PDB Short entry for 4FS1 HEADER TRANSFERASE/DNA 26-JUN-12 4FS1 TITLE BASE PAIRING MECHANISM OF N2,3-ETHENOGUANINE WITH DTTP BY HUMAN TITLE 2 POLYMERASE IOTA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA 5'-D(*TP*CP*TP*(EFG) COMPND 3 P*GP*GP*GP*TP*CP*CP*TP*AP*GP*GP*AP*CP*CP*(DOC))-3'; COMPND 4 CHAIN: B, C; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA POLYMERASE IOTA; COMPND 8 CHAIN: A; COMPND 9 SYNONYM: ETA2, RAD30 HOMOLOG B; COMPND 10 EC: 2.7.7.7; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 OTHER_DETAILS: SITE-SPECIFICALLY MODIFIED OLIGONUCLEOTIDE; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: POLI, RAD30B; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21 GOLD (DE3) KEYWDS HUMAN DNA POLYMERASE IOTA, DNA POLYMERASE, DNA REPLICATION, LESION KEYWDS 2 BYPASS, 2'-FLUORO ARABINOSE, N2, 3-ETHENOGUANINE, DTTP, TEMPLATE, KEYWDS 3 TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.ZHAO REVDAT 4 28-FEB-24 4FS1 1 REMARK LINK REVDAT 3 31-OCT-12 4FS1 1 JRNL REVDAT 2 12-SEP-12 4FS1 1 JRNL REVDAT 1 29-AUG-12 4FS1 0 JRNL AUTH L.ZHAO,M.G.PENCE,P.P.CHRISTOV,Z.WAWRZAK,J.Y.CHOI,C.J.RIZZO, JRNL AUTH 2 M.EGLI,F.P.GUENGERICH JRNL TITL BASIS OF MISCODING OF THE DNA ADDUCT N2,3-ETHENOGUANINE BY JRNL TITL 2 HUMAN Y-FAMILY DNA POLYMERASES. JRNL REF J.BIOL.CHEM. V. 287 35516 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22910910 JRNL DOI 10.1074/JBC.M112.403253 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 84.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 19448 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1063 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1224 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2944 REMARK 3 NUCLEIC ACID ATOMS : 328 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 65 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.37000 REMARK 3 B22 (A**2) : 1.37000 REMARK 3 B33 (A**2) : -2.05000 REMARK 3 B12 (A**2) : 0.68000 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): 0.413 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.287 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.214 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.877 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3381 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4642 ; 1.991 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 381 ; 6.610 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 124 ;40.404 ;24.839 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 553 ;20.413 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;24.839 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 534 ; 0.139 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2363 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 839 C 847 REMARK 3 ORIGIN FOR THE GROUP (A): -4.7250 36.1462 -19.6792 REMARK 3 T TENSOR REMARK 3 T11: 0.0943 T22: 0.1450 REMARK 3 T33: 0.2350 T12: 0.0289 REMARK 3 T13: -0.0343 T23: 0.0367 REMARK 3 L TENSOR REMARK 3 L11: 0.7077 L22: 2.9572 REMARK 3 L33: 2.0233 L12: -0.7323 REMARK 3 L13: -0.9524 L23: 1.5100 REMARK 3 S TENSOR REMARK 3 S11: -0.0785 S12: 0.2560 