HEADER DNA BINDING PROTEIN/DNA 19-DEC-20 7L4K TITLE CRYSTAL STRUCTURE OF THE DRM2-CCG DNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (CYTOSINE-5)-METHYLTRANSFERASE DRM2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN DOMAINS REARRANGED METHYLASE 2; COMPND 5 EC: 2.1.1.37; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(*TP*AP*AP*AP*TP*TP*CP*GP*GP*AP*TP*TP*AP*GP*GP*AP*AP*T)-3'); COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*AP*TP*TP*CP*CP*TP*AP*AP*TP*(C49) COMPND 14 P*CP*GP*AP*AP*TP*TP*TP*A)-3'); COMPND 15 CHAIN: C; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: DRM2, AT5G14620/AT5G14630, T15N1.110/T15N1.120; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 11 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 12 ORGANISM_TAXID: 3702; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 16 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 17 ORGANISM_TAXID: 3702 KEYWDS DNA METHYLTRANSFERASE, COMPLEX, DNA BINDING PROTEIN, DNA BINDING KEYWDS 2 PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.FANG,J.SONG REVDAT 2 18-OCT-23 7L4K 1 REMARK REVDAT 1 04-AUG-21 7L4K 0 JRNL AUTH J.FANG,S.M.LEICHTER,J.JIANG,M.BISWAL,J.LU,Z.M.ZHANG,W.REN, JRNL AUTH 2 J.ZHAI,Q.CUI,X.ZHONG,J.SONG JRNL TITL SUBSTRATE DEFORMATION REGULATES DRM2-MEDIATED DNA JRNL TITL 2 METHYLATION IN PLANTS. JRNL REF SCI ADV V. 7 2021 JRNL REFN ESSN 2375-2548 JRNL PMID 34078593 JRNL DOI 10.1126/SCIADV.ABD9224 REMARK 2 REMARK 2 RESOLUTION. 2.61 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 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) : 2.61 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.32 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 22956 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.690 REMARK 3 FREE R VALUE TEST SET COUNT : 1995 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 41.3180 - 6.2836 0.96 1585 150 0.1555 0.1639 REMARK 3 2 6.2836 - 4.9902 0.99 1521 146 0.1771 0.2003 REMARK 3 3 4.9902 - 4.3602 0.99 1530 144 0.1550 0.1874 REMARK 3 4 4.3602 - 3.9619 0.99 1501 144 0.1637 0.1861 REMARK 3 5 3.9619 - 3.6781 0.99 1502 143 0.2018 0.2303 REMARK 3 6 3.6781 - 3.4614 0.99 1486 142 0.2214 0.2748 REMARK 3 7 3.4614 - 3.2881 0.99 1505 143 0.2372 0.2613 REMARK 3 8 3.2881 - 3.1450 0.99 1484 141 0.2577 0.2771 REMARK 3 9 3.1450 - 3.0240 1.00 1453 139 0.2909 0.3007 REMARK 3 10 3.0240 - 2.9197 1.00 1517 143 0.3138 0.3668 REMARK 3 11 2.9197 - 2.8284 1.00 1470 141 0.3070 0.3443 REMARK 3 12 2.8284 - 2.7476 1.00 1487 141 0.3213 0.3641 REMARK 3 13 2.7476 - 2.6753 0.99 1492 142 0.3382 0.3865 REMARK 3 14 2.6753 - 2.6100 0.98 1428 136 0.3594 0.3566 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) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.710 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.69 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 : 13 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 275 THROUGH 294 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.2942 20.6790 -5.5568 REMARK 3 T TENSOR REMARK 3 T11: 0.5785 T22: 0.3064 REMARK 3 T33: 0.4527 T12: 0.0552 REMARK 3 T13: 0.0125 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 8.0469 L22: 3.7280 REMARK 