PDB Short entry for 4PDI HEADER HYDROLASE/DNA 18-APR-14 4PDI TITLE CRYSTAL STRUCTURE OF A COMPLEX BETWEEN AN INHIBITED LLFPG AND A N7- TITLE 2 BENZYL-FAPY-DG CONTAINING DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FAPY-DNA GLYCOSYLASE,DNA-(APURINIC OR APYRIMIDINIC SITE) COMPND 5 LYASE MUTM,AP LYASE MUTM; COMPND 6 EC: 3.2.2.23; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*CP*TP*CP*TP*TP*TP*(SOS)P*TP*TP*TP*CP*TP*CP*G)- COMPND 10 3'); COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(*GP*CP*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3'); COMPND 15 CHAIN: C; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS SUBSP. CREMORIS; SOURCE 3 ORGANISM_TAXID: 1359; SOURCE 4 GENE: MUTM, FPG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS DNA GLYCOSYLASE, 2TX INHIBITOR, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR F.COSTE,B.CASTAING REVDAT 2 27-SEP-23 4PDI 1 SOURCE JRNL REMARK REVDAT 1 01-APR-15 4PDI 0 JRNL AUTH A.BIELA,F.COSTE,F.CULARD,M.GUERIN,S.GOFFINONT,K.GASTEIGER, JRNL AUTH 2 J.CIESLA,A.WINCZURA,Z.KAZIMIERCZUK,D.GASPARUTTO,T.CARELL, JRNL AUTH 3 B.TUDEK,B.CASTAING JRNL TITL ZINC FINGER OXIDATION OF FPG/NEI DNA GLYCOSYLASES BY JRNL TITL 2 2-THIOXANTHINE: BIOCHEMICAL AND X-RAY STRUCTURAL JRNL TITL 3 CHARACTERIZATION. JRNL REF NUCLEIC ACIDS RES. V. 42 10748 2014 JRNL REFN ESSN 1362-4962 JRNL PMID 25143530 JRNL DOI 10.1093/NAR/GKU613 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.67 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.790 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 66600 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 3359 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 47.6868 - 6.0581 1.00 2652 127 0.1475 0.1519 REMARK 3 2 6.0581 - 4.8100 1.00 2643 123 0.1239 0.1525 REMARK 3 3 4.8100 - 4.2024 1.00 2634 136 0.1094 0.1345 REMARK 3 4 4.2024 - 3.8183 1.00 2621 150 0.1234 0.1396 REMARK 3 5 3.8183 - 3.5448 1.00 2639 145 0.1365 0.1692 REMARK 3 6 3.5448 - 3.3358 1.00 2669 138 0.1365 0.1434 REMARK 3 7 3.3358 - 3.1688 1.00 2597 156 0.1676 0.1740 REMARK 3 8 3.1688 - 3.0309 1.00 2644 139 0.1774 0.2261 REMARK 3 9 3.0309 - 2.9142 1.00 2653 132 0.1965 0.2522 REMARK 3 10 2.9142 - 2.8137 1.00 2576 190 0.1880 0.2354 REMARK 3 11 2.8137 - 2.7257 1.00 2642 137 0.1982 0.2273 REMARK 3 12 2.7257 - 2.6478 1.00 2669 114 0.1944 0.2239 REMARK 3 13 2.6478 - 2.5781 1.00 2653 131 0.1891 0.2387 REMARK 3 14 2.5781 - 2.5152 1.00 2615 139 0.1814 0.2635 REMARK 3 15 2.5152 - 2.4580 1.00 2665 118 0.1868 0.2116 REMARK 3 16 2.4580 - 2.4057 1.00 2606 157 0.1789 0.2234 REMARK 3 17 2.4057 - 2.3576 1.00 2649 133 0.1754 0.2277 REMARK 3 18 2.3576 - 2.3131 1.00 2657 150 0.1887 0.2287 REMARK 3 19 2.3131 - 2.2718 1.00 2616 125 0.1936 0.2315 REMARK 3 20 2.2718 - 2.2333 1.00 2656 113 0.1925 0.2493 REMARK 3 21 2.2333 - 