S13: 0.1669 REMARK 3 S21: 0.2748 S22: 0.0093 S23: -0.3558 REMARK 3 S31: 0.1387 S32: -0.2949 S33: 0.0693 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 26 A 414 REMARK 3 ORIGIN FOR THE GROUP (A): -7.2885 26.9974 -15.2554 REMARK 3 T TENSOR REMARK 3 T11: 0.0693 T22: 0.0715 REMARK 3 T33: 0.0391 T12: 0.0388 REMARK 3 T13: 0.0103 T23: 0.0118 REMARK 3 L TENSOR REMARK 3 L11: 0.2164 L22: 0.7554 REMARK 3 L33: 0.4480 L12: -0.0956 REMARK 3 L13: 0.0548 L23: -0.0893 REMARK 3 S TENSOR REMARK 3 S11: 0.0373 S12: 0.0487 S13: 0.0438 REMARK 3 S21: -0.0807 S22: -0.0739 S23: -0.1594 REMARK 3 S31: 0.0639 S32: -0.0623 S33: 0.0366 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: NULL REMARK 4 REMARK 4 4FS1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000073283. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20822 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 84.410 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.750 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP 11.0.02 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 210 MICROM POLYMERASE IOTA, 253 MICROM REMARK 280 DNA COMPLEX, 10 MM MGCL2, 20 MM DTTP; MIX 1:1 RATIO WITH REMARK 280 PRECIPITANT, 0.1 M MES (PH 6.5), 0.3 M (NH4)2SO4, 17% PEG 5000, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K, PH 6.9 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 135.69400 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 67.84700 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 101.77050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 33.92350 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 169.61750 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 135.69400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 67.84700 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 33.92350 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 101.77050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 169.61750 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -66.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, A 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 DT B -4 REMARK 465 DC B -3 REMARK 465 DT B -2 REMARK 465 EFG B -1 REMARK 465 DG B 0 REMARK 465 DG B 1 REMARK 465 DG B 2 REMARK 465 DT B 3 REMARK 465 DC B 4 REMARK 465 DC B 5 REMARK 465 DT B 6 REMARK 465 DT C 837 REMARK 465 DC C 838 REMARK 465 DA C 848 REMARK 465 DG C 849 REMARK 465 DG C 850 REMARK 465 DA C 851 REMARK 465 DC C 852 REMARK 465 DC C 853 REMARK 465 DOC C 854 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 LEU A 3 REMARK 465 ALA A 4 REMARK 465 ASP A 5 REMARK 465 VAL A 6 REMARK 465 GLY A 7 REMARK 465 ALA A 8 REMARK 465 ALA A 9 REMARK 465 ALA A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 GLN A 13 REMARK 465 GLY A 14 REMARK 465 VAL A 15 REMARK 465 HIS A 16 REMARK 465 ASP A 17 REMARK 465 GLN A 18 REMARK 465 VAL A 19 REMARK 465 LEU A 20 REMARK 465 PRO A 21 REMARK 465 THR A 22 REMARK 465 PRO A 23 REMARK 465 ASN A 24 REMARK 465 ALA A 25 REMARK 465 LYS A 371 REMARK 465 LEU A 372 REMARK 465 GLY A 373 REMARK 465 THR A 374 REMARK 465 GLY A 375 REMARK 465 ASN A 376 REMARK 