HEADER TRANSFERASE/DNA 29-APR-11 3RR7 TITLE BINARY STRUCTURE OF THE LARGE FRAGMENT OF TAQ DNA POLYMERASE BOUND TO TITLE 2 AN ABASIC SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE I, THERMOSTABLE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KLENOW FRAGMENT; COMPND 5 SYNONYM: TAQ POLYMERASE 1; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3'); COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: DNA PRIMER; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: (5'-D(*AP*AP*AP*(3DR)P*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)- COMPND 15 3'); COMPND 16 CHAIN: C; COMPND 17 FRAGMENT: DNA TEMPLATE; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 3 ORGANISM_TAXID: 271; SOURCE 4 GENE: POL I, POL1, POLA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-21B; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES KEYWDS DNA POLYMERASE, ABASIC SITE, TRANSLESION SYNTHESIS, TRANSFERASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.MARX,K.DIEDERICHS,S.OBEID REVDAT 4 13-SEP-23 3RR7 1 REMARK LINK REVDAT 3 09-MAY-12 3RR7 1 JRNL REVDAT 2 22-FEB-12 3RR7 1 JRNL REVDAT 1 15-FEB-12 3RR7 0 JRNL AUTH S.OBEID,W.WELTE,K.DIEDERICHS,A.MARX JRNL TITL AMINO ACID TEMPLATING MECHANISMS IN SELECTION OF NUCLEOTIDES JRNL TITL 2 OPPOSITE ABASIC SITES BY A FAMILY A DNA POLYMERASE. JRNL REF J.BIOL.CHEM. V. 287 14099 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22318723 JRNL DOI 10.1074/JBC.M111.334904 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_704) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.40 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.490 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 88190 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 4474 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.4116 - 6.0552 1.00 2785 163 0.1782 0.1990 REMARK 3 2 6.0552 - 4.8077 1.00 2796 146 0.1681 0.2061 REMARK 3 3 4.8077 - 4.2004 1.00 2810 139 0.1423 0.2063 REMARK 3 4 4.2004 - 3.8165 1.00 2768 178 0.1546 0.1711 REMARK 3 5 3.8165 - 3.5431 1.00 2760 183 0.1712 0.2105 REMARK 3 6 3.5431 - 3.3343 1.00 2783 132 0.1751 0.1855 REMARK 3 7 3.3343 - 3.1673 1.00 2797 176 0.1860 0.2490 REMARK 3 8 3.1673 - 3.0295 1.00 2810 130 0.1984 0.2367 REMARK 3 9 3.0295 - 2.9128 1.00 2804 156 0.1954 0.2025 REMARK 3 10 2.9128 - 2.8123 1.00 2766 153 0.2054 0.2522 REMARK 3 11 2.8123 - 2.7244 1.00 2791 150 0.2052 0.2406 REMARK 3 12 2.7244 - 2.6466 1.00 2808 153 0.2200 0.2571 REMARK 3 13 2.6466 - 2.5769 1.00 2774 158 0.2105 0.3008 REMARK 3 14 2.5769 - 2.5140 1.00 2791 174 0.2124 0.2496 REMARK 3 15 2.5140 - 2.4569 1.00 2808 138 0.2082 0.2673 REMARK 3 16 2.4569 - 2.4046 1.00 2761 140 0.2149 0.2541 REMARK 3 17 2.4046 - 2.3565 1.00 2867 116 0.2099 0.3036 REMARK 3 18 2.3565 - 2.3120 1.00 2840 131 0.2042 0.2268 REMARK 3 19 2.3120 - 2.2707 1.00 2765 155 0.1949 0.2241 REMARK 3 20 2.2707 - 2.2322 1.00 2776 137 0.2105 0.2808 