HEADER TRANSFERASE/DNA 14-AUG-13 4M9L TITLE DNA POLYMERASE BETA E295K SOAKED WITH DCTP 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 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA TEMPLATE STRAND; COMPND 9 CHAIN: T; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA PRIMER STRAND; COMPND 13 CHAIN: P; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: DNA DOWNSTREAM STRAND; COMPND 17 CHAIN: D; COMPND 18 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 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: DNA TEMPLATE STRAND, 16MER; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 OTHER_DETAILS: DNA PRIMER STRAND, 10MER; SOURCE 17 MOL_ID: 4; SOURCE 18 SYNTHETIC: YES; SOURCE 19 OTHER_DETAILS: DNA DOWNSTREAM STRAND, 5MER KEYWDS DNA POLYMERASE, LYASE, DNA COMPLEX, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.E.ECKENROTH,S.DOUBLIE REVDAT 4 28-FEB-24 4M9L 1 REMARK SEQADV LINK REVDAT 3 18-DEC-13 4M9L 1 JRNL REVDAT 2 30-OCT-13 4M9L 1 JRNL REVDAT 1 16-OCT-13 4M9L 0 JRNL AUTH B.E.ECKENROTH,J.B.TOWLE-WEICKSEL,J.B.SWEASY,S.DOUBLIE JRNL TITL THE E295K CANCER VARIANT OF HUMAN POLYMERASE BETA FAVORS THE JRNL TITL 2 MISMATCH CONFORMATIONAL PATHWAY DURING NUCLEOTIDE SELECTION. JRNL REF J.BIOL.CHEM. V. 288 34850 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 24133209 JRNL DOI 10.1074/JBC.M113.510891 REMARK 2 REMARK 2 RESOLUTION. 2.09 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 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) : 2.09 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 13.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 3 NUMBER OF REFLECTIONS : 49217 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4922 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 13.8407 - 6.2932 0.99 1512 203 0.1570 0.1710 REMARK 3 2 6.2932 - 5.0757 0.99 1544 164 0.1625 0.2127 REMARK 3 3 5.0757 - 4.4586 0.99 1526 160 0.1481 0.1840 REMARK 3 4 4.4586 - 4.0622 0.99 1540 168 0.1428 0.1650 REMARK 3 5 4.0622 - 3.7774 0.98 1510 177 0.1528 0.2009 REMARK 3 6 3.7774 - 3.5587 0.99 1531 172 0.1644 0.1873 REMARK 3 7 3.5587 - 3.3832 0.98 1511 145 0.1616 0.2004 REMARK 3 8 3.3832 - 3.2379 0.98 1503 175 0.1778 0.2333 REMARK 3 9 3.2379 - 3.1147 0.98 1547 186 0.1873 0.2489 REMARK 3 10 3.1147 - 3.0084 0.97 1449 157 0.1970 0.2921 REMARK 3 11 3.0084 - 2.9152 0.97 1578 147 0.2032 0.2532 REMARK 3 12 2.9152 - 2.8326 0.97 1523 134 0.2058 0.2586 REMARK 3 13 2.8326 - 2.7586 0.97 1481 185 0.1963 0.2106 REMARK 3 14 2.7586 - 2.6918 0.97 1464 175 0.2040 0.2533 REMARK 3 15 2.6918 - 2.6311 0.96 1528 181 0.2099 0.2709 REMARK 3 16 2.6311 - 2.5754 0.97 1485 173 0.2177 0.2713 REMARK 3 17 2.5754 - 2.5242 0.96 1498 162 0.2172 0.2692 REMARK 3 18 2.5242 - 2.4769 0.96 1474 145 