 C6 DG A 4 N1 0.054 REMARK 500 DG A 4 C5 DG A 4 N7 0.070 REMARK 500 DG A 4 N9 DG A 4 C4 0.051 REMARK 500 DC A 3 O3' DG A 4 P 0.075 REMARK 500 DC A 5 P DC A 5 O5' 0.105 REMARK 500 DC A 5 C4' DC A 5 C3' 0.067 REMARK 500 DC A 5 N1 DC A 5 C6 0.047 REMARK 500 DC A 5 C4 DC A 5 C5 0.072 REMARK 500 DG A 6 P DG A 6 O5' 0.067 REMARK 500 DG A 6 N3 DG A 6 C4 0.047 REMARK 500 DG A 6 C5 DG A 6 N7 0.068 REMARK 500 DG A 6 C8 DG A 6 N9 0.053 REMARK 500 DC A 5 O3' DG A 6 P 0.097 REMARK 500 DC B 7 C5' DC B 7 C4' 0.057 REMARK 500 DC B 7 N1 DC B 7 C6 0.047 REMARK 500 DC B 7 C2 DC B 7 N3 0.062 REMARK 500 DG B 8 C5 DG B 8 N7 0.041 REMARK 500 DG B 8 C8 DG B 8 N9 0.052 REMARK 500 DG B 8 N9 DG B 8 C4 0.051 REMARK 500 DC B 9 P DC B 9 O5' 0.073 REMARK 500 DC B 9 O4' DC B 9 C1' 0.084 REMARK 500 DG B 10 P DG B 10 O5' 0.112 REMARK 500 DG B 10 N1 DG B 10 C2 0.055 REMARK 500 DG B 10 C2 DG B 10 N3 0.048 REMARK 500 DG B 10 C5 DG B 10 N7 0.049 REMARK 500 DG B 10 N7 DG B 10 C8 0.042 REMARK 500 DG B 10 N9 DG B 10 C4 0.063 REMARK 500 DC B 11 P DC B 11 O5' 0.087 REMARK 500 DC B 11 C4' DC B 11 C3' 0.086 REMARK 500 DC B 11 C3' DC B 11 C2' 0.077 REMARK 500 DC B 11 C2' DC B 11 C1' 0.104 REMARK 500 DC B 11 N1 DC B 11 C6 0.053 REMARK 500 DG B 12 P DG B 12 O5' 0.093 REMARK 500 DG B 12 O4' DG B 12 C1' 0.083 REMARK 500 DG B 12 C2 DG B 12 N3 0.062 REMARK 500 DG B 12 C5 DG B 12 N7 0.059 REMARK 500 DG B 12 C8 DG B 12 N9 0.046 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 DG A 2 O5' - C5' - C4' ANGL. DEV. = -7.9 DEGREES REMARK 500 DG A 2 C1' - O4' - C4' ANGL. DEV. = -7.5 DEGREES REMARK 500 DG A 2 O4' - C1' - C2' ANGL. DEV. = 4.5 DEGREES REMARK 500 DC A 3 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DG A 4 O5' - C5' - C4' ANGL. DEV. = -5.8 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = -5.1 DEGREES REMARK 500 DG A 6 O5' - C5' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG A 6 C2 - N3 - C4 ANGL. DEV. = -3.3 DEGREES REMARK 500 DC A 5 C3' - O3' - P ANGL. DEV. = -8.4 DEGREES REMARK 500 DC B 7 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG B 8 O5' - C5' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG B 8 O4' - C4' - C3' ANGL. DEV. = 3.6 DEGREES REMARK 500 DG B 8 C1' - O4' - C4' ANGL. DEV. = -6.6 DEGREES REMARK 500 DG B 8 O4' - C1' - C2' ANGL. DEV. = 7.0 DEGREES REMARK 500 DC B 9 P - O5' - C5' ANGL. DEV. = -10.6 DEGREES REMARK 500 DG B 10 O5' - C5' - C4' ANGL. DEV. = -5.8 DEGREES REMARK 500 DG B 10 O4' - C1' - C2' ANGL. DEV. = 6.0 DEGREES REMARK 500 DG B 12 O5' - C5' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DG A 2 0.07 SIDE_CHAIN REMARK 500 DG A 4 0.06 SIDE_CHAIN REMARK 500 DG A 6 0.07 SIDE_CHAIN REMARK 500 DG B 8 0.08 SIDE_CHAIN REMARK 500 DC B 11 0.08 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPD A 120 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 92
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 292D RELATED DB: PDB REMARK 900 DEOXYRIBONUCLEIC ACID REMARK 900 RELATED ID: 293D RELATED DB: PDB REMARK 900 DEOXYRIBONUCLEIC ACID REMARK 900 RELATED ID: 336D RELATED DB: PDB REMARK 900 DEOXYRIBONUCLEIC ACID REMARK 900 RELATED ID: 1DJ6 RELATED DB: PDB REMARK 900 DEOXYRIBONUCLEIC ACID
DBREF 2ELG A 1 6 PDB 2ELG 2ELG 1 6 DBREF 2ELG B 7 12 PDB 2ELG 2ELG 7 12
SEQRES 1 A 6 DC DG DC DG DC DG SEQRES 1 B 6 DC DG DC DG DC DG
HET SPD A 120 32 HET MG A 92 1 HET MG A 93 1 HET MG A 94 1 HET NA A 116 1
HETNAM SPD SPERMIDINE HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION
HETSYN SPD N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34)
FORMUL 3 SPD C7 H19 N3 FORMUL 4 MG 3(MG 2+) FORMUL 7 NA NA 1+ FORMUL 8 HOH *67(H2 O)
SITE 1 AC1 7 DC A 1 DC A 5 DG A 6 DC B 7 SITE 2 AC1 7 DG B 8 DC B 9 DG B 12 SITE 1 AC2 1 DG A 6
CRYST1 17.847 30.988 44.022 90.00 90.00 90.00 P 21 21 21 8
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 0.056032 0.000000 0.000000 0.00000
SCALE2 0.000000 0.032271 0.000000 0.00000
SCALE3 0.000000 0.000000 0.022716 0.00000