HEADER REPLICATION, HYDROLASE/DNA 29-AUG-25 9Y17 TITLE WT HUMAN DNA POLYMERASE BETA, BINARY COMPLEX TEMPLATING DT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE BETA; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7,4.2.99.-; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TEMPLATE STRAND; COMPND 8 CHAIN: T; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: PRIMER STRAND; COMPND 12 CHAIN: P; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: DOWNSTREAM; COMPND 16 CHAIN: D; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: POLB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630; SOURCE 16 MOL_ID: 4; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 19 ORGANISM_TAXID: 32630 KEYWDS POLYMERASE, REPLICATION, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.E.ECKENROTH,S.DOUBLIE REVDAT 1 28-JAN-26 9Y17 0 JRNL AUTH D.L.SAWYER,B.E.ECKENROTH,C.CHAVIRA,K.ALNAJJAR,J.P.HANLEY, JRNL AUTH 2 J.A.DRAGON,S.DOUBLIE,J.B.SWEASY JRNL TITL THE S180R HUMAN GERMLINE VARIANT OF DNA POLYMERASE BETA IS A JRNL TITL 2 LOW FIDELITY ENZYME WITH REDUCED FLEXIBILITY OF THE FINGERS JRNL TITL 3 DOMAIN. JRNL REF BIOCHEMISTRY 2026 JRNL REFN ISSN 0006-2960 JRNL PMID 41524291 JRNL DOI 10.1021/ACS.BIOCHEM.5C00628 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.58 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 74142 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.180 REMARK 3 FREE R VALUE TEST SET COUNT : 7546 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 23.5800 - 5.7200 0.99 2251 219 0.1424 0.1770 REMARK 3 2 5.7200 - 4.5500 1.00 2197 282 0.1406 0.1585 REMARK 3 3 4.5500 - 3.9800 1.00 2249 253 0.1282 0.1697 REMARK 3 4 3.9800 - 3.6200 1.00 2258 221 0.1390 0.1487 REMARK 3 5 3.6200 - 3.3600 1.00 2242 238 0.1455 0.1798 REMARK 3 6 3.3600 - 3.1600 1.00 2212 255 0.1500 0.1701 REMARK 3 7 3.1600 - 3.0000 1.00 2214 271 0.1736 0.2067 REMARK 3 8 3.0000 - 2.8700 1.00 2201 293 0.1841 0.2532 REMARK 3 9 2.8700 - 2.7600 1.00 2237 252 0.1805 0.2146 REMARK 3 10 2.7600 - 2.6700 1.00 2196 283 0.1783 0.2472 REMARK 3 11 2.6700 - 2.5800 1.00 2207 230 0.1763 0.2215 REMARK 3 12 2.5800 - 2.5100 0.99 2270 284 0.1698 0.2362 REMARK 3 13 2.5100 - 2.4400 1.00 2254 207 0.1838 0.2278 REMARK 3 14 2.4400 - 2.3800 0.99 2211 217 0.1777 0.2566 REMARK 3 15 2.3800 - 2.3300 1.00 2282 238 0.1781 0.2419 REMARK 3 16 2.3300 - 2.2800 0.99 2162 276 0.1698 0.1945 REMARK 3 17 2.2800 - 2.2400 0.99 2238 269 0.1730 0.2360 REMARK 3 18 2.2400 - 2.1900 1.00 2201 250 0.1752 0.2142 REMARK 3 19 2.1900 - 2.1500 0.99 2215 241 0.1754 0.2328 REMARK 3 20 2.1500 - 2.1200 0.99 2261 253 0.1796 0.2367 