3 L33: 4.7860 L12: 0.6102 REMARK 3 L13: 1.1903 L23: 1.3980 REMARK 3 S TENSOR REMARK 3 S11: 0.6811 S12: 0.3484 S13: -0.7487 REMARK 3 S21: 0.2378 S22: -0.2337 S23: -0.1528 REMARK 3 S31: 0.7031 S32: -0.0189 S33: -0.3415 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 295 THROUGH 400 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.3365 29.8752 -7.3286 REMARK 3 T TENSOR REMARK 3 T11: 0.3717 T22: 0.3171 REMARK 3 T33: 0.3627 T12: 0.0570 REMARK 3 T13: -0.0139 T23: 0.0438 REMARK 3 L TENSOR REMARK 3 L11: 1.5546 L22: 0.8955 REMARK 3 L33: 1.8629 L12: 0.0291 REMARK 3 L13: -0.5121 L23: 0.1219 REMARK 3 S TENSOR REMARK 3 S11: 0.0050 S12: -0.0156 S13: -0.1627 REMARK 3 S21: 0.0545 S22: -0.0500 S23: -0.0455 REMARK 3 S31: 0.2662 S32: 0.0260 S33: 0.0558 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 401 THROUGH 435 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.7513 27.0923 -27.6484 REMARK 3 T TENSOR REMARK 3 T11: 0.5236 T22: 0.7513 REMARK 3 T33: 0.6444 T12: 0.1552 REMARK 3 T13: 0.0204 T23: 0.0939 REMARK 3 L TENSOR REMARK 3 L11: 3.4848 L22: 4.3186 REMARK 3 L33: 3.5320 L12: 0.7504 REMARK 3 L13: -0.5051 L23: 1.0058 REMARK 3 S TENSOR REMARK 3 S11: -0.0187 S12: -0.1980 S13: -0.5849 REMARK 3 S21: -0.2859 S22: -0.0587 S23: -0.6439 REMARK 3 S31: 0.4091 S32: 0.8151 S33: 0.1299 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 436 THROUGH 470 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.2169 41.6135 -20.1426 REMARK 3 T TENSOR REMARK 3 T11: 0.4839 T22: 0.5123 REMARK 3 T33: 0.4008 T12: 0.0402 REMARK 3 T13: 0.0152 T23: 0.0376 REMARK 3 L TENSOR REMARK 3 L11: 1.4776 L22: 0.5314 REMARK 3 L33: 0.7403 L12: -0.1779 REMARK 3 L13: -0.5505 L23: 0.5238 REMARK 3 S TENSOR REMARK 3 S11: 0.1450 S12: 0.3649 S13: 0.0645 REMARK 3 S21: -0.2821 S22: -0.1738 S23: -0.1249 REMARK 3 S31: -0.4198 S32: 0.0729 S33: 0.0150 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 471 THROUGH 494 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0037 39.7850 -8.7055 REMARK 3 T TENSOR REMARK 3 T11: 0.3880 T22: 0.3751 REMARK 3 T33: 0.4031 T12: 0.0680 REMARK 3 T13: -0.0005 T23: -0.0312 REMARK 3 L TENSOR REMARK 3 L11: 2.6554 L22: 0.7906 REMARK 3 L33: 1.6524 L12: 0.6297 REMARK 3 L13: -1.7322 L23: -0.0913 REMARK 3 S TENSOR REMARK 3 S11: -0.1465 S12: 0.1648 S13: -0.1024 REMARK 3 S21: -0.1635 S22: 0.0464 S23: -0.0872 REMARK 3 S31: 0.1164 S32: 0.0642 S33: 0.0198 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 495 THROUGH 547 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.8567 48.1643 -3.1146 REMARK 3 T TENSOR REMARK 3 T11: 0.3578 T22: 0.3226 REMARK 3 T33: 0.3083 T12: 0.0374 REMARK 3 T13: 0.0161 T23: 0.0438 REMARK 3 L TENSOR REMARK 3 L11: 3.6479 L22: 1.3555 REMARK 3 L33: 1.2181 L12: 1.1602 REMARK 3 L13: -0.0375 L23: 0.0471 REMARK 3 S TENSOR REMARK 3 S11: 0.0234 S12: 0.1166 S13: 0.4429 REMARK 3 S21: -0.1686 S22: 0.0550 S23: 0.1449 REMARK 3 S31: -0.1645 S32: -0.1138 S33: -0.0440 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 548 THROUGH 575 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.8905 52.7789 7.6673 REMARK 3 T TENSOR REMARK 3 T11: 0.3669 T22: 0.3518 REMARK 3 T33: 0.3406 T12: -0.0644 REMARK 3 T13: -0.0124 T23: -0.0145 