465 ALA A 415 REMARK 465 LEU A 416 REMARK 465 ASN A 417 REMARK 465 THR A 418 REMARK 465 ALA A 419 REMARK 465 LYS A 420 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DT C 839 P OP1 OP2 REMARK 470 GLU A 49 CG CD OE1 OE2 REMARK 470 LYS A 53 CG CD CE NZ REMARK 470 GLU A 86 CG CD OE1 OE2 REMARK 470 LYS A 245 CG CD CE NZ REMARK 470 LYS A 267 CG CD CE NZ REMARK 470 GLU A 288 CG CD OE1 OE2 REMARK 470 LYS A 310 CG CD CE NZ REMARK 470 CYS A 311 SG REMARK 470 TYR A 349 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 352 CG CD OE1 OE2 REMARK 470 LYS A 353 CG CD CE NZ REMARK 470 HIS A 354 CG ND1 CD2 CE1 NE2 REMARK 470 TYR A 355 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 HIS A 367 CG ND1 CD2 CE1 NE2 REMARK 470 TYR A 377 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 389 CG CD CE NZ REMARK 470 ASN A 396 CG OD1 ND2 REMARK 470 MET A 399 CG SD CE REMARK 470 PHE A 401 CG CD1 CD2 CE1 CE2 CZ REMARK 470 HIS A 402 CG ND1 CD2 CE1 NE2 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 P DA B 7 O3' DT C 847 12564 1.86 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 DT C 839 C3' - O3' - P ANGL. DEV. = 9.8 DEGREES REMARK 500 EFG C 840 O3' - P - O5' ANGL. DEV. = -12.7 DEGREES REMARK 500 EFG C 840 O3' - P - OP2 ANGL. DEV. = -14.7 DEGREES REMARK 500 EFG C 840 O3' - P - OP1 ANGL. DEV. = -24.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 CYS A 37 45.95 32.45 REMARK 500 LYS A 60 -124.97 50.44 REMARK 500 LEU A 73 8.37 -62.52 REMARK 500 GLU A 86 17.31 -68.91 REMARK 500 CYS A 88 94.56 -163.30 REMARK 500 ASN A 159 15.47 59.35 REMARK 500 LEU A 273 -24.88 -143.18 REMARK 500 SER A 276 -70.21 -77.29 REMARK 500 ASP A 289 106.46 -163.70 REMARK 500 LYS A 310 36.67 6.09 REMARK 500 SER A 313 105.17 176.84 REMARK 500 GLU A 314 -156.56 -142.16 REMARK 500 VAL A 315 -51.14 74.54 REMARK 500 SER A 350 107.82 89.49 REMARK 500 SER A 351 -82.19 -169.53 REMARK 500 LYS A 353 -103.85 -96.73 REMARK 500 ILE A 369 102.32 -59.84 REMARK 500 PRO A 400 151.79 -42.17 REMARK 500 HIS A 402 62.50 -116.16 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 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC B 12 OP1 REMARK 620 2 LYS A 237 O 173.9 REMARK 620 3 ILE A 239 O 89.8 92.5 REMARK 620 4 ILE A 242 O 80.9 93.7 85.3 REMARK 620 5 HOH A 613 O 104.9 80.8 86.2 169.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 34 OD1 REMARK 620 2 LEU A 35 O 91.1 REMARK 620 3 ASP A 126 OD2 110.0 108.1 REMARK 620 4 TTP A 505 O1B 179.0 88.3 70.9 REMARK 620 5 TTP A 505 O1G 106.1 94.9 136.3 73.2 REMARK 620 6 TTP A 505 O2A 108.2 159.9 60.6 72.5 85.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 124 O REMARK 620 2 HOH A 634 O 138.