REMARK 3 21 2.1200 - 2.0800 1.00 2177 233 0.1751 0.2170 REMARK 3 22 2.0800 - 2.0500 0.99 2284 276 0.1793 0.2480 REMARK 3 23 2.0500 - 2.0200 1.00 2178 225 0.1883 0.2146 REMARK 3 24 2.0200 - 1.9900 0.99 2241 260 0.1862 0.2430 REMARK 3 25 1.9900 - 1.9700 0.99 2219 267 0.1818 0.2325 REMARK 3 26 1.9700 - 1.9400 0.98 2167 256 0.2058 0.2679 REMARK 3 27 1.9400 - 1.9200 0.98 2134 263 0.2009 0.2436 REMARK 3 28 1.9200 - 1.8900 0.98 2254 256 0.2076 0.2459 REMARK 3 29 1.8900 - 1.8700 0.99 2186 230 0.2114 0.2562 REMARK 3 30 1.8700 - 1.8500 0.98 2198 248 0.2260 0.2739 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.007 3324 REMARK 3 ANGLE : 0.884 4613 REMARK 3 CHIRALITY : 0.051 510 REMARK 3 PLANARITY : 0.009 484 REMARK 3 DIHEDRAL : 19.492 1311 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 12:90 REMARK 3 ORIGIN FOR THE GROUP (A): 32.0187 -4.3569 9.7213 REMARK 3 T TENSOR REMARK 3 T11: 0.1342 T22: 0.0859 REMARK 3 T33: 0.1143 T12: -0.0224 REMARK 3 T13: 0.0101 T23: 0.0200 REMARK 3 L TENSOR REMARK 3 L11: 1.2350 L22: 2.6426 REMARK 3 L33: 1.4197 L12: -0.1641 REMARK 3 L13: 0.0517 L23: 0.7141 REMARK 3 S TENSOR REMARK 3 S11: 0.0084 S12: -0.0932 S13: -0.2038 REMARK 3 S21: -0.0106 S22: 0.0225 S23: -0.1303 REMARK 3 S31: 0.1873 S32: -0.1240 S33: -0.0310 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 91:150 REMARK 3 ORIGIN FOR THE GROUP (A): 22.0565 9.4452 29.0450 REMARK 3 T TENSOR REMARK 3 T11: 0.0852 T22: 0.1446 REMARK 3 T33: 0.1031 T12: -0.0077 REMARK 3 T13: -0.0072 T23: 0.0141 REMARK 3 L TENSOR REMARK 3 L11: 2.8225 L22: 1.0110 REMARK 3 L33: 1.5514 L12: 0.1962 REMARK 3 L13: -0.4861 L23: -0.0131 REMARK 3 S TENSOR REMARK 3 S11: 0.0996 S12: -0.5536 S13: -0.0972 REMARK 3 S21: 0.0904 S22: -0.0197 S23: -0.0454 REMARK 3 S31: 0.0178 S32: 0.1653 S33: -0.0698 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESID 151:260 REMARK 3 ORIGIN FOR THE GROUP (A): -1.4570 7.8045 18.3537 REMARK 3 T TENSOR REMARK 3 T11: 0.0537 T22: 0.0917 REMARK 3 T33: 0.1212 T12: -0.0214 REMARK 3 T13: 0.0113 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 2.9843 L22: 1.8613 REMARK 3 L33: 2.1748 L12: 0.4247 REMARK 3 L13: 0.3330 L23: 0.2420 REMARK 3 S TENSOR REMARK 3 S11: 0.0818 S12: -0.0333 S13: -0.0874 REMARK 3 S21: -0.0166 S22: -0.0162 S23: 0.0144 REMARK 3 S31: 0.0146 S32: -0.1218 S33: -0.0468 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESID 261:335 REMARK 3 ORIGIN FOR THE GROUP (A): 4.1564 7.1013 -4.8585 REMARK 3 T TENSOR REMARK 3 T11: 0.4868 T22: 0.6595 REMARK 3 T33: 0.2121 T12: -0.2916 REMARK 3 T13: 0.0647 T23: -0.2349 REMARK 3 L TENSOR REMARK 3 L11: 0.4524 L22: 0.5161 REMARK 3 L33: 