REMARK 3 L TENSOR REMARK 3 L11: 3.5296 L22: 2.4303 REMARK 3 L33: 3.8346 L12: -1.0001 REMARK 3 L13: 1.0587 L23: -0.1506 REMARK 3 S TENSOR REMARK 3 S11: -0.0267 S12: -0.2175 S13: 0.1338 REMARK 3 S21: 0.2559 S22: 0.0287 S23: 0.0380 REMARK 3 S31: -0.5564 S32: 0.0903 S33: 0.0946 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 576 THROUGH 626 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.1335 38.7499 8.3359 REMARK 3 T TENSOR REMARK 3 T11: 0.4477 T22: 0.4225 REMARK 3 T33: 0.3486 T12: -0.0003 REMARK 3 T13: -0.0416 T23: 0.0726 REMARK 3 L TENSOR REMARK 3 L11: 2.7082 L22: 1.9847 REMARK 3 L33: 0.9814 L12: -1.4599 REMARK 3 L13: -0.2170 L23: 0.9910 REMARK 3 S TENSOR REMARK 3 S11: -0.0914 S12: -0.5401 S13: -0.1189 REMARK 3 S21: 0.3311 S22: 0.0596 S23: -0.0447 REMARK 3 S31: 0.1075 S32: 0.0988 S33: 0.0623 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 5 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.0071 52.8592 -12.6061 REMARK 3 T TENSOR REMARK 3 T11: 0.4966 T22: 0.5521 REMARK 3 T33: 0.6469 T12: -0.1524 REMARK 3 T13: 0.0557 T23: 0.0310 REMARK 3 L TENSOR REMARK 3 L11: 4.4498 L22: 4.2244 REMARK 3 L33: 3.5271 L12: 1.9466 REMARK 3 L13: 2.1647 L23: 0.4565 REMARK 3 S TENSOR REMARK 3 S11: 0.3676 S12: -0.3959 S13: 0.1466 REMARK 3 S21: 0.5460 S22: -0.2306 S23: -0.7289 REMARK 3 S31: -0.6316 S32: 0.5509 S33: -0.1454 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 6 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.8334 20.1271 -7.0064 REMARK 3 T TENSOR REMARK 3 T11: 0.9695 T22: 0.6107 REMARK 3 T33: 0.9185 T12: 0.1886 REMARK 3 T13: -0.0168 T23: -0.0081 REMARK 3 L TENSOR REMARK 3 L11: 2.8155 L22: 3.2104 REMARK 3 L33: 2.3654 L12: -2.0054 REMARK 3 L13: -0.2518 L23: 0.0787 REMARK 3 S TENSOR REMARK 3 S11: 0.1736 S12: 0.2561 S13: -0.8630 REMARK 3 S21: -1.5507 S22: -0.5894 S23: 0.0646 REMARK 3 S31: 1.1417 S32: 0.0003 S33: 0.4532 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 5 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.2485 7.8706 -2.9443 REMARK 3 T TENSOR REMARK 3 T11: 1.3615 T22: 0.7989 REMARK 3 T33: 1.6416 T12: 0.1148 REMARK 3 T13: -0.0423 T23: 0.3359 REMARK 3 L TENSOR REMARK 3 L11: 4.6704 L22: 4.5227 REMARK 3 L33: 0.9939 L12: -0.5228 REMARK 3 L13: -0.0275 L23: 0.1615 REMARK 3 S TENSOR REMARK 3 S11: 0.2799 S12: -0.6604 S13: -0.5274 REMARK 3 S21: 0.3757 S22: -0.7597 S23: 0.1223 REMARK 3 S31: 0.6909 S32: 1.2146 S33: 0.4187 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 6 THROUGH 11 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.7339 26.3120 -9.2778 REMARK 3 T TENSOR REMARK 3 T11: 0.5713 T22: 0.4398 REMARK 3 T33: 0.5364 T12: 0.1370 REMARK 3 T13: 0.0562 T23: 0.1386 REMARK 3 L TENSOR REMARK 3 L11: 2.1777 L22: 5.0773 REMARK 3 L33: 3.3009 L12: 1.7235 REMARK 3 L13: 0.7760 L23: 0.3174 REMARK 3 S TENSOR REMARK 3 S11: -0.4764 S12: -0.0604 S13: -0.4498 REMARK 3 S21: -0.1172 S22: 0.4513 S23: -0.0162 REMARK 3 S31: 0.4587 S32: 0.6979 S33: 0.0335 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 12 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 44.5420 47.4498 -10.4419 REMARK 3 T TENSOR REMARK 3 T11: 0.5401 T22: 0.6557 REMARK 3 T33: 0.7041 T12: -0.0721 REMARK 3 T13: -0.0263 T23: 0.2056 REMARK 3 L TENSOR REMARK 3 L11: 0.4246 L22: 4.9310 REMARK 3 L33: 4.6753 L12: 0.5485 REMARK 3 L13: -0.3679 L23: -4.7650 REMARK 3 S TENSOR REMARK 3 S11: 0.2934 S12: -0.3450 S13: 0.0843 REMARK 3 S21: 0.5088 S22: -1.3149 S23: -0.9902 REMARK 3 S31: 0.1735 S32: 1.4509 S33: 1.0474 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 7L4K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-DEC-20. REMARK 100 THE DEPOSITION ID IS D_1000253702. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-AUG-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0-7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9774 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23003 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.610 REMARK 200 RESOLUTION RANGE LOW (A) : 49.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.19000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.61 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 1.63900 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: 4ONJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% V/V TACSIMATE(PH 6.0), 0.1 M BIS REMARK 280 -TRIS (PH 6.5) AND 20% W/V POLYETHYLENE GLYCOL 3,350., VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.17200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 27.17200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 58.98400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 115.79100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 58.98400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 115.79100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 27.17200 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 58.98400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 115.79100 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 27.17200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 58.98400 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 115.79100 REMARK 290 SMTRY3 8 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 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 SER A 270 REMARK 465 VAL A 271 REMARK 465 ASP A 272 REMARK 465 ASP A 273 REMARK 465 GLU A 274 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 277 NE CZ NH1 NH2 REMARK 470 LYS A 422 CG CD CE NZ REMARK 470 LYS A 442 CE NZ REMARK 470 DA C 1 O5' 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 LEU A 302 NH2 ARG A 620 2.18 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 DA B 16 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DA B 17 O4' - C1' - N9 ANGL. DEV. = 2.3 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 347 94.14 -162.96 REMARK 500 PRO A 421 -173.51 -58.35 REMARK 500 SER A 558 -82.95 -99.81 REMARK 500 SER A 597 41.22 -142.92 REMARK 500 REMARK 500 REMARK: NULL DBREF 7L4K A 270 626 UNP Q9M548 DRM2_ARATH 270 626 DBREF 7L4K B 1 18 PDB 7L4K 7L4K 1 18 DBREF 7L4K C 1 18 PDB 7L4K 7L4K 1 18 SEQRES 1 A 357 SER VAL ASP ASP GLU PRO ILE ARG LEU PRO ASN PRO MET SEQRES 2 A 357 ILE GLY PHE GLY VAL PRO ASN GLU PRO GLY LEU ILE THR SEQRES 3 A 357 HIS ARG SER LEU PRO GLU LEU ALA ARG GLY PRO PRO PHE SEQRES 4 A 357 PHE TYR TYR GLU ASN VAL ALA LEU THR PRO LYS GLY VAL SEQRES 5 A 357 TRP GLU THR ILE SER ARG HIS LEU PHE GLU