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 504 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 154 O REMARK 620 2 HIS A 156 O 123.1 REMARK 620 N 1 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TTP A 505 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3OSN RELATED DB: PDB REMARK 900 RELATED ID: 3V6H RELATED DB: PDB REMARK 900 RELATED ID: 3V6J RELATED DB: PDB REMARK 900 RELATED ID: 3V6K RELATED DB: PDB REMARK 900 RELATED ID: 4FS2 RELATED DB: PDB DBREF 4FS1 A 1 420 UNP Q9UNA4 POLI_HUMAN 26 445 DBREF 4FS1 B -4 13 PDB 4FS1 4FS1 -4 13 DBREF 4FS1 C 837 854 PDB 4FS1 4FS1 837 854 SEQRES 1 B 18 DT DC DT EFG DG DG DG DT DC DC DT DA DG SEQRES 2 B 18 DG DA DC DC DOC SEQRES 1 C 18 DT DC DT EFG DG DG DG DT DC DC DT DA DG SEQRES 2 C 18 DG DA DC DC DOC SEQRES 1 A 420 MET GLU LEU ALA ASP VAL GLY ALA ALA ALA SER SER GLN SEQRES 2 A 420 GLY VAL HIS ASP GLN VAL LEU PRO THR PRO ASN ALA SER SEQRES 3 A 420 SER ARG VAL ILE VAL HIS VAL ASP LEU ASP CYS PHE TYR SEQRES 4 A 420 ALA GLN VAL GLU MET ILE SER ASN PRO GLU LEU LYS ASP SEQRES 5 A 420 LYS PRO LEU GLY VAL GLN GLN LYS TYR LEU VAL VAL THR SEQRES 6 A 420 CYS ASN TYR GLU ALA ARG LYS LEU GLY VAL LYS LYS LEU SEQRES 7 A 420 MET ASN VAL ARG ASP ALA LYS GLU LYS CYS PRO GLN LEU SEQRES 8 A 420 VAL LEU VAL ASN GLY GLU ASP LEU THR ARG TYR ARG GLU SEQRES 9 A 420 MET SER TYR LYS VAL THR GLU LEU LEU GLU GLU PHE SER SEQRES 10 A 420 PRO VAL VAL GLU ARG LEU GLY PHE ASP GLU ASN PHE VAL SEQRES 11 A 420 ASP LEU THR GLU MET VAL GLU LYS ARG LEU GLN GLN LEU SEQRES 12 A 420 GLN SER ASP GLU LEU SER ALA VAL THR VAL SER GLY HIS SEQRES 13 A 420 VAL TYR ASN ASN GLN SER ILE ASN LEU LEU ASP VAL LEU SEQRES 14 A 420 HIS ILE ARG LEU LEU VAL GLY SER GLN ILE ALA ALA GLU SEQRES 15 A 420 MET ARG GLU ALA MET TYR ASN GLN LEU GLY LEU THR GLY SEQRES 16 A 420 CYS ALA GLY VAL ALA SER ASN LYS LEU LEU ALA LYS LEU SEQRES 17 A 420 VAL SER GLY VAL PHE LYS PRO ASN GLN GLN THR VAL LEU SEQRES 18 A 420 LEU PRO GLU SER CYS GLN HIS LEU ILE HIS SER LEU ASN SEQRES 19 A 420 HIS ILE LYS GLU ILE PRO GLY ILE GLY TYR LYS THR ALA SEQRES 20 A 420 LYS CYS LEU GLU ALA LEU GLY ILE ASN SER VAL ARG ASP SEQRES 21 A 420 LEU GLN THR PHE SER PRO LYS ILE LEU GLU LYS GLU LEU SEQRES 22 A 420 GLY ILE SER VAL ALA GLN ARG ILE GLN LYS LEU SER PHE SEQRES 23 A 420 GLY GLU ASP ASN SER PRO VAL ILE LEU SER GLY PRO PRO SEQRES 24 A 420 GLN SER PHE SER GLU GLU ASP SER PHE LYS LYS CYS SER SEQRES 25 A 420 SER GLU VAL GLU ALA LYS ASN LYS ILE GLU GLU LEU LEU SEQRES 26 A 420 ALA SER LEU LEU ASN ARG VAL CYS GLN ASP GLY ARG LYS SEQRES 27 A 420 PRO HIS THR VAL ARG LEU ILE ILE ARG ARG TYR SER SER SEQRES 28 A 420 GLU LYS HIS TYR GLY ARG GLU SER ARG GLN CYS PRO ILE SEQRES 29 A 420 PRO SER HIS VAL ILE GLN LYS LEU GLY THR GLY ASN TYR SEQRES 30 A 420 ASP VAL MET THR PRO MET VAL ASP ILE LEU MET LYS LEU SEQRES 31 A 420 PHE ARG ASN MET VAL ASN VAL LYS MET PRO PHE HIS LEU SEQRES 32 A 420 THR LEU LEU SER VAL CYS PHE CYS ASN LEU LYS ALA LEU SEQRES 33 A 420 ASN THR ALA LYS MODRES 4FS1 DOC B 13 DC 2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE MODRES 4FS1 EFG C 840 DG HET DOC B 13 18 HET EFG C 840 25 HET MG A 501 1 HET MG A 502 1 HET MG A 503 1 HET NA A 504 1 HET TTP A 505 29 HETNAM DOC 2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE HETNAM EFG 1-(2-DEOXY-2-FLUORO-5-O-PHOSPHONO-BETA-D- HETNAM 2 EFG ARABINOFURANOSYL)-1H-IMIDAZO[2,1-B]PURIN-4(5H)-ONE HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM TTP THYMIDINE-5'-TRIPHOSPHATE HETSYN EFG 2'-F-N2,3-ETHENO-2'-DEOXYARABINOGUANOSINE FORMUL 1 DOC C9 H14 N3 O6 P FORMUL 2 EFG