2.1973 1.00 2624 172 0.2092 0.2696 REMARK 3 22 2.1973 - 2.1635 1.00 2603 181 0.2165 0.2775 REMARK 3 23 2.1635 - 2.1316 1.00 2619 133 0.2433 0.2981 REMARK 3 24 2.1316 - 2.1000 0.99 2639 120 0.2582 0.3065 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 : 0.008 2836 REMARK 3 ANGLE : 1.075 3931 REMARK 3 CHIRALITY : 0.044 441 REMARK 3 PLANARITY : 0.005 403 REMARK 3 DIHEDRAL : 18.969 1109 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2839 7.7776 11.7015 REMARK 3 T TENSOR REMARK 3 T11: 0.2446 T22: 0.2244 REMARK 3 T33: 0.3732 T12: 0.0188 REMARK 3 T13: 0.0286 T23: 0.0167 REMARK 3 L TENSOR REMARK 3 L11: 1.0569 L22: 2.0542 REMARK 3 L33: 1.7845 L12: 1.1760 REMARK 3 L13: -0.6275 L23: -0.4613 REMARK 3 S TENSOR REMARK 3 S11: -0.0167 S12: -0.1218 S13: -0.2606 REMARK 3 S21: -0.1454 S22: -0.1005 S23: -0.5278 REMARK 3 S31: 0.0308 S32: 0.1258 S33: 0.1228 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 33 THROUGH 72 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.0002 16.2666 16.1207 REMARK 3 T TENSOR REMARK 3 T11: 0.2621 T22: 0.1869 REMARK 3 T33: 0.2739 T12: -0.0178 REMARK 3 T13: -0.0042 T23: -0.0129 REMARK 3 L TENSOR REMARK 3 L11: 1.7633 L22: 1.6545 REMARK 3 L33: 1.3934 L12: 0.4193 REMARK 3 L13: -0.7971 L23: -0.4823 REMARK 3 S TENSOR REMARK 3 S11: 0.1712 S12: -0.1501 S13: 0.1426 REMARK 3 S21: 0.0982 S22: -0.2314 S23: -0.2280 REMARK 3 S31: -0.2527 S32: 0.0895 S33: 0.0635 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 73 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.2046 7.9738 3.7682 REMARK 3 T TENSOR REMARK 3 T11: 0.2421 T22: 0.2139 REMARK 3 T33: 0.2775 T12: 0.0315 REMARK 3 T13: 0.0368 T23: -0.0201 REMARK 3 L TENSOR REMARK 3 L11: 3.5961 L22: 1.2445 REMARK 3 L33: 1.6697 L12: -0.3005 REMARK 3 L13: -1.1957 L23: -0.2485 REMARK 3 S TENSOR REMARK 3 S11: -0.0020 S12: 0.2436 S13: -0.0156 REMARK 3 S21: -0.1834 S22: -0.0314 S23: -0.2155 REMARK 3 S31: 0.0966 S32: -0.0255 S33: 0.0409 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 141 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.0408 9.9021 26.9183 REMARK 3 T TENSOR REMARK 3 T11: 0.3272 T22: 0.2914 REMARK 3 T33: 0.2904 T12: -0.0369 REMARK 3 T13: -0.0261 T23: -0.0148 REMARK 3 L TENSOR REMARK 3 L11: 0.9169 L22: 1.8605 REMARK 3 L33: 2.0680 L12: 0.8219 REMARK 3 L13: -0.6458 L23: -1.2990 REMARK 3 S TENSOR REMARK 3 S11: 0.1881 S12: -0.2114 S13: -0.0122 REMARK 3 S21: 0.4343 S22: -0.2091 S23: -0.1707 REMARK 3 S31: -0.2925 S32: 0.1267 S33: 0.0139 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 142 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.1294 -5.9938 30.3680 REMARK 3 T TENSOR REMARK 3 T11: 0.3152 T22: 0.3122 REMARK 3 T33: 0.3230 T12: -0.0860 REMARK 3 T13: 0.0129 T23: -0.0199 REMARK 3 L TENSOR REMARK 3 L11: 1.5594 L22: 1.8292 REMARK 3 L33: 3.3643 L12: 0.3989 REMARK 3 L13: 