HEADER DNA 14-MAR-00 1EM0 TITLE COMPLEX OF D(CCTAGG) WITH TETRA-[N-METHYL-PYRIDYL] PORPHYRIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*(CBR)P*CP*TP*AP*GP*G)-3'); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS PORPHYRIN, RUFFLING, DNA DISTORTION, GROOVE BINDING, DNA EXPDTA X-RAY DIFFRACTION AUTHOR S.NEIDLE,M.SANDERSON,M.BENNETT,A.KRAH,F.WIEN,E.GARMAN,R.MCKENNA REVDAT 3 07-FEB-24 1EM0 1 REMARK LINK REVDAT 2 24-FEB-09 1EM0 1 VERSN REVDAT 1 21-AUG-00 1EM0 0 JRNL AUTH M.BENNETT,A.KRAH,F.WIEN,E.GARMAN,R.MCKENNA,M.SANDERSON, JRNL AUTH 2 S.NEIDLE JRNL TITL A DNA-PORPHYRIN MINOR-GROOVE COMPLEX AT ATOMIC RESOLUTION: JRNL TITL 2 THE STRUCTURAL CONSEQUENCES OF PORPHYRIN RUFFLING. JRNL REF PROC.NATL.ACAD.SCI.USA V. 97 9476 2000 JRNL REFN ISSN 0027-8424 JRNL PMID 10920199 JRNL DOI 10.1073/PNAS.160271897 REMARK 2 REMARK 2 RESOLUTION. 0.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 4.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.151 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.152 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.172 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 2323 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 42874 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.142 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.142 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.161 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 1990 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 37075 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 484 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 214 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 3867 REMARK 3 NUMBER OF RESTRAINTS : 0 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 ANGLE DISTANCES (A) : NULL REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : NO RESTRAINTS USED, THEREFORE THE REMARK 3 RMSD DEVIATIONS ABOVE DO NOT HAVE REMARK 3 ANY MEANING REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: FULL-MATRIX LEAST-SQUARES REMARK 4 REMARK 4 1EM0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAR-00. REMARK 100 THE DEPOSITION ID IS D_1000010713. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL; NULL REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BM14; X11 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9189; 0.9057 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE; IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45197 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.860 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 8.000 REMARK 200 R MERGE (I) : 0.02100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 70.3 REMARK 200 DATA REDUNDANCY IN SHELL : 8.00 REMARK 200 R MERGE FOR SHELL (I) : 0.12400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: CCP4 (MAD PROGS) REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.25UM DNA, 1.25UM NI-PORPHYRIN, 50UM REMARK 280 MGCL2, 5% MPD, 30MM SODIUM CACODYLATE, AGAINST 500UM RESERVOIR REMARK 280 OF 55% MPD, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 31.07907 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 15.53953 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 46.61860 REMARK 290 REMARK 290 REMARK: NULL 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 IN SAME ASYMMETRIC UNIT 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 O HOH B 650 O HOH D 551 1.49 REMARK 500 O HOH B 556 O HOH B 606 1.85 REMARK 500 O HOH B 650 O HOH D 514 1.99 REMARK 500 O HOH D 584 O HOH D 685 2.03 REMARK 500 OP2 DG D 23 O HOH D 693 2.08 REMARK 500 O HOH B 556 O HOH B 695 2.14 REMARK 500 O HOH A 690 O HOH A 696 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH B 679 O HOH B 682 3655 2.09 REMARK 500 O HOH A 662 O HOH B 609 3655 2.16 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 CBR A 1 O3' DC A 2 P -0.098 REMARK 500 DC A 2 C5' DC A 2 C4' -0.068 REMARK 500 DC A 2 N3 DC A 2 C4 -0.052 REMARK 500 DT A 3 C5' DT A 3 C4' -0.079 REMARK 500 DT A 3 C5 DT A 3 C7 0.039 REMARK 500 DA A 4 C2' DA A 4 C1' 0.061 REMARK 500 DA A 4 C5 DA A 4 N7 -0.052 REMARK 500 DA A 4 N9 DA A 4 C4 -0.040 REMARK 500 DG A 5 N1 DG A 5 C2 0.091 REMARK 500 DG A 5 N3 DG A 5 C4 -0.103 REMARK 500 DG A 5 C4 DG A 5 C5 0.050 REMARK 500 DG A 5 N7 DG A 5 C8 -0.037 REMARK 500 DG A 5 N9 DG A 5 C4 0.085 REMARK 500 DG A 6 C4' DG A 6 C3' -0.347 REMARK 500 DG A 6 C3' DG A 6 C2' 0.124 REMARK 500 DG A 6 O4' DG A 6 C1' 0.084 REMARK 500 DG A 6 O4' DG A 6 C4' 0.095 REMARK 500 DG A 6 O3' DG A 6 C3' 0.147 REMARK 500 DG A 6 C2 DG A 6 N3 0.071 REMARK 500 DG A 6 N3 DG A 6 C4 -0.067 REMARK 500 DG A 6 C6 DG A 6 N1 -0.048 REMARK 500 DG A 6 N9 DG A 6 C4 0.066 REMARK 500 DG A 6 C2 DG A 6 N2 -0.070 REMARK 500 CBR B 7 O3' DC B 8 P -0.117 REMARK 500 CBR B 7 O3' DC B 8 P 0.081 REMARK 500 DC B 8 P DC B 8 OP1 -0.169 REMARK 500 DC B 8 P DC B 8 OP2 0.140 REMARK 500 DC B 8 P DC B 8 O5' -0.115 REMARK 500 DC B 8 O5' DC B 8 C5' -0.175 REMARK 500 DC B 8 C5' DC B 8 C4' -0.382 REMARK 500 DC B 8 C5' DC B 8 C4' 0.223 REMARK 500 DC B 8 O3' DC B 8 C3' -0.090 REMARK 500 DC B 8 C2 DC B 8 O2 -0.069 REMARK 500 DC B 8 N3 DC B 8 C4 0.042 REMARK 500 DT B 9 P DT B 9 OP2 -0.104 REMARK 500 DT B 9 C5' DT B 9 C4' 0.043 REMARK 500 DT B 9 C3' DT B 9 C2' -0.099 REMARK 500 DT B 9 C6 DT B 9 N1 -0.043 REMARK 500 DT B 9 C2 DT B 9 O2 -0.053 REMARK 500 DA B 10 C5' DA B 10 C4' -0.069 REMARK 500 DA B 10 C4 DA B 10 C5 -0.060 REMARK 500 DA B 10 N7 DA B 10 C8 -0.047 REMARK 500 DG B 11 N3 DG B 11 C4 0.077 REMARK 500 DG B 11 N7 DG B 11 C8 -0.050 REMARK 500 DG B 12 N1 DG B 12 C2 0.073 REMARK 500 DG B 12 C6 DG B 12 N1 -0.052 