0.6512 L12: 0.1131 REMARK 3 L13: 0.0408 L23: -0.1830 REMARK 3 S TENSOR REMARK 3 S11: -0.2734 S12: 0.5943 S13: -0.2672 REMARK 3 S21: -0.6587 S22: 0.4234 S23: -0.2720 REMARK 3 S31: 0.1595 S32: 0.1665 S33: -0.0873 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ((CHAIN T AND RESID 1:5) OR (CHAIN D AND RESID 1:5)) REMARK 3 ORIGIN FOR THE GROUP (A): 31.5541 9.3388 -3.2796 REMARK 3 T TENSOR REMARK 3 T11: 0.1341 T22: 0.1020 REMARK 3 T33: 0.0918 T12: 0.0046 REMARK 3 T13: 0.0170 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 2.8781 L22: 3.5679 REMARK 3 L33: 4.0536 L12: -0.7942 REMARK 3 L13: -0.0866 L23: -0.7945 REMARK 3 S TENSOR REMARK 3 S11: 0.0405 S12: 0.2639 S13: 0.2413 REMARK 3 S21: -0.1802 S22: 0.0985 S23: -0.0570 REMARK 3 S31: -0.1205 S32: 0.0243 S33: -0.1200 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ((CHAIN T AND RESID 7:11) OR (CHAIN P AND RESID REMARK 3 6:10)) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3184 17.0023 13.9997 REMARK 3 T TENSOR REMARK 3 T11: 0.1389 T22: 0.0726 REMARK 3 T33: 0.1304 T12: 0.0045 REMARK 3 T13: 0.0163 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 1.9929 L22: 1.5580 REMARK 3 L33: 3.0580 L12: -0.8981 REMARK 3 L13: 0.3019 L23: 0.1587 REMARK 3 S TENSOR REMARK 3 S11: 0.1808 S12: 0.1969 S13: 0.2140 REMARK 3 S21: -0.2352 S22: -0.2000 S23: -0.0435 REMARK 3 S31: -0.1521 S32: 0.0161 S33: 0.0269 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ((CHAIN T AND RESID 12:16) OR (CHAIN P AND RESID REMARK 3 1:5)) REMARK 3 ORIGIN FOR THE GROUP (A): 18.9140 32.7653 18.3359 REMARK 3 T TENSOR REMARK 3 T11: 0.2639 T22: 0.1526 REMARK 3 T33: 0.2680 T12: -0.0557 REMARK 3 T13: -0.0424 T23: -0.0361 REMARK 3 L TENSOR REMARK 3 L11: 2.4610 L22: 4.5614 REMARK 3 L33: 3.1146 L12: 0.8304 REMARK 3 L13: -0.2129 L23: 0.2578 REMARK 3 S TENSOR REMARK 3 S11: 0.0563 S12: -0.2569 S13: 0.3992 REMARK 3 S21: -0.0138 S22: -0.2828 S23: -0.5114 REMARK 3 S31: -0.1180 S32: -0.2013 S33: 0.1799 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: MODEL REFINEMENT USES I+/I-. DATA REMARK 3 COLLECTION STATISTICS REPORTED FOR I-MEAN SO % COMPLETENESS AND REMARK 3 NUMBER OR REFLECTIONS MAY DIFFER BETWEEN TABLES. REMARK 4 REMARK 4 9Y17 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-SEP-25. REMARK 100 THE DEPOSITION ID IS D_1000299613. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-NOV-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER IMUS MICROFOCUS REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : BRUKER PHOTON II REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROTEUM PLUS 3 REMARK 200 DATA SCALING SOFTWARE : PROTEUM PLUS 3 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 74142 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.490 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.39 REMARK 200 R MERGE FOR SHELL (I) : 0.29000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: CRYOPROTECTION WITH 19% PEG 3350, 150 MM SODIUM ACETATE, REMARK 200 50 MM MAGNESIUM CHLORIDE, 50 MM MAGNESIUM ACETATE, 50 MM HEPES, REMARK 200 1 MM TECP, 15% ETHYLENE GLYCOL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 13-16% PEG 3350, 150-300 MM SODIUM REMARK 280 ACETATE, 50 MM HEPES, 1 MM TECP 250UM PROTEIN WITH 300 UM DNA REMARK 280 ASSEMBLY MIXED 1:1 WITH REAGENT, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 39.52150 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -62.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P, 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 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 MET A 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 ARG A 4 REMARK 465 LYS A 5 REMARK 465 ALA A 6 REMARK 465 PRO A 7 REMARK 465 GLN A 8 REMARK 465 GLU A 203 REMARK 465 SER A 204 REMARK 465 THR A 205 REMARK 465 LYS A 206 REMARK 465 GLN A 207 REMARK 465 PRO A 208 REMARK 465 ASN A 245 REMARK 465 ASP A 246 REMARK 465 GLU A 247 REMARK 465 LYS A 248 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 GLU A 9 CG CD OE1 OE2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 LYS A 244 CG CD CE NZ REMARK 470 GLN A 324 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 532 O HOH A 612 2.10 REMARK 500 O HOH P 121 O HOH P 145 2.11 REMARK 500 O HOH T 160 O HOH P 120 2.11 REMARK 500 O HOH A 644 O HOH T 103 2.11 REMARK 500 O HOH A 778 O HOH T 131 2.13 REMARK 500 O HOH A 657 O HOH A 808 2.13 REMARK 500 O HOH A 808 O HOH P 103 2.13 REMARK 500 O HOH D 116 O HOH D 128 2.14 REMARK 500 O HOH T 102 O HOH T 167 2.14 REMARK 500 O HOH A 653 O HOH D 117 2.15 REMARK 500 OD1 ASP A 130 O HOH A 501 2.15 REMARK 500 O HOH A 575 O HOH A 859 2.15 REMARK 500 OE2 GLU A 71 O HOH A 502 2.17 REMARK 500 O HOH T 179 O HOH T 180 2.17 REMARK 500 OP2 DG T 9 O HOH T 101 2.17 REMARK 500 O6 DG T 15 O HOH T 102 2.17 REMARK 500 O HOH T 158 O HOH P 138 2.17 REMARK 500 O HOH A 820 O HOH A 828 2.17 REMARK 500 O2 DT T 6 O HOH T 103 2.18 REMARK 500 O HOH A 519 O HOH A 618 2.18 REMARK 500 O HOH A 710 O HOH A 726 2.19 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 DG D 1 P DG D 1 OP3 -0.129 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 DG T 7 O4' - C1' - N9 ANGL. DEV. = 2.4 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 PRO A 50 43.80 -86.16 REMARK 500 GLU A 