HEADER TRANSFERASE/DNA 27-JAN-22 7TQW TITLE KOD RSGA INCORPORATING PMT, N+2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TEMPLATE; COMPND 8 CHAIN: T; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: PRIMER; COMPND 12 CHAIN: P; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS; SOURCE 3 ORGANISM_TAXID: 311400; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 9 ORGANISM_TAXID: 32630; SOURCE 10 MOL_ID: 3; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS POLYMERASE, TRANSFERASE, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.HAJJAR,N.CHIM,J.C.CHAPUT REVDAT 4 18-OCT-23 7TQW 1 REMARK REVDAT 3 05-OCT-22 7TQW 1 JRNL REVDAT 2 28-SEP-22 7TQW 1 JRNL REVDAT 1 31-AUG-22 7TQW 0 JRNL AUTH M.HAJJAR,N.CHIM,C.LIU,P.HERDEWIJN,J.C.CHAPUT JRNL TITL CRYSTALLOGRAPHIC ANALYSIS OF ENGINEERED POLYMERASES JRNL TITL 2 SYNTHESIZING PHOSPHONOMETHYLTHREOSYL NUCLEIC ACID. JRNL REF NUCLEIC ACIDS RES. V. 50 9663 2022 JRNL REFN ESSN 1362-4962 JRNL PMID 36124684 JRNL DOI 10.1093/NAR/GKAC792 REMARK 2 REMARK 2 RESOLUTION. 3.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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) : 3.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 3 NUMBER OF REFLECTIONS : 19492 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1951 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 44.0360 - 7.2446 0.86 1265 141 0.1661 0.2295 REMARK 3 2 7.2446 - 5.7543 0.89 1254 139 0.1806 0.2507 REMARK 3 3 5.7543 - 5.0281 0.89 1236 138 0.1600 0.2591 REMARK 3 4 5.0281 - 4.5689 0.91 1231 136 0.1451 0.2465 REMARK 3 5 4.5689 - 4.2417 0.92 1258 141 0.1362 0.2193 REMARK 3 6 4.2417 - 3.9918 0.93 1251 139 0.1489 0.2461 REMARK 3 7 3.9918 - 3.7920 0.93 1249 139 0.1615 0.2696 REMARK 3 8 3.7920 - 3.6270 0.93 1279 141 0.1813 0.3023 REMARK 3 9 3.6270 - 3.4874 0.92 1228 137 0.2078 0.2861 REMARK 3 10 3.4874 - 3.3671 0.93 1244 139 0.2010 0.3274 REMARK 3 11 3.3671 - 3.2619 0.94 1281 142 0.2110 0.3363 REMARK 3 12 3.2619 - 3.1687 0.94 1246 139 0.2305 0.3204 REMARK 3 13 3.1687 - 3.0853 0.95 1256 140 0.2374 0.3396 REMARK 3 14 3.0853 - 3.0100 0.95 1263 140 0.2627 0.3738 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.450 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 54.99 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 56.4674 134.8158 182.6921 REMARK 3 T TENSOR REMARK 3 T11: 0.2311 T22: 0.2965 REMARK 3 T33: 0.3833 T12: 0.0238 REMARK 3 T13: 0.0118 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.1462 L22: 0.2061 REMARK 3 L33: -0.1452 L12: 0.0310 REMARK 3 L13: 0.0996 L23: 0.0128 REMARK 3 S TENSOR REMARK 3 S11: -0.0612 S12: 0.0254 S13: -0.0725 REMARK 3 S21: 0.0614 S22: -0.0215 S23: 0.1428 REMARK 3 S31: -0.0886 S32: 0.0926 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 214 ) REMARK 3 ORIGIN FOR THE GROUP (A): 84.9539 117.6961 175.1796 REMARK 3 