0.3630 L23: 0.1709 REMARK 3 S TENSOR REMARK 3 S11: 0.0978 S12: -0.2290 S13: -0.0206 REMARK 3 S21: 0.2093 S22: -0.1978 S23: 0.1334 REMARK 3 S31: 0.2562 S32: -0.4294 S33: 0.1082 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 194 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.6915 -10.5597 30.5755 REMARK 3 T TENSOR REMARK 3 T11: 0.4018 T22: 0.2555 REMARK 3 T33: 0.3952 T12: -0.0360 REMARK 3 T13: -0.0208 T23: 0.0307 REMARK 3 L TENSOR REMARK 3 L11: 4.0303 L22: 1.8009 REMARK 3 L33: 4.4908 L12: 1.0523 REMARK 3 L13: -2.6783 L23: -1.2691 REMARK 3 S TENSOR REMARK 3 S11: -0.1873 S12: -0.2870 S13: -0.3271 REMARK 3 S21: 0.1956 S22: -0.0640 S23: -0.3251 REMARK 3 S31: 0.5696 S32: 0.1715 S33: 0.2362 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 239 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.9731 -11.0751 13.0703 REMARK 3 T TENSOR REMARK 3 T11: 0.4732 T22: 0.3073 REMARK 3 T33: 0.4363 T12: -0.0122 REMARK 3 T13: 0.0607 T23: -0.0213 REMARK 3 L TENSOR REMARK 3 L11: 6.8719 L22: 3.3916 REMARK 3 L33: 0.9921 L12: 3.6451 REMARK 3 L13: -1.3095 L23: 0.3011 REMARK 3 S TENSOR REMARK 3 S11: -0.4432 S12: 0.4641 S13: -0.5281 REMARK 3 S21: -0.7094 S22: 0.1900 S23: -0.5902 REMARK 3 S31: 0.4044 S32: -0.0065 S33: 0.2629 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 240 THROUGH 257 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.3874 -20.0498 16.4883 REMARK 3 T TENSOR REMARK 3 T11: 0.4810 T22: 0.3969 REMARK 3 T33: 0.4232 T12: -0.1497 REMARK 3 T13: 0.0655 T23: -0.0426 REMARK 3 L TENSOR REMARK 3 L11: 3.5555 L22: 8.8236 REMARK 3 L33: 4.4850 L12: 1.0142 REMARK 3 L13: -2.4874 L23: 2.7581 REMARK 3 S TENSOR REMARK 3 S11: -0.2663 S12: 0.0164 S13: -0.8913 REMARK 3 S21: -0.0089 S22: -0.1919 S23: 0.0288 REMARK 3 S31: 0.7853 S32: -0.4095 S33: 0.3985 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 258 THROUGH 271 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.6264 -14.3717 22.2952 REMARK 3 T TENSOR REMARK 3 T11: 0.4112 T22: 0.3479 REMARK 3 T33: 0.3915 T12: -0.1318 REMARK 3 T13: 0.0493 T23: -0.0372 REMARK 3 L TENSOR REMARK 3 L11: 1.4371 L22: 5.0786 REMARK 3 L33: 3.6373 L12: 0.7217 REMARK 3 L13: -1.0046 L23: -2.4875 REMARK 3 S TENSOR REMARK 3 S11: -0.0077 S12: 0.1020 S13: -0.2694 REMARK 3 S21: 0.4303 S22: -0.1856 S23: 0.2560 REMARK 3 S31: 0.3809 S32: -0.3546 S33: 0.2107 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 4PDI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000201188. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-SEP-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54980 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66600 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 47.