129 -34.92 -39.50 REMARK 500 CYS A 178 -152.29 -99.97 REMARK 500 ASN A 294 -168.58 -126.46 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 NA A 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 60 O REMARK 620 2 LEU A 62 O 92.4 REMARK 620 3 VAL A 65 O 94.0 96.7 REMARK 620 4 HOH A 784 O 90.6 81.8 175.2 REMARK 620 5 DC D 3 OP1 175.3 91.3 88.5 87.0 REMARK 620 6 HOH D 118 O 93.2 171.4 89.4 91.6 82.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 101 O REMARK 620 2 VAL A 103 O 92.3 REMARK 620 3 ILE A 106 O 93.1 86.7 REMARK 620 4 HOH A 786 O 85.9 93.5 179.0 REMARK 620 5 DG P 9 OP1 170.0 94.6 94.5 86.5 REMARK 620 6 HOH P 122 O 81.5 172.9 90.2 89.5 92.1 REMARK 620 N 1 2 3 4 5 DBREF 9Y17 A 1 335 UNP P06746 DPOLB_HUMAN 1 335 DBREF 9Y17 T 1 16 PDB 9Y17 9Y17 1 16 DBREF 9Y17 P 1 10 PDB 9Y17 9Y17 1 10 DBREF 9Y17 D 1 5 PDB 9Y17 9Y17 1 5 SEQRES 1 A 335 MET SER LYS ARG LYS ALA PRO GLN GLU THR LEU ASN GLY SEQRES 2 A 335 GLY ILE THR ASP MET LEU THR GLU LEU ALA ASN PHE GLU SEQRES 3 A 335 LYS ASN VAL SER GLN ALA ILE HIS LYS TYR ASN ALA TYR SEQRES 4 A 335 ARG LYS ALA ALA SER VAL ILE ALA LYS TYR PRO HIS LYS SEQRES 5 A 335 ILE LYS SER GLY ALA GLU ALA LYS LYS LEU PRO GLY VAL SEQRES 6 A 335 GLY THR LYS ILE ALA GLU LYS ILE ASP GLU PHE LEU ALA SEQRES 7 A 335 THR GLY LYS LEU ARG LYS LEU GLU LYS ILE ARG GLN ASP SEQRES 8 A 335 ASP THR SER SER SER ILE ASN PHE LEU THR ARG VAL SER SEQRES 9 A 335 GLY ILE GLY PRO SER ALA ALA ARG LYS PHE VAL ASP GLU SEQRES 10 A 335 GLY ILE LYS THR LEU GLU ASP LEU ARG LYS ASN GLU ASP SEQRES 11 A 335 LYS LEU ASN HIS HIS GLN ARG ILE GLY LEU LYS TYR PHE SEQRES 12 A 335 GLY ASP PHE GLU LYS ARG ILE PRO ARG GLU GLU MET LEU SEQRES 13 A 335 GLN MET GLN ASP ILE VAL LEU ASN GLU VAL LYS LYS VAL SEQRES 14 A 335 ASP SER GLU TYR ILE ALA THR VAL CYS GLY SER PHE ARG SEQRES 15 A 335 ARG GLY ALA GLU SER SER GLY ASP MET ASP VAL LEU LEU SEQRES 16 A 335 THR HIS PRO SER PHE THR SER GLU SER THR LYS GLN PRO SEQRES 17 A 335 LYS LEU LEU HIS GLN VAL VAL GLU GLN LEU GLN LYS VAL SEQRES 18 A 335 HIS PHE ILE THR ASP THR LEU SER LYS GLY GLU THR LYS SEQRES 19 A 335 PHE MET GLY VAL CYS GLN LEU PRO SER LYS ASN ASP GLU SEQRES 20 A 335 LYS GLU TYR PRO HIS ARG ARG ILE ASP ILE ARG LEU ILE SEQRES 21 A 335 PRO LYS ASP GLN TYR TYR CYS GLY VAL LEU TYR PHE THR SEQRES 22 A 335 GLY SER ASP ILE PHE ASN LYS ASN MET ARG ALA HIS ALA SEQRES 23 A 335 LEU GLU LYS GLY PHE THR ILE ASN GLU TYR THR ILE ARG SEQRES 24 A 335 PRO LEU GLY VAL THR GLY VAL ALA GLY GLU PRO LEU PRO SEQRES 25 A 335 VAL ASP SER GLU LYS ASP ILE PHE ASP TYR ILE GLN TRP SEQRES 26 A 335 LYS TYR ARG GLU PRO LYS ASP ARG SER GLU SEQRES 1 T 16 