HEADER DNA 13-APR-07 2PIS TITLE EFFORTS TOWARD EXPANSION OF THE GENETIC ALPHABET: STRUCTURE AND TITLE 2 REPLICATION OF UNNATURAL BASE PAIRS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*CP*GP*(CBR)P*GP*AP*AP*(FFD)P*TP*TP*CP*GP*CP*G)- COMPND 3 3'); COMPND 4 CHAIN: A, B, C, D, E, F, G, H, I, J, K, L; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHESIZED DNA KEYWDS NUCLEIC ACID, DUPLEX, REPLICATION, UNNATURAL BASE, DNA EXPDTA X-RAY DIFFRACTION AUTHOR S.MATSUDA,J.D.FILLO,A.A.HENRY,S.J.WILKINS,P.RAI,T.J.DWYER, AUTHOR 2 B.H.GEIERSTANGER,D.E.WEMMER,P.G.SCHULTZ,G.SPRAGGON,F.E.ROMESBERG REVDAT 3 21-FEB-24 2PIS 1 DBREF LINK REVDAT 2 24-FEB-09 2PIS 1 VERSN REVDAT 1 30-OCT-07 2PIS 0 JRNL AUTH S.MATSUDA,J.D.FILLO,A.A.HENRY,P.RAI,S.J.WILKENS,T.J.DWYER, JRNL AUTH 2 B.H.GEIERSTANGER,D.E.WEMMER,P.G.SCHULTZ,G.SPRAGGON, JRNL AUTH 3 F.E.ROMESBERG JRNL TITL EFFORTS TOWARD EXPANSION OF THE GENETIC ALPHABET: STRUCTURE JRNL TITL 2 AND REPLICATION OF UNNATURAL BASE PAIRS. JRNL REF J.AM.CHEM.SOC. V. 129 10466 2007 JRNL REFN ISSN 0002-7863 JRNL PMID 17685517 JRNL DOI 10.1021/JA072276D REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 100.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 11034 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.228 REMARK 3 R VALUE (WORKING SET) : 0.224 REMARK 3 FREE R VALUE : 0.303 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 599 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.88 REMARK 3 REFLECTION IN BIN (WORKING SET) : 620 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.3640 REMARK 3 BIN FREE R VALUE SET COUNT : 39 REMARK 3 BIN FREE R VALUE : 0.4800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 3144 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.53000 REMARK 3 B22 (A**2) : -2.53000 REMARK 3 B33 (A**2) : 5.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.475 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.317 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.642 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.902 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3552 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5468 ; 1.131 ; 2.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 600 ; 0.053 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1608 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1740 ; 0.338 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1974 ; 0.342 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 119 ; 0.300 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 120 ; 0.345 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.178 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 24 ; 2.970 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 48 ;12.619 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 5040 ;13.620 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 5340 ;16.424 ;11.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. ELECTRON DENSITY FOR THE CHAINS I,J AND K,L WAS REMARK 3 EXTREMELY WEAK. THE AUTHOR STATES THAT THESE CHAINS WERE MODELED REMARK 3 TENTATIVELY INTO THE DENSITY. REMARK 4 REMARK 4 2PIS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000042419. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92017, 0.9203, 0.9050 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12382 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 15.30 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : 0.05400 REMARK 200 FOR THE DATA SET : 40.5800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.5 REMARK 200 DATA REDUNDANCY IN SHELL : 12.10 REMARK 200 R MERGE FOR SHELL (I) : 0.59700 REMARK 200 R SYM FOR SHELL (I) : 0.38800 REMARK 200 FOR SHELL : 3.730 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% (V/V) MPD IN 0.1M SODIUM REMARK 280 CACODYLATE , PH 6.0, VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 73.01250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 73.01250 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.57000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 23.28500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 73.01250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 69.85500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 69.85500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 73.01250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 