C12 H13 F N5 O7 P FORMUL 4 MG 3(MG 2+) FORMUL 7 NA NA 1+ FORMUL 8 TTP C10 H17 N2 O14 P3 FORMUL 9 HOH *65(H2 O) HELIX 1 1 CYS A 37 ASN A 47 1 11 HELIX 2 2 PRO A 48 LYS A 51 5 4 HELIX 3 3 ASN A 67 LEU A 73 1 7 HELIX 4 4 VAL A 81 GLU A 86 1 6 HELIX 5 5 LEU A 99 SER A 117 1 19 HELIX 6 6 LEU A 132 LEU A 143 1 12 HELIX 7 7 ASN A 159 GLN A 161 5 3 HELIX 8 8 ASP A 167 GLY A 192 1 26 HELIX 9 9 ASN A 202 GLY A 211 1 10 HELIX 10 10 LEU A 222 GLU A 224 5 3 HELIX 11 11 SER A 225 SER A 232 1 8 HELIX 12 12 HIS A 235 ILE A 239 5 5 HELIX 13 13 GLY A 243 LEU A 253 1 11 HELIX 14 14 SER A 257 PHE A 264 1 8 HELIX 15 15 SER A 265 PHE A 286 1 22 HELIX 16 16 VAL A 315 GLY A 336 1 22 HELIX 17 17 VAL A 379 VAL A 395 1 17 SHEET 1 A 6 VAL A 120 LEU A 123 0 SHEET 2 A 6 GLU A 127 ASP A 131 -1 O PHE A 129 N GLU A 121 SHEET 3 A 6 ILE A 30 LEU A 35 -1 N VAL A 33 O ASN A 128 SHEET 4 A 6 GLY A 195 ALA A 200 -1 O CYS A 196 N ASP A 34 SHEET 5 A 6 GLN A 218 VAL A 220 1 O THR A 219 N VAL A 199 SHEET 6 A 6 HIS A 156 VAL A 157 1 N HIS A 156 O GLN A 218 SHEET 1 B 4 MET A 79 ASN A 80 0 SHEET 2 B 4 LEU A 62 CYS A 66 -1 N VAL A 63 O MET A 79 SHEET 3 B 4 LEU A 55 GLN A 59 -1 N VAL A 57 O THR A 65 SHEET 4 B 4 VAL A 92 ASN A 95 1 O VAL A 94 N GLN A 58 SHEET 1 C 4 SER A 301 SER A 312 0 SHEET 2 C 4 LEU A 403 LYS A 414 -1 O PHE A 410 N PHE A 302 SHEET 3 C 4 LYS A 338 ARG A 348 -1 N ILE A 345 O SER A 407 SHEET 4 C 4 GLU A 358 PRO A 363 -1 O GLU A 358 N ILE A 346 LINK O3' DC B 12 P DOC B 13 1555 1555 1.59 LINK O3' DT C 839 P EFG C 840 1555 1555 1.61 LINK OP1 DC B 12 MG MG A 502 1555 1555 2.65 LINK OD1 ASP A 34 MG MG A 501 1555 1555 2.23 LINK O LEU A 35 MG MG A 501 1555 1555 2.21 LINK O GLY A 124 MG MG A 503 1555 1555 2.83 LINK OD2 ASP A 126 MG MG A 501 1555 1555 2.30 LINK O SER A 154 NA NA A 504 1555 1555 2.59 LINK O HIS A 156 NA NA A 504 1555 1555 3.01 LINK O LYS A 237 MG MG A 502 1555 1555 2.33 LINK O ILE A 239 MG MG A 502 1555 1555 2.88 LINK O ILE A 242 MG MG A 502 1555 1555 2.49 LINK MG MG A 501 O1B TTP A 505 1555 1555 2.20 LINK MG MG A 501 O1G TTP A 505 1555 1555 2.23 LINK MG MG A 501 O2A TTP A 505 1555 1555 2.25 LINK MG MG A 502 O HOH A 613 1555 1555 2.28 LINK MG MG A 503 O HOH A 634 1555 1555 2.82 CISPEP 1 LYS A 214 PRO A 215 0 -0.29 CISPEP 2 SER A 313 GLU A 314 0 -22.50 CISPEP 3 SER A 350 SER A 351 0 -6.43 CISPEP 4 TYR A 377 ASP A 378 0 -13.01 SITE 1 AC1 4 ASP A 34 LEU A 35 ASP A 126 TTP A 505 SITE 1 AC2 5 LYS A 237 ILE A 239 ILE A 242 HOH A 613 SITE 2 AC2 5 DC B 12 SITE 1 AC3 6 SER A 106 ARG A 122 GLY A 124 PHE A 125 SITE 2 AC3 6 GLU A 127 HOH A 634 SITE 1 AC4 6 SER A 154 GLY A 155 HIS A 156 GLN A 218 SITE 2 AC4 6 THR A 219 VAL A 220 SITE 1 AC5 17 ASP A 34 LEU A 35 ASP A 36 CYS A 37 SITE 2 AC5 17 PHE A 38 TYR A 39 VAL A 64 THR A 65 SITE 3 AC5 17 TYR A 68 ARG A 71 LYS A 77 ASP A 126 SITE 4 AC5 17 LYS A 214 MG A 501 DOC B 13 EFG C 840 SITE 5 AC5 17 DG C 841 CRYST1 97.470 97.470 203.541 90.00 90.00 120.00 P 65 2 2 24 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 0.010260 0.005923 0.000000 0.00000 SCALE2 0.000000 0.011847 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004913 0.00000