REMARK 3 21 2.2322 - 2.1962 1.00 2852 126 0.2171 0.3058 REMARK 3 22 2.1962 - 2.1624 1.00 2782 156 0.2254 0.2438 REMARK 3 23 2.1624 - 2.1306 1.00 2832 118 0.2194 0.2975 REMARK 3 24 2.1306 - 2.1006 1.00 2778 137 0.2341 0.3247 REMARK 3 25 2.1006 - 2.0722 1.00 2840 132 0.2437 0.2789 REMARK 3 26 2.0722 - 2.0453 1.00 2804 155 0.2644 0.3012 REMARK 3 27 2.0453 - 2.0198 1.00 2757 155 0.2659 0.2835 REMARK 3 28 2.0198 - 1.9954 1.00 2753 171 0.2821 0.3266 REMARK 3 29 1.9954 - 1.9722 1.00 2800 149 0.3009 0.3300 REMARK 3 30 1.9722 - 1.9501 0.94 2658 167 0.3152 0.3483 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.06 REMARK 3 K_SOL : 0.29 REMARK 3 B_SOL : 33.85 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.580 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.990 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.43280 REMARK 3 B22 (A**2) : 3.43280 REMARK 3 B33 (A**2) : -6.86550 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 4796 REMARK 3 ANGLE : 0.739 6609 REMARK 3 CHIRALITY : 0.049 730 REMARK 3 PLANARITY : 0.003 770 REMARK 3 DIHEDRAL : 15.721 1841 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 295:446) REMARK 3 ORIGIN FOR THE GROUP (A): 39.6974 -42.1100 -18.1650 REMARK 3 T TENSOR REMARK 3 T11: 0.1390 T22: 0.2785 REMARK 3 T33: 0.2916 T12: -0.1536 REMARK 3 T13: 0.0280 T23: 0.0433 REMARK 3 L TENSOR REMARK 3 L11: 2.7032 L22: 1.6338 REMARK 3 L33: 0.7715 L12: 0.6955 REMARK 3 L13: -0.0024 L23: 0.0691 REMARK 3 S TENSOR REMARK 3 S11: 0.1379 S12: -0.0416 S13: -0.7125 REMARK 3 S21: -0.1175 S22: -0.0274 S23: -0.3574 REMARK 3 S31: 0.3322 S32: 0.0027 S33: 0.0285 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 447:633) REMARK 3 ORIGIN FOR THE GROUP (A): 32.1407 -12.5409 -2.1530 REMARK 3 T TENSOR REMARK 3 T11: 0.1713 T22: 0.1536 REMARK 3 T33: 0.1030 T12: -0.0410 REMARK 3 T13: 0.1162 T23: 0.0631 REMARK 3 L TENSOR REMARK 3 L11: 0.9274 L22: 0.9433 REMARK 3 L33: 1.4330 L12: 0.7825 REMARK 3 L13: -0.2243 L23: -0.4394 REMARK 3 S TENSOR REMARK 3 S11: -0.0067 S12: 0.0077 S13: 0.2758 REMARK 3 S21: 0.3689 S22: 0.0302 S23: 0.0982 REMARK 3 S31: -0.5092 S32: -0.2512 S33: -0.0108 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 634:698) REMARK 3 ORIGIN FOR THE GROUP (A): 6.6422 -15.7026 -1.3002 REMARK 3 T TENSOR REMARK 3 T11: 1.3565 T22: 1.1352 REMARK 3 T33: 0.6459 T12: 0.2689 REMARK 3 T13: 0.0434 T23: 0.0372 REMARK 3 L TENSOR REMARK 3 L11: 2.2698 L22: 2.6661 REMARK 3 L33: 1.6690 L12: -0.3258 REMARK 3 L13: 0.1257 L23: -1.2807 REMARK 3 S TENSOR REMARK 3 S11: 0.0202 S12: -0.4967 S13: 0.4284 REMARK 3 S21: 1.5942 S22: -0.0755 S23: 0.4285 REMARK 3 S31: -0.8934 S32: -0.3653 S33: 0.0023 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 699:832) REMARK 3 ORIGIN FOR THE GROUP (A): 19.1532 -26.1422 -15.1487 REMARK 3 T TENSOR REMARK 3 T11: 0.0899 T22: 0.4828 REMARK 3 T33: 0.0088 T12: -0.1742 REMARK 3 T13: 0.0847 T23: 0.1828 REMARK 3 L TENSOR REMARK 