DC DC DG DA DC DT DG DC DG DC DA DT DC SEQRES 2 T 16 DA DG DC SEQRES 1 P 10 DG DC DT DG DA DT DG DC DG DC SEQRES 1 D 5 DG DT DC DG DG HET NA A 401 1 HET NA A 402 1 HET CL A 403 1 HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION FORMUL 5 NA 2(NA 1+) FORMUL 7 CL CL 1- FORMUL 8 HOH *568(H2 O) HELIX 1 AA1 ASN A 12 VAL A 29 1 18 HELIX 2 AA2 ALA A 32 TYR A 49 1 18 HELIX 3 AA3 SER A 55 LYS A 61 1 7 HELIX 4 AA4 GLY A 66 GLY A 80 1 15 HELIX 5 AA5 LEU A 82 GLN A 90 1 9 HELIX 6 AA6 ASP A 91 THR A 101 1 11 HELIX 7 AA7 GLY A 107 GLU A 117 1 11 HELIX 8 AA8 THR A 121 ASN A 128 1 8 HELIX 9 AA9 GLU A 129 LEU A 132 5 4 HELIX 10 AB1 ASN A 133 TYR A 142 1 10 HELIX 11 AB2 TYR A 142 LYS A 148 1 7 HELIX 12 AB3 ARG A 152 ASP A 170 1 19 HELIX 13 AB4 CYS A 178 ARG A 183 1 6 HELIX 14 AB5 LEU A 210 VAL A 221 1 12 HELIX 15 AB6 PRO A 261 ASP A 263 5 3 HELIX 16 AB7 GLN A 264 GLY A 274 1 11 HELIX 17 AB8 SER A 275 LYS A 289 1 15 HELIX 18 AB9 SER A 315 ILE A 323 1 9 HELIX 19 AC1 GLU A 329 ARG A 333 5 5 SHEET 1 AA1 2 ILE A 150 PRO A 151 0 SHEET 2 AA1 2 SER A 187 SER A 188 -1 O SER A 188 N ILE A 150 SHEET 1 AA2 5 ILE A 174 VAL A 177 0 SHEET 2 AA2 5 MET A 191 THR A 196 -1 O LEU A 194 N THR A 176 SHEET 3 AA2 5 ARG A 253 LEU A 259 1 O ARG A 258 N LEU A 195 SHEET 4 AA2 5 LYS A 234 CYS A 239 -1 N CYS A 239 O ARG A 253 SHEET 5 AA2 5 ILE A 224 LYS A 230 -1 N THR A 225 O VAL A 238 SHEET 1 AA3 2 PHE A 291 ILE A 293 0 SHEET 2 AA3 2 ILE A 298 PRO A 300 -1 O ARG A 299 N THR A 292 LINK O LYS A 60 NA NA A 401 1555 1555 2.26 LINK O LEU A 62 NA NA A 401 1555 1555 2.48 LINK O VAL A 65 NA NA A 401 1555 1555 2.30 LINK O THR A 101 NA NA A 402 1555 1555 2.28 LINK O VAL A 103 NA NA A 402 1555 1555 2.45 LINK O ILE A 106 NA NA A 402 1555 1555 2.39 LINK NA NA A 401 O HOH A 784 1555 1555 2.56 LINK NA NA A 401 OP1 DC D 3 1555 1555 2.86 LINK NA NA A 401 O HOH D 118 1555 1555 2.42 LINK NA NA A 402 O HOH A 786 1555 1555 2.48 LINK NA NA A 402 OP1 DG P 9 1555 1555 2.39 LINK NA NA A 402 O HOH P 122 1555 1555 2.44 CISPEP 1 GLY A 274 SER A 275 0 4.66 CRYST1 54.053 79.043 54.544 90.00 104.41 90.00 P 1 21 1 2 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 0.018500 0.000000 0.004754 0.00000 SCALE2 0.000000 0.012651 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018929 0.00000 CONECT 399 3203 CONECT 417 3203 CONECT 436 3203 CONECT 721 3204 CONECT 739 3204 CONECT 756 3204 CONECT 3036 3204 CONECT 3140 3203 CONECT 3203 399 417 436 3140 CONECT 3203 3489 3751 CONECT 3204 721 739 756 3036 CONECT 3204 3491 3706 CONECT 3489 3203 CONECT 3491 3204 CONECT 3706 3204 CONECT 3751 3203 MASTER 476 0 3 19 9 0 0 6 3727 4 16 30 END