0.2339 0.2770 REMARK 3 19 2.4769 - 2.4329 0.97 1497 165 0.2279 0.2573 REMARK 3 20 2.4329 - 2.3919 0.96 1502 142 0.2300 0.3243 REMARK 3 21 2.3919 - 2.3535 0.96 1483 134 0.2298 0.2881 REMARK 3 22 2.3535 - 2.3174 0.95 1461 203 0.2279 0.2648 REMARK 3 23 2.3174 - 2.2835 0.96 1460 175 0.2384 0.2602 REMARK 3 24 2.2835 - 2.2515 0.94 1457 154 0.2564 0.3173 REMARK 3 25 2.2515 - 2.2212 0.96 1515 157 0.2608 0.3077 REMARK 3 26 2.2212 - 2.1924 0.92 1397 167 0.2725 0.3292 REMARK 3 27 2.1924 - 2.1651 0.93 1447 141 0.2627 0.2834 REMARK 3 28 2.1651 - 2.1391 0.87 1373 155 0.2707 0.3056 REMARK 3 29 2.1391 - 2.1144 0.86 1283 146 0.2867 0.3260 REMARK 3 30 2.1144 - 2.0907 0.81 1216 174 0.3098 0.3753 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) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.970 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.21 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.31 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 : 0.003 3239 REMARK 3 ANGLE : 0.718 4506 REMARK 3 CHIRALITY : 0.038 500 REMARK 3 PLANARITY : 0.002 469 REMARK 3 DIHEDRAL : 18.591 1274 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 10:79) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3629 5.8028 31.0305 REMARK 3 T TENSOR REMARK 3 T11: 0.1726 T22: 0.2043 REMARK 3 T33: 0.3691 T12: -0.0215 REMARK 3 T13: 0.0532 T23: -0.0060 REMARK 3 L TENSOR REMARK 3 L11: 6.9427 L22: 5.9733 REMARK 3 L33: 2.4430 L12: -3.0137 REMARK 3 L13: 1.3199 L23: -1.0370 REMARK 3 S TENSOR REMARK 3 S11: -0.0463 S12: 0.0523 S13: 0.2996 REMARK 3 S21: 0.2491 S22: 0.0414 S23: 0.8021 REMARK 3 S31: -0.2987 S32: -0.0459 S33: 0.0046 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80:102) REMARK 3 ORIGIN FOR THE GROUP (A): 11.0875 -0.3939 38.8381 REMARK 3 T TENSOR REMARK 3 T11: 0.4321 T22: 0.3523 REMARK 3 T33: 0.2439 T12: -0.0479 REMARK 3 T13: 0.0106 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 6.0428 L22: 9.3991 REMARK 3 L33: 2.1906 L12: -6.9859 REMARK 3 L13: -7.0345 L23: 7.3415 REMARK 3 S TENSOR REMARK 3 S11: 0.0192 S12: -0.3085 S13: 0.0122 REMARK 3 S21: 0.8449 S22: -0.1710 S23: 0.1159 REMARK 3 S31: -0.3310 S32: 0.1029 S33: 0.1315 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 103:117) REMARK 3 ORIGIN FOR THE GROUP (A): 16.3891 -13.5021 32.4857 REMARK 3 T TENSOR REMARK 3 T11: 0.2659 T22: 0.2159 REMARK 3 T33: 0.2608 T12: 0.0001 REMARK 3 T13: 0.0153 T23: 0.0128 REMARK 3 L TENSOR REMARK 3 L11: 5.8127 L22: 5.7452 REMARK 3 L33: 2.0657 L12: 1.5522 REMARK 3 L13: 2.4379 L23: -4.8853 REMARK 3 S TENSOR REMARK 3 S11: -0.1131 S12: -0.4041 S13: -0.7394 REMARK 3 S21: 0.5250 S22: -0.1385 S23: -0.4802 REMARK 3 S31: 0.0304 S32: -0.3324 S33: 0.4391 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 118:169) REMARK 