23.28500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 73.01250 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.57000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 73.01250 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 46.57000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 73.01250 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 69.85500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 23.28500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 73.01250 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 23.28500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 69.85500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 73.01250 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 73.01250 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 46.57000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5, 6 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F 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 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, H 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 REMARK 350 BIOMOLECULE: 5 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: I, J 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 REMARK 350 BIOMOLECULE: 6 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: K, L 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 N4 DC G 12 O6 DG H 15 1.97 REMARK 500 O2 DC I 12 N2 DG J 15 2.06 REMARK 500 C5 DC B 14 O6 DG C 2 2.13 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 O6 DG A 4 C5 DC G 1 8657 2.09 REMARK 500 C5 DC F 14 O6 DG F 17 16556 2.14 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 O3' DC A 1 C3' -0.051 REMARK 500 DG A 4 O3' DG A 4 C3' -0.072 REMARK 500 DG B 17 O3' DG B 17 C3' -0.039 REMARK 500 DG B 24 O3' DG B 24 C3' -0.057 REMARK 500 DG C 4 C2 DG C 4 N3 0.052 REMARK 500 DT C 8 O3' DT C 8 C3' -0.066 REMARK 500 DG C 11 O3' DG C 11 C3' -0.079 REMARK 500 DG E 11 O3' DG E 11 C3' -0.043 REMARK 500 DC F 14 O3' DC F 14 C3' -0.040 REMARK 500 DG F 15 O3' DG F 15 C3' -0.096 REMARK 500 DG F 15 O3' CBR F 16 P -0.079 REMARK 500 DG F 24 C2 DG F 24 N3 0.050 REMARK 500 DC G 1 O3' DC G 1 C3' -0.054 REMARK 500 DG G 2 O3' DG G 2 C3' -0.046 REMARK 500 DG G 4 O3' DG G 4 C3' -0.064 REMARK 500 DA G 6 O3' DA G 6 C3' -0.043 REMARK 500 DA H 18 O3' DA H 18 C3' -0.049 REMARK 500 DT J 22 O3' DT J 22 C3' -0.039 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' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = -5.4 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DC B 14 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG B 24 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG C 4 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG C 11 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG D 17 O4' - C1' - N9 ANGL. DEV. = 1.8 DEGREES REMARK 500 DA D 19 C1' - O4' - C4' ANGL. DEV. = -9.8 DEGREES REMARK 500 DA D 19 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES REMARK 500 DG D 24 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG E 4 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT E 8 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DA F 19 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG F 24 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 DG G 4 O4' - C1' - N9 ANGL. DEV. = 5.3 DEGREES REMARK 500 DA G 6 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DT G 9 O4' - C1' - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 DC G 12 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG H 17 C1' - O4' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 DG H 17 O4' - C1' - N9 ANGL. DEV. = 6.3 DEGREES REMARK 500 DA H 19 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA I 5 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT I 9 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DC I 10 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG I 11 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT J 22 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG J 24 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT K 8 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG L 17 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA L 18 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA L 19 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC L 25 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 2PIS A 1 13 PDB 2PIS 2PIS 1 13 