T TENSOR REMARK 3 T11: 0.3030 T22: 0.2931 REMARK 3 T33: 0.2879 T12: 0.0431 REMARK 3 T13: 0.0407 T23: -0.0147 REMARK 3 L TENSOR REMARK 3 L11: 0.4466 L22: 0.5379 REMARK 3 L33: 0.0306 L12: -0.0062 REMARK 3 L13: -0.1716 L23: -0.3084 REMARK 3 S TENSOR REMARK 3 S11: 0.0826 S12: 0.0179 S13: 0.1061 REMARK 3 S21: -0.3976 S22: -0.0321 S23: -0.3162 REMARK 3 S31: 0.0492 S32: -0.0746 S33: 0.0001 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 215 THROUGH 337 ) REMARK 3 ORIGIN FOR THE GROUP (A): 87.4544 121.7929 169.0404 REMARK 3 T TENSOR REMARK 3 T11: 0.3500 T22: 0.3282 REMARK 3 T33: 0.3135 T12: 0.0083 REMARK 3 T13: 0.0662 T23: 0.0420 REMARK 3 L TENSOR REMARK 3 L11: 0.2289 L22: 0.4750 REMARK 3 L33: 0.3626 L12: -0.1373 REMARK 3 L13: 0.3031 L23: 0.1379 REMARK 3 S TENSOR REMARK 3 S11: 0.1008 S12: 0.0472 S13: 0.0770 REMARK 3 S21: -0.2992 S22: -0.0402 S23: -0.1823 REMARK 3 S31: -0.0330 S32: -0.0479 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 338 THROUGH 552 ) REMARK 3 ORIGIN FOR THE GROUP (A): 78.7251 156.1702 168.8139 REMARK 3 T TENSOR REMARK 3 T11: 0.2780 T22: 0.3211 REMARK 3 T33: 0.2812 T12: 0.0117 REMARK 3 T13: 0.0678 T23: -0.0163 REMARK 3 L TENSOR REMARK 3 L11: 0.4289 L22: 0.4038 REMARK 3 L33: 0.0557 L12: 0.2070 REMARK 3 L13: 0.3395 L23: -0.3127 REMARK 3 S TENSOR REMARK 3 S11: 0.0450 S12: -0.0588 S13: -0.0602 REMARK 3 S21: -0.1062 S22: 0.0480 S23: 0.0087 REMARK 3 S31: -0.0368 S32: -0.0102 S33: -0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 553 THROUGH 756 ) REMARK 3 ORIGIN FOR THE GROUP (A): 96.5040 143.3102 148.4251 REMARK 3 T TENSOR REMARK 3 T11: 0.3661 T22: 0.3495 REMARK 3 T33: 0.2364 T12: 0.0057 REMARK 3 T13: 0.0829 T23: -0.0290 REMARK 3 L TENSOR REMARK 3 L11: 0.7376 L22: 0.7578 REMARK 3 L33: 0.7565 L12: -0.2499 REMARK 3 L13: -0.2179 L23: -0.5348 REMARK 3 S TENSOR REMARK 3 S11: 0.0353 S12: -0.0086 S13: -0.0581 REMARK 3 S21: -0.0671 S22: -0.0007 S23: -0.1812 REMARK 3 S31: 0.1329 S32: 0.0683 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'T' AND (RESID 2 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 79.6098 144.6537 143.8253 REMARK 3 T TENSOR REMARK 3 T11: 0.4483 T22: 0.4530 REMARK 3 T33: 0.3468 T12: 0.0928 REMARK 3 T13: -0.0277 T23: -0.0791 REMARK 3 L TENSOR REMARK 3 L11: 0.1912 L22: 0.1879 REMARK 3 L33: 0.0675 L12: 0.1995 REMARK 3 L13: -0.1524 L23: -0.1127 REMARK 3 S TENSOR REMARK 3 S11: 0.3011 S12: 0.2662 S13: 0.0858 REMARK 3 S21: -0.0622 S22: 0.2320 S23: 0.5268 REMARK 3 S31: -0.1169 S32: 0.1797 S33: 0.1001 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 1 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A): 80.9858 143.5227 137.8160 REMARK 3 T TENSOR REMARK 3 T11: 0.6841 T22: 0.7392 REMARK 3 T33: 0.4946 T12: 0.1434 REMARK 3 T13: 0.0032 T23: 0.0805 REMARK 3 L TENSOR REMARK 3 L11: 0.0888 L22: 0.0055 REMARK 3 L33: 0.0331 L12: 0.0287 REMARK 3 L13: 0.0668 L23: 0.0166 REMARK 3 S TENSOR REMARK 3 S11: 0.3546 S12: 0.4884 S13: -0.0715 REMARK 3 S21: 0.0071 S22: 0.0253 S23: -0.2077 REMARK 3 S31: -0.4132 S32: 0.1368 S33: -0.0005 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 7TQW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1000262694. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47878 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.216 REMARK 200 RESOLUTION RANGE LOW (A) : 64.480 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.1 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : 0.24620 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.5200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.22 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 48.7 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 2.35400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER REMARK 200 STARTING MODEL: 7RSR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8K, MOPS, MAGNESIUM ACETATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.76100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.13400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.76100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 72.13400 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: 4840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P 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 TYR A 757 REMARK 465 GLN A 758 REMARK 465 LYS A 759 REMARK 465 THR A 760 REMARK 465 ARG A 761 REMARK 465 GLN A 762 REMARK 465 VAL A 763 REMARK 465 GLY A 764 REMARK 465 LEU A 765 REMARK 465 SER A 766 REMARK 465 ALA A 767 REMARK 465 TRP A 768 REMARK 465 LEU A 769 REMARK 465 LYS A 770 REMARK 465 PRO A 771 REMARK 465 LYS A 772 REMARK 465 GLY A 773 REMARK 465 THR A 774 REMARK 465 DA T 1 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 ASP A 141 CG OD1 OD2 REMARK 470 GLU A 143 CG CD OE1 OE2 REMARK 470 DA T 2 OP1 REMARK 470 DG T 16 OP1 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 OG SER A 419 OD1 ASP A 421 2.11 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 T 8 O3' DC T 8 C3' -0.039 REMARK 500 DA T 9 O3' DA T 9 C3' -0.038 REMARK 500 DG P 9 O3' DG P 9 C3' -0.043 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 T 6 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG T 7 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DC P 10 O4' - C1' - N1 ANGL. DEV. = 2.2 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 ASN A 23 65.12 66.39 REMARK 500 SER A 46 -7.11 -58.60 REMARK 500 ARG A 58 -108.57 -111.62 REMARK 500 HIS A 59 75.17 -105.91 REMARK 500 PRO A 115 116.56 -37.56 REMARK 500 ILE A 122 -89.16 -61.45 REMARK 500 ASP A 123 -34.89 -30.78 REMARK 500 ASP A 164 -159.80 -159.10 REMARK 500 PHE A 214 -71.05 -124.14 REMARK 500 PHE A 230 57.58 -93.93 REMARK 500 PRO A 239 121.09 -37.96 