3 ORIGIN FOR THE GROUP (A): 23.2375 -6.1184 16.4351 REMARK 3 T TENSOR REMARK 3 T11: 0.2044 T22: 0.2590 REMARK 3 T33: 0.2674 T12: -0.0267 REMARK 3 T13: 0.0769 T23: -0.0421 REMARK 3 L TENSOR REMARK 3 L11: 1.5790 L22: 3.3464 REMARK 3 L33: 5.6216 L12: 0.4955 REMARK 3 L13: -1.2967 L23: -0.1904 REMARK 3 S TENSOR REMARK 3 S11: -0.0505 S12: 0.0051 S13: -0.0409 REMARK 3 S21: -0.4143 S22: -0.0286 S23: -0.6111 REMARK 3 S31: -0.1205 S32: 0.5354 S33: 0.0879 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 170:286) REMARK 3 ORIGIN FOR THE GROUP (A): 13.2131 -8.1805 4.6413 REMARK 3 T TENSOR REMARK 3 T11: 0.6507 T22: 0.2707 REMARK 3 T33: 0.2007 T12: -0.0451 REMARK 3 T13: 0.0106 T23: -0.0382 REMARK 3 L TENSOR REMARK 3 L11: 1.8463 L22: 3.8429 REMARK 3 L33: 2.0654 L12: 0.0808 REMARK 3 L13: -0.4461 L23: -0.3154 REMARK 3 S TENSOR REMARK 3 S11: -0.1962 S12: 0.3001 S13: -0.1245 REMARK 3 S21: -1.2326 S22: 0.1560 S23: 0.1089 REMARK 3 S31: 0.0642 S32: 0.0546 S33: 0.0408 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 287:335) REMARK 3 ORIGIN FOR THE GROUP (A): -7.6001 -5.4312 3.7708 REMARK 3 T TENSOR REMARK 3 T11: 0.9124 T22: 0.4518 REMARK 3 T33: 0.8822 T12: -0.0242 REMARK 3 T13: -0.4410 T23: 0.0920 REMARK 3 L TENSOR REMARK 3 L11: 3.3166 L22: 1.5888 REMARK 3 L33: 3.0360 L12: 2.2152 REMARK 3 L13: 1.5263 L23: 0.8674 REMARK 3 S TENSOR REMARK 3 S11: -0.1398 S12: 0.3989 S13: 0.3024 REMARK 3 S21: -1.1107 S22: 0.2440 S23: 1.5904 REMARK 3 S31: 0.2214 S32: -0.2302 S33: -0.1267 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'T' AND (RESID 1:5) REMARK 3 ORIGIN FOR THE GROUP (A): -12.6428 -12.5930 28.5534 REMARK 3 T TENSOR REMARK 3 T11: 0.2557 T22: 0.4004 REMARK 3 T33: 1.0495 T12: -0.0508 REMARK 3 T13: 0.0306 T23: -0.1032 REMARK 3 L TENSOR REMARK 3 L11: 8.0286 L22: 8.6608 REMARK 3 L33: 0.7041 L12: -3.6641 REMARK 3 L13: -0.3924 L23: 1.1661 REMARK 3 S TENSOR REMARK 3 S11: -0.4426 S12: -0.7059 S13: -0.6385 REMARK 3 S21: 0.5016 S22: 0.1918 S23: 1.6457 REMARK 3 S31: 0.4936 S32: -0.3639 S33: 0.3695 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'T' AND (RESID 6:16) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8257 -23.5625 19.4231 REMARK 3 T TENSOR REMARK 3 T11: 0.2338 T22: 0.1510 REMARK 3 T33: 0.2197 T12: -0.0418 REMARK 3 T13: -0.0394 T23: -0.0192 REMARK 3 L TENSOR REMARK 3 L11: 3.2414 L22: 8.6831 REMARK 3 L33: 0.5738 L12: -3.9637 REMARK 3 L13: -1.0617 L23: 0.3985 REMARK 3 S TENSOR REMARK 3 S11: 0.0977 S12: 0.1069 S13: -0.4015 REMARK 3 S21: -0.0977 S22: -0.0812 S23: 0.4110 REMARK 3 S31: 0.0666 S32: -0.0355 S33: -0.0527 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 1:10) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6175 -24.6834 20.1818 REMARK 3 T TENSOR REMARK 3 T11: 0.2106 