3 L11: 0.5033 L22: 0.6311 REMARK 3 L33: 1.6327 L12: 0.1205 REMARK 3 L13: 0.0095 L23: -0.2947 REMARK 3 S TENSOR REMARK 3 S11: -0.1356 S12: 0.0042 S13: -0.0994 REMARK 3 S21: -0.1052 S22: 0.2657 S23: 0.2320 REMARK 3 S31: -0.0149 S32: -0.5636 S33: -0.1257 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B) REMARK 3 ORIGIN FOR THE GROUP (A): 36.8830 -23.0370 4.1696 REMARK 3 T TENSOR REMARK 3 T11: 0.2152 T22: 0.3870 REMARK 3 T33: 0.2536 T12: 0.0844 REMARK 3 T13: 0.0127 T23: 0.0607 REMARK 3 L TENSOR REMARK 3 L11: 1.9530 L22: 0.5258 REMARK 3 L33: 0.6755 L12: 0.8407 REMARK 3 L13: 0.0210 L23: -0.2796 REMARK 3 S TENSOR REMARK 3 S11: 0.1034 S12: 0.4559 S13: -0.3440 REMARK 3 S21: 0.1042 S22: -0.2735 S23: -0.2159 REMARK 3 S31: 0.0744 S32: 0.5760 S33: 0.0610 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN C) REMARK 3 ORIGIN FOR THE GROUP (A): 34.1732 -22.8759 4.0516 REMARK 3 T TENSOR REMARK 3 T11: 0.1861 T22: 0.3156 REMARK 3 T33: 0.1377 T12: 0.0289 REMARK 3 T13: -0.0002 T23: 0.0659 REMARK 3 L TENSOR REMARK 3 L11: 3.2280 L22: 2.6800 REMARK 3 L33: 3.7339 L12: 1.4615 REMARK 3 L13: 0.6887 L23: 0.6564 REMARK 3 S TENSOR REMARK 3 S11: -0.3944 S12: -0.1474 S13: 0.1229 REMARK 3 S21: 0.1390 S22: 0.2604 S23: 0.0666 REMARK 3 S31: -0.2234 S32: -0.4113 S33: 0.1084 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3RR7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000065278. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : LN2 COOLED FIXED-EXIT SI(111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.110 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.2900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.97 REMARK 200 R MERGE FOR SHELL (I) : 0.88200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.270 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX DEV_704 REMARK 200 STARTING MODEL: PDB ENTRY 3LWL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS HCL PH 7.5, 0.2 M MAGNESIUM REMARK 280 FORMATE, 12% PEG 8000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 30.14233 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 60.28467 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 60.28467 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 30.14233 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: 6660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 62 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 876 LIES ON A SPECIAL POSITION. 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 ALA A 293 REMARK 465 LEU A 294 REMARK 465 THR A 642 REMARK 465 ALA A 643 REMARK 465 SER A 644 REMARK 465 TRP A 645 REMARK 465 MET A 646 REMARK 465 PHE A 647 REMARK 465 GLY A 648 REMARK 465 VAL A 649 REMARK 465 PRO A 650 REMARK 465 ARG A 651 REMARK 465 GLU A 652 REMARK 465 ALA A 653 REMARK 465 VAL A 654 REMARK 465 ASP A 655 REMARK 465 PRO A 656 REMARK 465 LEU A 657 REMARK 465 MET A 658 REMARK 465 ARG A 659 REMARK 465 