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : 0.10300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 11.10 REMARK 200 R MERGE FOR SHELL (I) : 0.70500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 3C58 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, SODIUM CITRATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 70.48700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.76750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.76750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 35.24350 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.76750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.76750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 105.73050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.76750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.76750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 35.24350 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.76750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.76750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 105.73050 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 70.48700 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: 4020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 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 THR A 221 REMARK 465 TYR A 222 REMARK 465 SER A 223 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 15 CE NZ REMARK 470 ARG A 31 CZ NH1 NH2 REMARK 470 LYS A 42 CD CE NZ REMARK 470 LYS A 78 CD CE NZ REMARK 470 ARG A 88 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 130 CE NZ REMARK 470 GLU A 138 CG CD OE1 OE2 REMARK 470 LYS A 182 CE NZ REMARK 470 LYS A 213 CD CE NZ REMARK 470 ARG A 220 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 230 CE NZ REMARK 470 ARG A 247 CG CD NE CZ NH1 NH2 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 OE2 GLU A 26 O HOH A 531 2.17 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 SOS B 7 O3' - P - OP2 ANGL. DEV. = 9.6 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 74 -123.45 47.85 REMARK 500 GLU A 76 30.21 -151.32 REMARK 500 ASP A 107 101.76 -164.77 REMARK 500 SER A 246 15.96 58.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 576 DISTANCE = 6.27 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4PCZ RELATED DB: PDB REMARK 900 RELATED ID: 4PD2 RELATED DB: PDB REMARK 900 RELATED ID: 4PDG RELATED DB: PDB DBREF 4PDI A 1 271 UNP P42371 FPG_LACLC 2 273 DBREF 4PDI B 1 14 PDB 4PDI 4PDI 1 14 DBREF 4PDI C 15 28 PDB 4PDI 4PDI 15 28 SEQADV 4PDI A UNP P42371 ASP 139 DELETION SEQRES 1 A 271 PRO GLU LEU PRO GLU VAL GLU THR VAL ARG ARG GLU LEU SEQRES 2 A 271 GLU LYS ARG ILE VAL GLY GLN LYS ILE ILE SER ILE GLU SEQRES 3 A 271 ALA THR TYR PRO ARG MET VAL LEU THR GLY PHE GLU GLN SEQRES 4 A 271 LEU LYS LYS GLU LEU THR GLY LYS THR ILE GLN GLY ILE SEQRES 5 A 271 SER ARG ARG GLY LYS TYR LEU ILE PHE GLU ILE GLY ASP SEQRES 6 A 271 ASP PHE ARG LEU ILE SER