T22: 0.1741 REMARK 3 T33: 0.2193 T12: 0.0167 REMARK 3 T13: -0.0475 T23: 0.0021 REMARK 3 L TENSOR REMARK 3 L11: 5.0983 L22: 7.4037 REMARK 3 L33: 3.7644 L12: -0.6023 REMARK 3 L13: -0.7032 L23: 2.0071 REMARK 3 S TENSOR REMARK 3 S11: 0.1187 S12: -0.0051 S13: -0.4350 REMARK 3 S21: 0.0938 S22: -0.3118 S23: 1.2271 REMARK 3 S31: 0.3223 S32: 0.0364 S33: 0.2026 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1:5) REMARK 3 ORIGIN FOR THE GROUP (A): -13.8395 -4.9628 27.8317 REMARK 3 T TENSOR REMARK 3 T11: 0.1830 T22: 0.4081 REMARK 3 T33: 1.0488 T12: -0.0125 REMARK 3 T13: -0.0306 T23: -0.2292 REMARK 3 L TENSOR REMARK 3 L11: 9.3753 L22: 7.9104 REMARK 3 L33: 1.9489 L12: 5.7224 REMARK 3 L13: -1.3505 L23: 0.6689 REMARK 3 S TENSOR REMARK 3 S11: -0.4131 S12: 0.7718 S13: -0.2725 REMARK 3 S21: -0.3763 S22: -0.2198 S23: 1.8219 REMARK 3 S31: -0.1006 S32: -0.5858 S33: 0.4705 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 4M9L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081638. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 104 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.091 REMARK 200 RESOLUTION RANGE LOW (A) : 14.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.09 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.61200 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 2.5.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14% PEG 3350, 300 MM SODIUM ACETATE PH REMARK 280 9, 50 MM HEPES PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 40.09900 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: 5200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -66.0 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 9 REMARK 465 THR A 205 REMARK 465 LYS A 206 REMARK 465 GLN A 207 REMARK 465 PRO A 208 REMARK 465 LYS A 244 REMARK 465 ASN A 245 REMARK 465 ASP A 246 REMARK 465 LEU A 301 REMARK 465 GLY A 302 REMARK 465 VAL A 303 REMARK 465 THR A 304 REMARK 465 GLY A 305 REMARK 465 ASP A 314 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 LYS A 68 CE NZ REMARK 470 LYS A 81 CE NZ REMARK 470 GLU A 129 CG CD OE1 OE2 REMARK 470 ILE A 174 CD1 REMARK 470 GLU A 186 CD OE1 OE2 REMARK 470 SER A 202 OG REMARK 470 GLU A 203 CG CD OE1 OE2 REMARK 470 SER A 204 OG REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 LYS A 220 CD CE NZ REMARK 470 GLU A 232 CD OE1 OE2 REMARK 470 GLU A 247 CG CD OE1 OE2 REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 LYS A 280 CE NZ REMARK 470 LYS A 289 CD CE NZ REMARK 470 LYS A 295 CG CD CE NZ REMARK 470 TYR A 296 CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 299 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 317 CG CD CE NZ REMARK 470 GLN A 324 CG CD OE1 NE2 REMARK 470 LYS A 326 CG CD CE NZ REMARK 470 GLU