REMARK 500 DG B 12 C5 DG B 12 N7 0.041 REMARK 500 CBR C 13 O3' DC C 14 P -0.119 REMARK 500 DC C 14 P DC C 14 OP2 0.134 REMARK 500 DC C 14 C5' DC C 14 C4' -0.078 REMARK 500 REMARK 500 THIS ENTRY HAS 88 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 CBR A 1 C3' - O3' - P ANGL. DEV. = 10.1 DEGREES REMARK 500 DG A 5 C6 - N1 - C2 ANGL. DEV. = -5.1 DEGREES REMARK 500 DG A 5 N3 - C4 - C5 ANGL. DEV. = 5.0 DEGREES REMARK 500 DG A 5 C4 - C5 - C6 ANGL. DEV. = -5.0 DEGREES REMARK 500 DG A 5 C5 - C6 - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 DG A 5 N9 - C4 - C5 ANGL. DEV. = -4.6 DEGREES REMARK 500 DG A 5 C5 - C6 - O6 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG A 6 C1' - O4' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 DG A 6 C4' - C3' - O3' ANGL. DEV. = 12.0 DEGREES REMARK 500 DG A 6 C2' - C3' - O3' ANGL. DEV. = -17.2 DEGREES REMARK 500 DG A 6 C4' - C3' - C2' ANGL. DEV. = 16.4 DEGREES REMARK 500 DG A 6 C3' - C2' - C1' ANGL. DEV. = -9.9 DEGREES REMARK 500 DG A 6 N9 - C1' - C2' ANGL. DEV. = 12.9 DEGREES REMARK 500 DG A 6 O4' - C1' - N9 ANGL. DEV. = -5.3 DEGREES REMARK 500 DG A 6 C6 - N1 - C2 ANGL. DEV. = 5.4 DEGREES REMARK 500 DG A 6 N1 - C2 - N3 ANGL. DEV. = -5.4 DEGREES REMARK 500 DG A 6 N9 - C4 - C5 ANGL. DEV. = -2.8 DEGREES REMARK 500 DG A 6 N1 - C6 - O6 ANGL. DEV. = 3.8 DEGREES REMARK 500 CBR B 7 C3' - O3' - P ANGL. DEV. = 15.8 DEGREES REMARK 500 CBR B 7 C3' - O3' - P ANGL. DEV. = -9.0 DEGREES REMARK 500 DC B 8 P - O5' - C5' ANGL. DEV. = 13.7 DEGREES REMARK 500 DC B 8 C5' - C4' - C3' ANGL. DEV. = 7.5 DEGREES REMARK 500 DC B 8 O4' - C1' - C2' ANGL. DEV. = 3.1 DEGREES REMARK 500 DC B 8 C6 - N1 - C2 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT B 9 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG B 11 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG B 11 C8 - N9 - C4 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG B 11 N9 - C4 - C5 ANGL. DEV. = 3.5 DEGREES REMARK 500 CBR C 13 C3' - O3' - P ANGL. DEV. = 9.3 DEGREES REMARK 500 DC C 14 C1' - O4' - C4' ANGL. DEV. = -6.4 DEGREES REMARK 500 DC C 14 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC C 14 N1 - C2 - N3 ANGL. DEV. = -4.3 DEGREES REMARK 500 DA C 16 C2 - N3 - C4 ANGL. DEV. = -3.5 DEGREES REMARK 500 DG C 17 C6 - N1 - C2 ANGL. DEV. = -4.6 DEGREES REMARK 500 DG C 17 C5 - C6 - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG C 17 C5 - C6 - O6 ANGL. DEV. = -4.8 DEGREES REMARK 500 DG C 18 O5' - C5' - C4' ANGL. DEV. = -6.4 DEGREES REMARK 500 DG C 18 P - O5' - C5' ANGL. DEV. = -10.1 DEGREES REMARK 500 DG C 18 O4' - C4' - C3' ANGL. DEV. = 4.0 DEGREES REMARK 500 DG C 18 C4' - C3' - C2' ANGL. DEV. = 10.5 DEGREES REMARK 500 DG C 18 C3' - C2' - C1' ANGL. DEV. = -10.6 DEGREES REMARK 500 DG C 18 O4' - C1' - C2' ANGL. DEV. = -15.9 DEGREES