REMARK 500 ARG A 247 -161.66 -109.40 REMARK 500 ASN A 370 -175.63 -69.63 REMARK 500 ARG A 380 42.72 -86.96 REMARK 500 ASN A 399 85.79 52.84 REMARK 500 ARG A 406 96.33 -68.17 REMARK 500 LEU A 423 103.82 -41.14 REMARK 500 GLN A 436 -36.28 64.87 REMARK 500 THR A 541 -70.00 63.12 REMARK 500 GLU A 576 109.98 -177.47 REMARK 500 ALA A 595 113.53 -170.29 REMARK 500 ILE A 610 -2.37 -52.62 REMARK 500 ILE A 733 -62.16 -91.96 REMARK 500 GLN A 736 -50.83 -136.17 REMARK 500 PRO A 739 -6.48 -58.63 REMARK 500 ALA A 747 2.70 -60.44 REMARK 500 LYS A 752 -37.50 -36.77 REMARK 500 ASP A 754 34.77 -98.24 REMARK 500 REMARK 500 REMARK: NULL DBREF 7TQW A 1 774 UNP D0VWU9 D0VWU9_THEKO 1 774 DBREF 7TQW T 1 16 PDB 7TQW 7TQW 1 16 DBREF 7TQW P 1 13 PDB 7TQW 7TQW 1 13 SEQADV 7TQW HIS A 147 UNP D0VWU9 GLU 147 CONFLICT SEQADV 7TQW ARG A 485 UNP D0VWU9 ALA 485 CONFLICT SEQADV 7TQW SER A 491 UNP D0VWU9 ASN 491 CONFLICT SEQADV 7TQW LYS A 584 UNP D0VWU9 GLU 584 CONFLICT SEQADV 7TQW GLY A 606 UNP D0VWU9 ARG 606 CONFLICT SEQADV 7TQW ALA A 723 UNP D0VWU9 THR 723 CONFLICT SEQRES 1 A 774 MET ILE LEU ASP THR ASP TYR ILE THR GLU ASP GLY LYS SEQRES 2 A 774 PRO VAL ILE ARG ILE PHE LYS LYS GLU ASN GLY GLU PHE SEQRES 3 A 774 LYS ILE GLU TYR ASP ARG THR PHE GLU PRO TYR PHE TYR SEQRES 4 A 774 ALA LEU LEU LYS ASP ASP SER ALA ILE GLU GLU VAL LYS SEQRES 5 A 774 LYS ILE THR ALA GLU ARG HIS GLY THR VAL VAL THR VAL SEQRES 6 A 774 LYS ARG VAL GLU LYS VAL GLN LYS LYS PHE LEU GLY ARG SEQRES 7 A 774 PRO VAL GLU VAL TRP LYS LEU TYR PHE THR HIS PRO GLN SEQRES 8 A 774 ASP VAL PRO ALA ILE ARG ASP LYS ILE ARG GLU HIS PRO SEQRES 9 A 774 ALA VAL ILE ASP ILE TYR GLU TYR ASP ILE PRO PHE ALA SEQRES 10 A 774 LYS ARG TYR LEU ILE ASP LYS GLY LEU VAL PRO MET GLU SEQRES 11 A 774 GLY ASP GLU GLU LEU LYS MET LEU ALA PHE ASP ILE GLU SEQRES 12 A 774 THR LEU TYR HIS GLU GLY GLU GLU PHE ALA GLU GLY PRO SEQRES 13 A 774 ILE LEU MET ILE SER TYR ALA ASP GLU GLU GLY ALA ARG SEQRES 14 A 774 VAL ILE THR TRP LYS ASN VAL ASP LEU PRO TYR VAL ASP SEQRES 15 A 774 VAL VAL SER THR GLU ARG GLU MET ILE LYS ARG PHE LEU SEQRES 16 A 774 ARG VAL VAL LYS GLU LYS ASP PRO ASP VAL LEU ILE THR SEQRES 17 A 774 TYR ASN GLY ASP ASN PHE ASP PHE ALA TYR LEU LYS LYS SEQRES 18 A 774 ARG CYS GLU LYS LEU GLY ILE ASN PHE ALA LEU GLY ARG SEQRES 19 A 774 ASP GLY SER GLU PRO LYS ILE GLN ARG MET GLY ASP ARG SEQRES 20 A 774 PHE ALA VAL GLU VAL LYS GLY ARG ILE HIS PHE ASP LEU SEQRES 21 A 774 TYR PRO VAL ILE ARG ARG THR ILE ASN LEU PRO THR TYR SEQRES 22 A 774 THR LEU GLU ALA VAL TYR GLU ALA VAL PHE GLY GLN PRO SEQRES 23 A 774 LYS GLU LYS VAL TYR ALA GLU GLU ILE THR THR ALA TRP SEQRES 24 A 774 GLU THR GLY GLU ASN LEU GLU ARG VAL ALA ARG TYR SER SEQRES 25 A 774 MET GLU ASP ALA LYS VAL THR TYR GLU LEU GLY LYS GLU SEQRES 26 A 774 PHE LEU PRO MET GLU ALA GLN LEU SER ARG LEU ILE GLY SEQRES 27 A 774 