A 329 CG CD OE1 OE2 REMARK 470 LYS A 331 CE NZ 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. = 2.8 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 PRO A 50 40.19 -81.13 REMARK 500 CYS A 178 -154.34 -116.87 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 NA A 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 60 O REMARK 620 2 LEU A 62 O 86.2 REMARK 620 3 VAL A 65 O 85.5 88.7 REMARK 620 4 HOH A 503 O 89.8 75.8 164.0 REMARK 620 5 DC D 3 OP1 174.6 90.7 90.0 93.7 REMARK 620 6 HOH D 101 O 93.2 171.2 82.5 113.0 89.1 REMARK 620 N 1 2 3 4 5 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 THR A 101 O REMARK 620 2 VAL A 103 O 94.4 REMARK 620 3 ILE A 106 O 92.9 85.8 REMARK 620 4 HOH A 501 O 79.2 91.7 171.6 REMARK 620 5 DG P 9 OP1 165.9 96.3 97.0 91.2 REMARK 620 6 HOH P 102 O 79.2 169.9 86.7 94.7 91.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 190 OD2 REMARK 620 2 ASP A 190 OD1 50.6 REMARK 620 3 ASP A 192 OD1 146.2 96.1 REMARK 620 4 DCP A 405 O2A 88.0 69.8 84.9 REMARK 620 5 HOH A 561 O 76.9 82.4 94.4 151.8 REMARK 620 6 HOH A 588 O 104.0 151.1 105.9 129.6 77.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 190 OD1 REMARK 620 2 ASP A 192 OD2 91.4 REMARK 620 3 DCP A 405 O2A 95.1 95.7 REMARK 620 4 DCP A 405 O2B 171.4 97.2 84.6 REMARK 620 5 DCP A 405 O2G 85.4 173.5 90.2 86.0 REMARK 620 6 HOH A 586 O 93.0 88.5 170.8 86.7 86.0 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 NA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCP A 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4M9G RELATED DB: PDB REMARK 900 RELATED ID: 4M9H RELATED DB: PDB REMARK 900 RELATED ID: 4M9J RELATED DB: PDB REMARK 900 RELATED ID: 4M9N RELATED DB: PDB DBREF 4M9L A 1 335 UNP P06746 DPOLB_HUMAN 1 335 DBREF 4M9L T 1 16 PDB 4M9L 4M9L 1 16 DBREF 4M9L P 1 10 PDB 4M9L 4M9L 1 10 DBREF 4M9L D 1 5 PDB 4M9L 4M9L 1 5 SEQADV 4M9L LYS A 295 UNP P06746 GLU 295 ENGINEERED MUTATION 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 LYS 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 DA 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 NA A 403 1 HET MG A 404 1 HET DCP A 405 28 HETNAM NA SODIUM ION HETNAM MG MAGNESIUM ION HETNAM DCP 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE FORMUL 5 NA 3(NA 1+) FORMUL 8 MG MG 2+ FORMUL 9 DCP C9 H16 N3 O13 P3 FORMUL 10 HOH *314(H2 O) HELIX 1 1 ASN A 12 VAL A 29 1 18 HELIX 2 2 ALA A 32 TYR A 49 1 18 HELIX 3 3 SER A 55 LYS A 61 1 7 HELIX 4 4 GLY A 66 GLY A 80 1 15 HELIX 5 5 LEU A 82 GLN A 90 1 9 HELIX 6 6 ASP A 91 THR A 101 1 11 HELIX 7 7 GLY A 107 GLU A 117 1 11 HELIX 8 8 THR A 121 LYS A 127 1 7 HELIX 9 9 ASN A 128 LEU A 132 5 5 HELIX 10 10 ASN A 133 TYR A 142 1 10 HELIX 11 11 TYR A 142 GLU A 147 1 6 HELIX 12 12 ARG A 152 ASP A 