REMARK 500 DG C 18 N9 - C1' - C2' ANGL. DEV. = 10.6 DEGREES REMARK 500 DG C 18 O4' - C1' - N9 ANGL. DEV. = -5.4 DEGREES REMARK 500 DG C 18 C6 - N1 - C2 ANGL. DEV. = 5.9 DEGREES REMARK 500 DG C 18 N1 - C2 - N3 ANGL. DEV. = -4.9 DEGREES REMARK 500 DG C 18 C5 - N7 - C8 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG C 18 C8 - N9 - C4 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG C 18 N9 - C4 - C5 ANGL. DEV. = -5.4 DEGREES REMARK 500 DG C 18 N3 - C4 - N9 ANGL. DEV. = 5.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 64 ANGLE DEVIATIONS. 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 DC A 2 0.11 SIDE CHAIN REMARK 500 DA A 4 0.06 SIDE CHAIN REMARK 500 DG A 5 0.07 SIDE CHAIN REMARK 500 DA B 10 0.07 SIDE CHAIN REMARK 500 DG B 12 0.09 SIDE CHAIN REMARK 500 DC C 14 0.10 SIDE CHAIN REMARK 500 DG C 17 0.07 SIDE CHAIN REMARK 500 DA D 22 0.08 SIDE CHAIN REMARK 500 DG D 24 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 27 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 703 O REMARK 620 2 HOH A 704 O 178.6 REMARK 620 3 HOH A 705 O 88.9 89.9 REMARK 620 4 HOH A 706 O 87.7 93.6 176.5 REMARK 620 5 HOH A 707 O 90.7 89.8 88.2 91.1 REMARK 620 6 HOH A 708 O 91.7 87.6 84.9 95.9 172.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 28 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 709 O REMARK 620 2 HOH C 710 O 178.2 REMARK 620 3 HOH C 711 O 92.4 89.0 REMARK 620 4 HOH C 712 O 91.0 87.4 171.5 REMARK 620 5 HOH C 713 O 85.7 95.5 91.1 97.0 REMARK 620 6 HOH C 714 O 88.4 90.5 87.7 84.6 173.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 27 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 28 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PNI B 25 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PNI D 26 DBREF 1EM0 A 1 6 PDB 1EM0 1EM0 1 6 DBREF 1EM0 B 7 12 PDB 1EM0 1EM0 7 12 DBREF 1EM0 C 13 18 PDB 1EM0 1EM0 13 18 DBREF 1EM0 D 19 24 PDB 1EM0 1EM0 19 24 SEQRES 1 A 6 CBR DC DT DA DG DG SEQRES 1 B 6 CBR DC DT DA DG DG SEQRES 1 C 6 CBR DC DT DA DG DG SEQRES 1 D 6 CBR DC DT DA DG DG MODRES 1EM0 CBR A 1 DC MODRES 1EM0 CBR B 7 DC MODRES 1EM0 CBR C 13 DC MODRES 1EM0 CBR D 19 DC HET CBR A 1 28 HET CBR B 7 31 HET CBR C 13 28 HET CBR D 19 31 HET MG A 27 1 HET PNI B 25 89 HET MG C 28 1 HET PNI D 26 89 HETNAM CBR 5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM PNI TETRA[N-METHYL-PYRIDYL] PORPHYRIN-NICKEL FORMUL 1 CBR 4(C9 H13 BR N3 O7 P) FORMUL 5 MG 2(MG 2+) FORMUL 6 PNI 2(C44 H36 N8 NI) FORMUL 9 HOH *214(H2 O) LINK O3' CBR A 1 P DC A 2 1555 1555 1.51 LINK O3'ACBR B 7 P A DC B 8 1555 1555 1.49 LINK O3'BCBR B 7 P B DC B 8 1555 1555 1.69 LINK O3' CBR C 13 P DC C 14 1555 1555 1.49 LINK O3'DCBR D 19 P D DC D 20 1555 1555 1.64 LINK O3'CCBR D 19 P C DC D 20 1555 1555 1.63 LINK MG MG A 27 O HOH A 703 1555 