GLN SER LEU TRP ASP VAL SER ARG SER SER THR GLY ASN SEQRES 28 A 774 LEU VAL GLU TRP PHE LEU LEU ARG LYS ALA TYR GLU ARG SEQRES 29 A 774 ASN GLU LEU ALA PRO ASN LYS PRO ASP GLU LYS GLU LEU SEQRES 30 A 774 ALA ARG ARG ARG GLN SER TYR GLU GLY GLY TYR VAL LYS SEQRES 31 A 774 GLU PRO GLU ARG GLY LEU TRP GLU ASN ILE VAL TYR LEU SEQRES 32 A 774 ASP PHE ARG SER LEU TYR PRO SER ILE ILE ILE THR HIS SEQRES 33 A 774 ASN VAL SER PRO ASP THR LEU ASN ARG GLU GLY CYS LYS SEQRES 34 A 774 GLU TYR ASP VAL ALA PRO GLN VAL GLY HIS ARG PHE CYS SEQRES 35 A 774 LYS ASP PHE PRO GLY PHE ILE PRO SER LEU LEU GLY ASP SEQRES 36 A 774 LEU LEU GLU GLU ARG GLN LYS ILE LYS LYS LYS MET LYS SEQRES 37 A 774 ALA THR ILE ASP PRO ILE GLU ARG LYS LEU LEU ASP TYR SEQRES 38 A 774 ARG GLN ARG ARG ILE LYS ILE LEU ALA SER SER TYR TYR SEQRES 39 A 774 GLY TYR TYR GLY TYR ALA ARG ALA ARG TRP TYR CYS LYS SEQRES 40 A 774 GLU CYS ALA GLU SER VAL THR ALA TRP GLY ARG GLU TYR SEQRES 41 A 774 ILE THR MET THR ILE LYS GLU ILE GLU GLU LYS TYR GLY SEQRES 42 A 774 PHE LYS VAL ILE TYR SER ASP THR ASP GLY PHE PHE ALA SEQRES 43 A 774 THR ILE PRO GLY ALA ASP ALA GLU THR VAL LYS LYS LYS SEQRES 44 A 774 ALA MET GLU PHE LEU LYS TYR ILE ASN ALA LYS LEU PRO SEQRES 45 A 774 GLY ALA LEU GLU LEU GLU TYR GLU GLY PHE TYR LYS ARG SEQRES 46 A 774 GLY PHE PHE VAL THR LYS LYS LYS TYR ALA VAL ILE ASP SEQRES 47 A 774 GLU GLU GLY LYS ILE THR THR GLY GLY LEU GLU ILE VAL SEQRES 48 A 774 ARG ARG ASP TRP SER GLU ILE ALA LYS GLU THR GLN ALA SEQRES 49 A 774 ARG VAL LEU GLU ALA LEU LEU LYS ASP GLY ASP VAL GLU SEQRES 50 A 774 LYS ALA VAL ARG ILE VAL LYS GLU VAL THR GLU LYS LEU SEQRES 51 A 774 SER LYS TYR GLU VAL PRO PRO GLU LYS LEU VAL ILE HIS SEQRES 52 A 774 GLU GLN ILE THR ARG ASP LEU LYS ASP TYR LYS ALA THR SEQRES 53 A 774 GLY PRO HIS VAL ALA VAL ALA LYS ARG LEU ALA ALA ARG SEQRES 54 A 774 GLY VAL LYS ILE ARG PRO GLY THR VAL ILE SER TYR ILE SEQRES 55 A 774 VAL LEU LYS GLY SER GLY ARG ILE GLY ASP ARG ALA ILE SEQRES 56 A 774 PRO PHE ASP GLU PHE ASP PRO ALA LYS HIS LYS TYR ASP SEQRES 57 A 774 ALA GLU TYR TYR ILE GLU ASN GLN VAL LEU PRO ALA VAL SEQRES 58 A 774 GLU ARG ILE LEU ARG ALA PHE GLY TYR ARG LYS GLU ASP SEQRES 59 A 774 LEU ARG TYR GLN LYS THR ARG GLN VAL GLY LEU SER ALA SEQRES 60 A 774 TRP LEU LYS PRO LYS GLY THR SEQRES 1 T 16 DA DA DA DT DT DC DG DC DA DG DT DT DC SEQRES 2 T 16 DG DC DG SEQRES 1 P 13 DC DG DC DG DA DA DC DT DG DC DG 7TE 7TE HET 7TE P 12 21 HET 7TE P 13 21 HETNAM 7TE (S)-({[(3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-4- HETNAM 2 7TE HYDROXYOXOLAN-3-YL]OXY}METHYL)PHOSPHINIC ACID FORMUL 3 7TE 2(C10 H14 N5 O6 P) HELIX 1 AA1 ASP A 44 SER A 46 5 3 HELIX 2 AA2 ALA A 47 LYS A 53 1 7 HELIX 3 AA3 GLN A 91 GLU A 102 1 12 HELIX 4 AA4 PRO A 115 LYS A 124 1 10 HELIX 5 AA5 THR A 186 ASP A 202 1 17 HELIX 6 AA6 PHE A 214 LEU A 226 1 13 HELIX 