170 1 19 HELIX 13 13 CYS A 178 ARG A 183 1 6 HELIX 14 14 LEU A 210 VAL A 221 1 12 HELIX 15 15 PRO A 261 ASP A 263 5 3 HELIX 16 16 GLN A 264 GLY A 274 1 11 HELIX 17 17 SER A 275 LYS A 289 1 15 HELIX 18 18 GLU A 316 ILE A 323 1 8 HELIX 19 19 GLU A 329 ARG A 333 5 5 SHEET 1 A 2 ILE A 150 PRO A 151 0 SHEET 2 A 2 SER A 187 SER A 188 -1 O SER A 188 N ILE A 150 SHEET 1 B 5 ILE A 174 VAL A 177 0 SHEET 2 B 5 MET A 191 THR A 196 -1 O LEU A 194 N THR A 176 SHEET 3 B 5 ARG A 253 LEU A 259 1 O ARG A 258 N LEU A 195 SHEET 4 B 5 LYS A 234 CYS A 239 -1 N CYS A 239 O ARG A 253 SHEET 5 B 5 ILE A 224 LYS A 230 -1 N SER A 229 O MET A 236 SHEET 1 C 2 THR A 292 ILE A 293 0 SHEET 2 C 2 ILE A 298 ARG A 299 -1 O ARG A 299 N THR A 292 LINK O LYS A 60 NA NA A 402 1555 1555 2.45 LINK O LEU A 62 NA NA A 402 1555 1555 2.71 LINK O VAL A 65 NA NA A 402 1555 1555 2.47 LINK O THR A 101 NA NA A 401 1555 1555 2.39 LINK O VAL A 103 NA NA A 401 1555 1555 2.51 LINK O ILE A 106 NA NA A 401 1555 1555 2.45 LINK OD2 ASP A 190 NA NA A 403 1555 1555 2.41 LINK OD1 ASP A 190 NA NA A 403 1555 1555 2.68 LINK OD1 ASP A 190 MG MG A 404 1555 1555 2.05 LINK OD1 ASP A 192 NA NA A 403 1555 1555 2.33 LINK OD2 ASP A 192 MG MG A 404 1555 1555 2.11 LINK NA NA A 401 O HOH A 501 1555 1555 2.43 LINK NA NA A 401 OP1 DG P 9 1555 1555 2.33 LINK NA NA A 401 O HOH P 102 1555 1555 2.53 LINK NA NA A 402 O HOH A 503 1555 1555 2.52 LINK NA NA A 402 OP1 DC D 3 1555 1555 2.85 LINK NA NA A 402 O HOH D 101 1555 1555 2.47 LINK NA NA A 403 O2A DCP A 405 1555 1555 2.46 LINK NA NA A 403 O HOH A 561 1555 1555 2.89 LINK NA NA A 403 O HOH A 588 1555 1555 2.40 LINK MG MG A 404 O2A DCP A 405 1555 1555 1.94 LINK MG MG A 404 O2B DCP A 405 1555 1555 2.02 LINK MG MG A 404 O2G DCP A 405 1555 1555 2.09 LINK MG MG A 404 O HOH A 586 1555 1555 2.12 CISPEP 1 GLY A 274 SER A 275 0 3.70 SITE 1 AC1 6 THR A 101 VAL A 103 ILE A 106 HOH A 501 SITE 2 AC1 6 DG P 9 HOH P 102 SITE 1 AC2 6 LYS A 60 LEU A 62 VAL A 65 HOH A 503 SITE 2 AC2 6 DC D 3 HOH D 101 SITE 1 AC3 6 ASP A 190 ASP A 192 MG A 404 DCP A 405 SITE 2 AC3 6 HOH A 561 HOH A 588 SITE 1 AC4 5 ASP A 190 ASP A 192 NA A 403 DCP A 405 SITE 2 AC4 5 HOH A 586 SITE 1 AC5 27 GLY A 179 SER A 180 ARG A 183 SER A 188 SITE 2 AC5 27 GLY A 189 ASP A 190 ASP A 192 TYR A 271 SITE 3 AC5 27 PHE A 272 THR A 273 GLY A 274 ASP A 276 SITE 4 AC5 27 ASN A 279 NA A 403 MG A 404 HOH A 586 SITE 5 AC5 27 HOH A 593 HOH A 594 HOH A 597 HOH A 604 SITE 6 AC5 27 HOH A 642 HOH A 654 HOH A 668 HOH A 669 SITE 7 AC5 27 DC P 10 HOH P 124 DA T 6 CRYST1 54.362 80.198 54.599 90.00 108.59 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 0.018395 0.000000 0.006187 0.00000 SCALE2 0.000000 0.012469 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019324 0.00000