1555 2.08 LINK MG MG A 27 O HOH A 704 1555 1555 2.01 LINK MG MG A 27 O HOH A 705 1555 1555 2.10 LINK MG MG A 27 O HOH A 706 1555 1555 2.07 LINK MG MG A 27 O HOH A 707 1555 1555 2.13 LINK MG MG A 27 O HOH A 708 1555 1555 2.12 LINK MG MG C 28 O HOH C 709 1555 1555 2.04 LINK MG MG C 28 O HOH C 710 1555 1555 2.02 LINK MG MG C 28 O HOH C 711 1555 1555 2.08 LINK MG MG C 28 O HOH C 712 1555 1555 2.15 LINK MG MG C 28 O HOH C 713 1555 1555 2.03 LINK MG MG C 28 O HOH C 714 1555 1555 2.12 SITE 1 AC1 6 HOH A 703 HOH A 704 HOH A 705 HOH A 706 SITE 2 AC1 6 HOH A 707 HOH A 708 SITE 1 AC2 6 HOH C 709 HOH C 710 HOH C 711 HOH C 712 SITE 2 AC2 6 HOH C 713 HOH C 714 SITE 1 AC3 15 DC A 2 DT A 3 DA A 4 DG A 5 SITE 2 AC3 15 DG A 6 HOH A 662 CBR B 7 DC B 8 SITE 3 AC3 15 DT B 9 DA B 10 DG B 12 CBR C 13 SITE 4 AC3 15 DA D 22 HOH D 555 HOH D 605 SITE 1 AC4 12 CBR A 1 DA B 10 DC C 14 DT C 15 SITE 2 AC4 12 DA C 16 DG C 17 DG C 18 CBR D 19 SITE 3 AC4 12 DC D 20 DT D 21 DA D 22 DG D 24 CRYST1 32.210 32.210 62.257 90.00 90.00 90.00 P 41 16 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 0.030941 0.000000 0.000000 0.00000 SCALE2 0.000000 0.030941 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016088 0.00000 HETATM 1 BR CBR A 1 8.283 2.848 49.386 1.00 9.38 BR ANISOU 1 BR CBR A 1 1339 1305 919 -197 6 -133 BR HETATM 2 O5' CBR A 1 3.638 4.199 52.403 1.00 9.04 O HETATM 3 N1 CBR A 1 6.869 6.522 50.546 1.00 8.31 N HETATM 4 C6 CBR A 1 6.975 5.245 50.064 1.00 8.64 C HETATM 5 C2 CBR A 1 7.943 7.140 51.180 1.00 8.96 C HETATM 6 O2 CBR A 1 7.864 8.289 51.585 1.00 9.51 O HETATM 7 N3 CBR A 1 9.080 6.451 51.199 1.00 7.96 N HETATM 8 C4 CBR A 1 9.213 5.224 50.753 1.00 7.60 C HETATM 9 N4 CBR A 1 10.412 4.607 50.908 1.00 8.82 N HETATM 10 C5 CBR A 1 8.100 4.559 50.090 1.00 8.66 C HETATM 11 C2' CBR A 1 4.657 7.099 49.439 1.00 9.50 C HETATM 12 C5' CBR A 1 3.232 4.865 51.162 1.00 8.39 C HETATM 13 C4' CBR A 1 3.450 6.310 51.233 1.00 8.33 C HETATM 14 O4' CBR A 1 4.803 6.642 51.671 1.00 8.73 O HETATM 15 C1' CBR A 1 5.512 7.233 50.643 1.00 8.86 C HETATM 16 C3' CBR A 1 3.281 7.028 49.990 1.00 9.83 C HETATM 17 O3' CBR A 1 2.771 8.379 50.271 1.00 16.58 O ANISOU 17 O3' CBR A 1 1112 1353 3836 16 -439 460 O HETATM 18 H6 CBR A 1 6.219 4.844 49.702 1.00 11.23 H HETATM 19 H41 CBR A 1 11.062 5.020 51.290 1.00 11.47 H HETATM 20 H42 CBR A 1 10.522 3.803 50.623 1.00 11.47 H HETATM 21 H2' CBR A 1 4.875 6.294 48.945 1.00 12.36 H HETATM 22 H2'' CBR A 1 4.758 7.866 48.854 1.00 12.36 H HETATM 23 H5' CBR A 1 2.293 4.690 50.996 1.00 10.91 H HETATM 24 H5'' CBR A 1 3.740 4.500 50.421 1.00 10.91 H HETATM 25 H4' CBR A 1 2.820 6.681 51.886 1.00 10.83 H HETATM 26 H1' CBR A 1 5.652 8.182 50.844 1.00 11.52 H HETATM 27 H3' CBR A 1 2.683 6.545 49.382 1.00 12.78 H HETATM 28 HO5' CBR A 1 4.366 4.490 52.644 1.00 11.76 H