7 AA7 LEU A 260 ILE A 268 1 9 HELIX 8 AA8 THR A 274 GLY A 284 1 11 HELIX 9 AA9 TYR A 291 THR A 301 1 11 HELIX 10 AB1 ASN A 304 GLY A 338 1 35 HELIX 11 AB2 SER A 340 ARG A 346 1 7 HELIX 12 AB3 SER A 348 ARG A 364 1 17 HELIX 13 AB4 ASP A 373 ARG A 380 1 8 HELIX 14 AB5 SER A 407 ASN A 417 1 11 HELIX 15 AB6 GLY A 447 ALA A 469 1 23 HELIX 16 AB7 ASP A 472 SER A 491 1 20 HELIX 17 AB8 SER A 492 TYR A 499 1 8 HELIX 18 AB9 CYS A 506 GLU A 530 1 25 HELIX 19 AC1 ASP A 552 LEU A 571 1 20 HELIX 20 AC2 LEU A 608 ARG A 612 5 5 HELIX 21 AC3 SER A 616 LYS A 632 1 17 HELIX 22 AC4 GLU A 637 LYS A 652 1 16 HELIX 23 AC5 PRO A 656 LEU A 660 5 5 HELIX 24 AC6 ASP A 669 TYR A 673 5 5 HELIX 25 AC7 GLY A 677 ALA A 688 1 12 HELIX 26 AC8 ILE A 710 ASP A 712 5 3 HELIX 27 AC9 ASP A 718 PHE A 720 5 3 HELIX 28 AD1 ASP A 721 HIS A 725 5 5 HELIX 29 AD2 ASP A 728 ASN A 735 1 8 HELIX 30 AD3 VAL A 737 ARG A 746 1 10 HELIX 31 AD4 ALA A 747 GLY A 749 5 3 HELIX 32 AD5 ARG A 751 LEU A 755 5 5 SHEET 1 AA1 3 ILE A 2 GLU A 10 0 SHEET 2 AA1 3 LYS A 13 GLU A 22 -1 O PHE A 19 N LEU A 3 SHEET 3 AA1 3 GLU A 25 ASP A 31 -1 O LYS A 27 N LYS A 20 SHEET 1 AA2 4 VAL A 68 PHE A 75 0 SHEET 2 AA2 4 ARG A 78 TYR A 86 -1 O LYS A 84 N GLU A 69 SHEET 3 AA2 4 TYR A 37 LEU A 42 -1 N PHE A 38 O LEU A 85 SHEET 4 AA2 4 VAL A 106 TYR A 110 -1 O TYR A 110 N TYR A 39 SHEET 1 AA3 2 THR A 55 GLU A 57 0 SHEET 2 AA3 2 VAL A 62 THR A 64 -1 O VAL A 63 N ALA A 56 SHEET 1 AA4 6 VAL A 181 VAL A 183 0 SHEET 2 AA4 6 GLY A 167 THR A 172 1 N VAL A 170 O ASP A 182 SHEET 3 AA4 6 ILE A 157 ASP A 164 -1 N ILE A 160 O ILE A 171 SHEET 4 AA4 6 MET A 137 THR A 144 -1 N ASP A 141 O SER A 161 SHEET 5 AA4 6 VAL A 205 THR A 208 1 O VAL A 205 N LEU A 138 SHEET 6 AA4 6 ILE A 256 ASP A 259 1 O PHE A 258 N LEU A 206 SHEET 1 AA5 2 LYS A 240 MET A 244 0 SHEET 2 AA5 2 ARG A 247 GLU A 251 -1 O ALA A 249 N GLN A 242 SHEET 1 AA6 6 LYS A 535 ASP A 540 0 SHEET 2 AA6 6 GLY A 543 THR A 547 -1 O THR A 547 N LYS A 535 SHEET 3 AA6 6 GLY A 395 PHE A 405 -1 N LEU A 403 O PHE A 544 SHEET 4 AA6 6 LEU A 577 THR A 590 -1 O GLU A 578 N ASP A 404 SHEET 5 AA6 6 LYS A 593 ILE A 597 -1 O LYS A 593 N VAL A 589 SHEET 6 AA6 6 ILE A 603 GLY A 606 -1 O GLY A 606 N TYR A 594 SHEET 1 AA7 2 TYR A 431 VAL A 433 0 SHEET 2 AA7 2 ARG A 440 CYS A 442 -1 O PHE A 441 N ASP A 432 SHEET 1 AA8 3 ILE A 662 GLN A 665 0 SHEET 2 AA8 3 VAL A 698 VAL A 703 -1 O TYR A 701 N ILE A 662 SHEET 3 AA8 3 ALA A 714 PRO A 716 -1 O ILE A 715 N ILE A 702 SSBOND 1 CYS A 428 CYS A 442 1555 1555 2.07 LINK O3' DG P 11 P 7TE P 12 1555 1555 1.56 LINK O2' 7TE P 12 P 7TE P 13 1555 1555 1.55 CRYST1 64.136 111.522 144.268 90.00 90.00 90.00 P 2 21 21 4 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 0.015592 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008967 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006932 0.00000