DA C 201 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 ARG A 660 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 663 CG CD CE NZ REMARK 470 MET A 673 CG SD CE REMARK 470 ARG A 677 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 678 CG CD1 CD2 REMARK 470 GLN A 680 CG CD OE1 NE2 REMARK 470 GLU A 681 CG CD OE1 OE2 REMARK 470 LEU A 682 CG CD1 CD2 REMARK 470 ILE A 684 CG1 CG2 CD1 REMARK 470 PRO A 685 CG CD REMARK 470 TYR A 686 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 687 CG CD OE1 OE2 REMARK 470 GLU A 688 CG CD OE1 OE2 REMARK 470 GLN A 690 CG CD OE1 NE2 REMARK 470 PHE A 692 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ILE A 693 CG1 CG2 CD1 REMARK 470 ARG A 695 CG CD NE CZ NH1 NH2 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 B 108 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DC B 109 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC B 111 C3' - O3' - P ANGL. DEV. = -9.4 DEGREES REMARK 500 DOC B 112 O3' - P - OP2 ANGL. DEV. = 8.8 DEGREES REMARK 500 DOC B 112 O3' - P - OP1 ANGL. DEV. = -16.0 DEGREES REMARK 500 DA C 202 OP1 - P - OP2 ANGL. DEV. = -12.2 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 ARG A 328 143.22 179.02 REMARK 500 ASP A 381 107.52 -163.35 REMARK 500 THR A 399 -165.41 -101.81 REMARK 500 VAL A 433 -71.44 -121.66 REMARK 500 ILE A 503 -86.27 -87.23 REMARK 500 HIS A 526 133.49 173.32 REMARK 500 TYR A 545 -60.38 -120.41 REMARK 500 VAL A 586 -21.24 -153.39 REMARK 500 ALA A 661 -91.26 -70.73 REMARK 500 TYR A 671 21.93 -153.19 REMARK 500 LEU A 682 -5.76 -160.69 REMARK 500 ILE A 684 -157.06 -107.99 REMARK 500 TYR A 686 -83.88 69.78 REMARK 500 HIS A 784 -66.36 72.11 REMARK 500 TYR A 811 89.08 -162.87 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 B 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 61 O REMARK 620 2 HOH B 74 O 73.0 REMARK 620 3 HOH B 115 O 154.7 83.4 REMARK 620 4 HOH B 116 O 82.1 79.5 84.8 REMARK 620 5 HOH B 117 O 109.7 174.6 93.0 96.1 REMARK 620 6 HOH B 318 O 93.0 96.3 98.7 174.3 88.2 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 FMT A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 833 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 834 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LWL RELATED DB: PDB REMARK 900 RELATED ID: 3RR8 RELATED DB: PDB REMARK 900 RELATED ID: 3RRG RELATED DB: PDB REMARK 900 RELATED ID: 3RRH RELATED DB: PDB DBREF 3RR7 A 293 832 UNP P19821 DPO1_THEAQ 293 832 DBREF 3RR7 B 101 112 PDB 3RR7 3RR7 101 112 DBREF 3RR7 C 201 216 PDB 3RR7 3RR7 201 216 SEQRES 1 A 540 ALA LEU GLU GLU ALA PRO TRP PRO PRO PRO GLU GLY ALA SEQRES 2 A 540 PHE VAL GLY PHE VAL LEU SER ARG LYS GLU PRO MET TRP SEQRES 3 A 540 ALA ASP LEU LEU ALA LEU ALA ALA ALA ARG GLY GLY ARG SEQRES 4 A 540 VAL HIS ARG ALA PRO GLU PRO TYR LYS ALA LEU ARG ASP SEQRES 5 A 540 LEU LYS GLU ALA ARG GLY LEU LEU ALA LYS ASP LEU SER SEQRES 6 A 540 VAL LEU ALA