DBREF 2PIS B 14 26 PDB 2PIS 2PIS 14 26 DBREF 2PIS C 1 13 PDB 2PIS 2PIS 1 13 DBREF 2PIS D 14 26 PDB 2PIS 2PIS 14 26 DBREF 2PIS E 1 13 PDB 2PIS 2PIS 1 13 DBREF 2PIS F 14 26 PDB 2PIS 2PIS 14 26 DBREF 2PIS G 1 13 PDB 2PIS 2PIS 1 13 DBREF 2PIS H 14 26 PDB 2PIS 2PIS 14 26 DBREF 2PIS I 1 13 PDB 2PIS 2PIS 1 13 DBREF 2PIS J 14 26 PDB 2PIS 2PIS 14 26 DBREF 2PIS K 1 13 PDB 2PIS 2PIS 1 13 DBREF 2PIS L 14 26 PDB 2PIS 2PIS 14 26 SEQRES 1 A 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 B 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 C 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 D 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 E 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 F 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 G 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 H 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 I 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 J 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 K 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG SEQRES 1 L 13 DC DG CBR DG DA DA FFD DT DT DC DG DC DG MODRES 2PIS CBR A 3 DC MODRES 2PIS CBR B 16 DC MODRES 2PIS CBR C 3 DC MODRES 2PIS CBR D 16 DC MODRES 2PIS CBR E 3 DC MODRES 2PIS CBR F 16 DC MODRES 2PIS CBR G 3 DC MODRES 2PIS CBR H 16 DC MODRES 2PIS CBR I 3 DC MODRES 2PIS CBR J 16 DC MODRES 2PIS CBR K 3 DC MODRES 2PIS CBR L 16 DC HET CBR A 3 20 HET FFD A 7 18 HET CBR B 16 20 HET FFD B 20 18 HET CBR C 3 20 HET FFD C 7 18 HET CBR D 16 20 HET FFD D 20 18 HET CBR E 3 20 HET FFD E 7 18 HET CBR F 16 20 HET FFD F 20 18 HET CBR G 3 20 HET FFD G 7 18 HET CBR H 16 20 HET FFD H 20 18 HET CBR I 3 20 HET FFD I 7 18 HET CBR J 16 20 HET FFD J 20 18 HET CBR K 3 20 HET FFD K 7 18 HET CBR L 16 20 HET FFD L 20 18 HET MG D 2 1 HET MG E 14 1 HET MG F 1 1 HET MG G 14 1 HET MG G 15 1 HET MG G 16 1 HETNAM CBR 5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM FFD (1R)-1,4-ANHYDRO-2-DEOXY-1-(3-FLUOROPHENYL)-5-O- HETNAM 2 FFD PHOSPHONO-D-ERYTHRO-PENTITOL HETNAM MG MAGNESIUM ION FORMUL 1 CBR 12(C9 H13 BR N3 O7 P) FORMUL 1 FFD 12(C11 H14 F O6 P) FORMUL 13 MG 6(MG 2+) LINK O3' DG A 2 P CBR A 3 1555 1555 1.57 LINK O3' CBR A 3 P DG A 4 1555 1555 1.58 LINK O3' DA A 6 P FFD A 7 1555 1555 1.59 LINK O3' FFD A 7 P DT A 8 1555 1555 1.60 LINK O3' DG B 15 P CBR B 16 1555 1555 1.63 LINK O3' CBR B 16 P DG B 17 1555 1555 1.58 LINK O3' DA B 19 P FFD B 20 1555 1555 1.60 LINK O3' FFD B 20 P DT B 21 1555 1555 1.61 LINK O3' DG C 2 P CBR C 3 1555 1555 1.58 LINK O3' CBR C 3 P DG C 4 1555 1555 1.61 LINK O3' DA C 6 P FFD C 7 1555 1555 1.59 LINK O3' FFD C 7 P DT C 8 1555 1555 1.59 LINK O3' DG D 15 P CBR D 16 1555 1555 1.57 LINK O3' CBR D 16 P DG D 17 1555 1555 1.58 LINK O3' DA D 19 P FFD D 20 1555 1555 1.59 LINK O3' FFD D 20 P DT D 21 1555 1555 1.60 LINK O3' DG E 2 P CBR E 3 1555 1555 1.61 LINK O3' CBR E 3 P DG E 4 1555 1555 1.62 LINK O3' DA E 6 P FFD E 7 1555 1555 1.61 LINK O3' FFD E 7 P DT E 8 1555 1555 1.59 LINK O3' DG F 15 P CBR F 16 1555 1555 1.53 LINK O3' CBR F 16 P DG F 17 1555 1555 1.59 LINK O3' DA F 19 P FFD F 20 1555 1555 1.59 LINK O3' FFD F 20 P DT F 21 1555 1555 1.59 LINK O3' DG G 2 P CBR G 3 1555 1555 1.56 LINK O3' CBR G 3 P DG G 4 1555 1555 1.55 LINK O3' DA G 6 P FFD G 7 1555 1555 1.59 LINK O3' FFD G 7 P DT G 8 1555 1555 1.59 LINK O3' DG H 15 P CBR H 16 1555 1555 1.60 LINK O3' CBR H 16 P DG H 17 1555 1555 1.59 LINK O3' DA H 19 P FFD H 20 1555 1555 1.60 LINK O3' FFD H 20 P DT H 21 1555 1555 1.60 LINK O3' DG I 2 P CBR I 3 1555 1555 1.59 LINK O3' CBR I 3 P DG I 4 1555 1555 1.59 LINK O3' DA I 6 P FFD I 7 1555 1555 1.60 LINK O3' FFD I 7 P DT I 8 1555 1555 1.60 LINK O3' DG J 15 P CBR J 16 1555 1555 1.61 LINK O3' CBR J 16 P DG J 17 1555 1555 1.61 LINK O3' DA J 19 P FFD J 20 1555 1555 1.60 LINK O3' FFD J 20 P DT J 21 1555 1555 1.60 LINK O3' DG K 2 P CBR K 3 1555 1555 1.62 LINK O3' CBR K 3 P DG K 4 1555 1555 1.61 LINK O3' DA K 6 P FFD K 7 1555 1555 1.60 LINK O3' FFD K 7 P DT K 8 1555 1555 1.61 LINK O3' DG L 15 P CBR L 16 1555 1555 1.61 LINK O3' CBR L 16 P DG L 17 1555 1555 1.61 LINK O3' DA L 19 P FFD L 20 1555 1555 1.60 LINK O3' FFD L 20 P DT L 21 1555 1555 1.59 CRYST1 146.025 146.025 93.140 90.00 90.00 90.00 I 41 2 2 192 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 0.006848 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006848 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010737 0.00000