HIS LEU ARG MET GLU GLY LYS SEQRES 7 A 271 TYR ARG LEU ALA THR LEU ASP ALA PRO ARG GLU LYS HIS SEQRES 8 A 271 ASP HIS LEU THR MET LYS PHE ALA ASP GLY GLN LEU ILE SEQRES 9 A 271 TYR ALA ASP VAL ARG LYS PHE GLY THR TRP GLU LEU ILE SEQRES 10 A 271 SER THR ASP GLN VAL LEU PRO TYR PHE LEU LYS LYS LYS SEQRES 11 A 271 ILE GLY PRO GLU PRO THR TYR GLU ASP PHE ASP GLU LYS SEQRES 12 A 271 LEU PHE ARG GLU LYS LEU ARG LYS SER THR LYS LYS ILE SEQRES 13 A 271 LYS PRO TYR LEU LEU GLU GLN THR LEU VAL ALA GLY LEU SEQRES 14 A 271 GLY ASN ILE TYR VAL ASP GLU VAL LEU TRP LEU ALA LYS SEQRES 15 A 271 ILE HIS PRO GLU LYS GLU THR ASN GLN LEU ILE GLU SER SEQRES 16 A 271 SER ILE HIS LEU LEU HIS ASP SER ILE ILE GLU ILE LEU SEQRES 17 A 271 GLN LYS ALA ILE LYS LEU GLY GLY SER SER ILE ARG THR SEQRES 18 A 271 TYR SER ALA LEU GLY SER THR GLY LYS MET GLN ASN GLU SEQRES 19 A 271 LEU GLN VAL TYR GLY LYS THR GLY GLU LYS CYS SER ARG SEQRES 20 A 271 CYS GLY ALA GLU ILE GLN LYS ILE LYS VAL ALA GLY ARG SEQRES 21 A 271 GLY THR HIS PHE CYS PRO VAL CYS GLN GLN LYS SEQRES 1 B 14 DC DT DC DT DT DT SOS DT DT DT DC DT DC SEQRES 2 B 14 DG SEQRES 1 C 14 DG DC DG DA DG DA DA DA DC DA DA DA DG SEQRES 2 C 14 DA HET SOS B 7 30 HET 2ON A 300 11 HETNAM SOS [(1R,2S,4R)-4-({2-AMINO-5-[BENZYL(FORMYL)AMINO]-6-OXO- HETNAM 2 SOS 1,6-DIHYDROPYRIMIDIN-4-YL}AMINO)-2- HETNAM 3 SOS HYDROXYCYCLOPENTYL]METHYL DIHYDROGEN PHOSPHATE HETNAM 2ON 2-SULFANYL-1,9-DIHYDRO-6H-PURIN-6-ONE FORMUL 2 SOS C18 H24 N5 O7 P FORMUL 4 2ON C5 H4 N4 O S FORMUL 5 HOH *289(H2 O) HELIX 1 AA1 GLU A 2 VAL A 18 1 17 HELIX 2 AA2 TYR A 29 VAL A 33 5 5 HELIX 3 AA3 GLY A 36 THR A 45 1 10 HELIX 4 AA4 GLN A 121 LYS A 129 1 9 HELIX 5 AA5 ASP A 141 LYS A 151 1 11 HELIX 6 AA6 LYS A 155 GLU A 162 1 8 HELIX 7 AA7 GLY A 170 ALA A 181 1 12 HELIX 8 AA8 GLU A 188 LEU A 192 5 5 HELIX 9 AA9 ILE A 193 LEU A 214 1 22 HELIX 10 AB1 LYS A 230 LEU A 235 5 6 SHEET 1 AA1 4 SER A 24 ALA A 27 0 SHEET 2 AA1 4 ASP A 92 LYS A 97 -1 O LYS A 97 N SER A 24 SHEET 3 AA1 4 GLN A 102 ALA A 106 -1 O TYR A 105 N HIS A 93 SHEET 4 AA1 4 LYS A 78 ALA A 82 -1 N LYS A 78 O ALA A 106 SHEET 1 AA2 4 ILE A 49 ARG A 55 0 SHEET 2 AA2 4 TYR A 58 ILE A 63 -1 O ILE A 60 N SER A 53 SHEET 3 AA2 4 PHE A 67 HIS A 72 -1 O SER A 71 N LEU A 59 SHEET 4 AA2 4 THR A 113 SER A 118 -1 O ILE A 117 N ARG A 68 SHEET 1 AA3 2 GLN A 253 VAL A 257 0 SHEET 2 AA3 2 ARG A 260 PHE A 264 -1 O PHE A 264 N GLN A 253 SSBOND 1 CYS A 245 CYS A 265 1555 1555 2.04 SSBOND 2 CYS A 268 2ON A 300 1555 1555 2.01 LINK O3' DT B 6 P SOS B 7 1555 1555 1.59 LINK O3' SOS B 7 P DT B 8 1555 1555 1.60 CRYST1 91.535 91.535 140.974 90.00 90.00 90.00 P 41 21 2 8 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 0.010925 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010925 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007094 0.00000