LEU ARG GLU GLY LEU GLY LEU PRO PRO GLY SEQRES 7 A 540 ASP ASP PRO MET LEU LEU ALA TYR LEU LEU ASP PRO SER SEQRES 8 A 540 ASN THR THR PRO GLU GLY VAL ALA ARG ARG TYR GLY GLY SEQRES 9 A 540 GLU TRP THR GLU GLU ALA GLY GLU ARG ALA ALA LEU SER SEQRES 10 A 540 GLU ARG LEU PHE ALA ASN LEU TRP GLY ARG LEU GLU GLY SEQRES 11 A 540 GLU GLU ARG LEU LEU TRP LEU TYR ARG GLU VAL GLU ARG SEQRES 12 A 540 PRO LEU SER ALA VAL LEU ALA HIS MET GLU ALA THR GLY SEQRES 13 A 540 VAL ARG LEU ASP VAL ALA TYR LEU ARG ALA LEU SER LEU SEQRES 14 A 540 GLU VAL ALA GLU GLU ILE ALA ARG LEU GLU ALA GLU VAL SEQRES 15 A 540 PHE ARG LEU ALA GLY HIS PRO PHE ASN LEU ASN SER ARG SEQRES 16 A 540 ASP GLN LEU GLU ARG VAL LEU PHE ASP GLU LEU GLY LEU SEQRES 17 A 540 PRO ALA ILE GLY LYS THR GLU LYS THR GLY LYS ARG SER SEQRES 18 A 540 THR SER ALA ALA VAL LEU GLU ALA LEU ARG GLU ALA HIS SEQRES 19 A 540 PRO ILE VAL GLU LYS ILE LEU GLN TYR ARG GLU LEU THR SEQRES 20 A 540 LYS LEU LYS SER THR TYR ILE ASP PRO LEU PRO ASP LEU SEQRES 21 A 540 ILE HIS PRO ARG THR GLY ARG LEU HIS THR ARG PHE ASN SEQRES 22 A 540 GLN THR ALA THR ALA THR GLY ARG LEU SER SER SER ASP SEQRES 23 A 540 PRO ASN LEU GLN ASN ILE PRO VAL ARG THR PRO LEU GLY SEQRES 24 A 540 GLN ARG ILE ARG ARG ALA PHE ILE ALA GLU GLU GLY TRP SEQRES 25 A 540 LEU LEU VAL ALA LEU ASP TYR SER GLN ILE GLU LEU ARG SEQRES 26 A 540 VAL LEU ALA HIS LEU SER GLY ASP GLU ASN LEU ILE ARG SEQRES 27 A 540 VAL PHE GLN GLU GLY ARG ASP ILE HIS THR GLU THR ALA SEQRES 28 A 540 SER TRP MET PHE GLY VAL PRO ARG GLU ALA VAL ASP PRO SEQRES 29 A 540 LEU MET ARG ARG ALA ALA LYS THR ILE ASN PHE GLY VAL SEQRES 30 A 540 LEU TYR GLY MET SER ALA HIS ARG LEU SER GLN GLU LEU SEQRES 31 A 540 ALA ILE PRO TYR GLU GLU ALA GLN ALA PHE ILE GLU ARG SEQRES 32 A 540 TYR PHE GLN SER PHE PRO LYS VAL ARG ALA TRP ILE GLU SEQRES 33 A 540 LYS THR LEU GLU GLU GLY ARG ARG ARG GLY TYR VAL GLU SEQRES 34 A 540 THR LEU PHE GLY ARG ARG ARG TYR VAL PRO ASP LEU GLU SEQRES 35 A 540 ALA ARG VAL LYS SER VAL ARG GLU ALA ALA GLU ARG MET SEQRES 36 A 540 ALA PHE ASN MET PRO VAL GLN GLY THR ALA ALA ASP LEU SEQRES 37 A 540 MET LYS LEU ALA MET VAL LYS LEU PHE PRO ARG LEU GLU SEQRES 38 A 540 GLU MET GLY ALA ARG MET LEU LEU GLN VAL HIS ASP GLU SEQRES 39 A 540 LEU VAL LEU GLU ALA PRO LYS GLU ARG ALA GLU ALA VAL SEQRES 40 A 540 ALA ARG LEU ALA LYS GLU VAL MET GLU GLY VAL TYR PRO SEQRES 41 A 540 LEU ALA VAL PRO LEU GLU VAL GLU VAL GLY ILE GLY GLU SEQRES 42 A 540 ASP TRP LEU SER ALA LYS GLU SEQRES 1 B 12 DG DA DC DC DA DC DG DG DC DG DC DOC SEQRES 1 C 16 DA DA DA 3DR DG DG DC DG DC DC DG DT DG SEQRES 2 C 16 DG DT DC MODRES 3RR7 DOC B 112 DC 2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE HET DOC B 112 18 HET 3DR C 204 11 HET FMT A 1 3 HET GOL A 833 6 HET GOL A 834 6 HET MG B 1 1 HET GOL C 1 6 HETNAM DOC 2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE HETNAM 3DR 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE HETNAM FMT FORMIC ACID HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETSYN 3DR ABASIC DIDEOXYRIBOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 DOC C9 H14 N3 O6 P FORMUL 3 3DR C5 H11 O6 P FORMUL 4 FMT C H2 O2 FORMUL 5 GOL 3(C3 H8 O3) FORMUL 7 MG MG 2+ FORMUL 9 HOH *350(H2 O) HELIX 1 1 GLU A 337 LEU A 342 1 6 HELIX 2 2 ARG A 343 LEU A 345 5 3 HELIX 3 3 LEU A 352 GLU A 363 1 12 HELIX 4 4 ASP A 372 ASP A 381 1 10 HELIX 5 5 THR A 386 GLY A 395 1 10 HELIX 6 6 GLU A 401 LEU A 420 1 20 HELIX 7 7 GLU A 423 VAL A 433 1 11 HELIX 8 8 VAL A 433 GLY A 448 1 16 HELIX 9 9 ASP A 452 ALA A 478 1 27 HELIX 10 10 SER A 486 ASP A 496 1 11 HELIX 11 11 SER A 515 LEU A 522 1 8 HELIX 12 12 HIS A 526 TYR A 545 1 20 HELIX 13 13 PRO A 548 ILE A 553 5 6 HELIX 14 14 THR A 588 ARG A 596 1 9 HELIX 15 15 GLN A 613 GLY A 624 1 12 HELIX 16 16 ASP A 625 GLU A 634 1 10 HELIX 17 17 ALA A 662 PHE A 667 1 6 HELIX 18 18 GLY A 668 GLY A 672 5 5 HELIX 19 19 GLU A 688 ALA A 691 5 4 HELIX 20 20 PHE A 692 PHE A 700 1 9 HELIX 21 21 PHE A 700 GLY A 718 1 19 HELIX 22 22 PRO A 731 ALA A 735 5 5 HELIX 23 23 VAL A 737 MET A 775 1 39 HELIX 24 24 ARG A 795 GLY A 809 1 15 SHEET 1 A 4 GLU A 296 ALA A 297 0 SHEET 2 A 4 ARG A 331 ARG A 334 1 O VAL A 332 N ALA A 297 SHEET 3 A 4 LEU A 321 ARG A 328 -1 N ALA A 326 O HIS A 333 SHEET 4 A 4 PHE A 306 LEU A 311 -1 N PHE A 306 O ALA A 327 SHEET 1 B 2 ARG A 450 LEU A 451 0 SHEET 2 B 2 PHE A 598 ILE A 599 -1 O ILE A 599 N ARG A 450 SHEET 1 C 2 ARG A 563 ASN A 565 0 SHEET 2 C 2 SER A 575 SER A 577 -1 O SER A 575 N ASN A 565 SHEET 1 D 4 ARG A 778 GLN A 782 0 SHEET 2 D 4 GLU A 786 PRO A 792 -1 O GLU A 790 N ARG A 778 SHEET 3 D 4 TRP A 604 TYR A 611 -1 N VAL A 607 O LEU A 789 SHEET 4 D 4 VAL A 819 GLY A 824 -1 O GLU A 820 N ASP A 610 SHEET 1 E 2 TYR A 719 GLU A 721 0 SHEET 2 E 2 ARG A 727 TYR A 729 -1 O ARG A 728 N VAL A 720 LINK O3' DC B 111 P DOC B 112 1555 1555 1.60 LINK O3' DA C 203 P 3DR C 204 1555 1555 1.61 LINK O3' 3DR C 204 P DG C 205 1555 1555 1.61 LINK MG MG B 1 O HOH B 61 1555 1555 2.09 LINK MG MG B 1 O HOH B 74 1555 1555 2.09 LINK MG MG B 1 O HOH B 115 1555 1555 2.06 LINK MG MG B 1 O HOH B 116 1555 1555 2.07 LINK MG MG B 1 O HOH B 117 1555 1555 2.06 LINK MG MG B 1 O HOH B 318 1555 1555 2.08 CISPEP 1 TRP A 299 PRO A 300 0 1.84 CISPEP 2 ASP A 578 PRO A 579 0 -1.58 SITE 1 AC1 1 HOH A 41 SITE 1 AC2 4 ARG A 587 DG B 110 DC B 111 HOH B 286 SITE 1 AC3 5 HOH A 119 TYR A 611 ASP A 785 GLU A 786 SITE 2 AC3 5 DOC B 112 SITE 1 AC4 6 HOH B 61 HOH B 74 HOH B 115 HOH B 116 SITE 2 AC4 6 HOH B 117 HOH B 318 SITE 1 AC5 7 HOH B 55 DA C 203 3DR C 204 DG C 205 SITE 2 AC5 7 DG C 206 HOH C 231 HOH C 260 CRYST1 109.460 109.460 90.427 90.00 90.00 120.00 P 31 2 1 6 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 0.009136 0.005275 0.000000 0.00000 SCALE2 0.000000 0.010549 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011059 0.00000