ILE PRO PRO SEQRES 6 A 357 GLU PHE VAL ASP SER LYS TYR PHE CYS VAL ALA ALA ARG SEQRES 7 A 357 LYS ARG GLY TYR ILE HIS ASN LEU PRO ILE ASN ASN ARG SEQRES 8 A 357 PHE GLN ILE GLN PRO PRO PRO LYS TYR THR ILE HIS ASP SEQRES 9 A 357 ALA PHE PRO LEU SER LYS ARG TRP TRP PRO GLU TRP ASP SEQRES 10 A 357 LYS ARG THR LYS LEU ASN CYS ILE LEU THR CYS THR GLY SEQRES 11 A 357 SER ALA GLN LEU THR ASN ARG ILE ARG VAL ALA LEU GLU SEQRES 12 A 357 PRO TYR ASN GLU GLU PRO GLU PRO PRO LYS HIS VAL GLN SEQRES 13 A 357 ARG TYR VAL ILE ASP GLN CYS LYS LYS TRP ASN LEU VAL SEQRES 14 A 357 TRP VAL GLY LYS ASN LYS ALA ALA PRO LEU GLU PRO ASP SEQRES 15 A 357 GLU MET GLU SER ILE LEU GLY PHE PRO LYS ASN HIS THR SEQRES 16 A 357 ARG GLY GLY GLY MET SER ARG THR GLU ARG PHE LYS SER SEQRES 17 A 357 LEU GLY ASN SER PHE GLN VAL ASP THR VAL ALA TYR HIS SEQRES 18 A 357 LEU SER VAL LEU LYS PRO ILE PHE PRO HIS GLY ILE ASN SEQRES 19 A 357 VAL LEU SER LEU PHE THR GLY ILE GLY GLY GLY GLU VAL SEQRES 20 A 357 ALA LEU HIS ARG LEU GLN ILE LYS MET LYS LEU VAL VAL SEQRES 21 A 357 SER VAL GLU ILE SER LYS VAL ASN ARG ASN ILE LEU LYS SEQRES 22 A 357 ASP PHE TRP GLU GLN THR ASN GLN THR GLY GLU LEU ILE SEQRES 23 A 357 GLU PHE SER ASP ILE GLN HIS LEU THR ASN ASP THR ILE SEQRES 24 A 357 GLU GLY LEU MET GLU LYS TYR GLY GLY PHE ASP LEU VAL SEQRES 25 A 357 ILE GLY GLY SER PRO CYS ASN ASN LEU ALA GLY GLY ASN SEQRES 26 A 357 ARG VAL SER ARG VAL GLY LEU GLU GLY ASP GLN SER SER SEQRES 27 A 357 LEU PHE PHE GLU TYR CYS ARG ILE LEU GLU VAL VAL ARG SEQRES 28 A 357 ALA ARG MET ARG GLY SER SEQRES 1 B 18 DT DA DA DA DT DT DC DG DG DA DT DT DA SEQRES 2 B 18 DG DG DA DA DT SEQRES 1 C 18 DA DT DT DC DC DT DA DA DT C49 DC DG DA SEQRES 2 C 18 DA DT DT DT DA HET C49 C 10 21 HET SAH A 701 26 HET GOL A 702 6 HET GOL A 703 6 HETNAM C49 4-THIO,5-FLUORO,5-METHYL-2'-DEOXY-CYTIDINE-5'- HETNAM 2 C49 MONOPHOSPHATE HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 C49 C10 H15 F N3 O7 P S FORMUL 4 SAH C14 H20 N6 O5 S FORMUL 5 GOL 2(C3 H8 O3) FORMUL 7 HOH *57(H2 O) HELIX 1 AA1 PRO A 300 ARG A 304 5 5 HELIX 2 AA2 GLY A 320 LEU A 329 1 10 HELIX 3 AA3 LYS A 340 PHE A 342 5 3 HELIX 4 AA4 THR A 370 PHE A 375 1 6 HELIX 5 AA5 PRO A 376 TRP A 381 5 6 HELIX 6 AA6 SER A 400 GLU A 412 1 13 HELIX 7 AA7 PRO A 413 ASN A 415 5 3 HELIX 8 AA8 PRO A 421 ASN A 436 1 16 HELIX 9 AA9 GLU A 449 LEU A 457 1 9 HELIX 10 AB1 SER A 470 ASN A 480 1 11 HELIX 11 AB2 GLN A 483 SER A 492 1 10 HELIX 12 AB3 VAL A 493 LYS A 495 5 3 HELIX 13 AB4 GLY A 512 LEU A 521 1 10 HELIX 14 AB5 SER A 534 THR A 548 1 15 HELIX 15 AB6 ASP A 559 LEU A 563 5 5 HELIX 16 AB7 THR A 564 GLY A 576 1 13 HELIX 17 AB8 GLN A 605 SER A 607 5 3 HELIX 18 AB9 LEU A 608 ARG A 624 1 17 SHEET 1 AA1 7 GLU A 335 ASP A 338 0 SHEET 2 AA1 7 LYS A 348 HIS A 353 -1 O TYR A 351 N GLU A 335 SHEET 3 AA1 7 PHE A 308 VAL A 314 -1 N TYR A 311 O ILE A 352 SHEET 4 AA1 7 LEU A 580 GLY A 583 1 O VAL A 581 N TYR A 310 SHEET 5 AA1 7 ILE A 502 LEU A 507 1 N LEU A 505 O LEU A 580 SHEET 6 AA1 7 MET A 525 VAL A 531 1 O LEU A 527 N VAL A 504 SHEET 7 AA1 7 GLU A 553 PHE A 557 1 O PHE A 557 N SER A 530 SHEET 1 AA2 2 LEU A 437 GLY A 441 0 SHEET 2 AA2 2 LYS A 444 PRO A 447 -1 O ALA A 446 N VAL A 438 LINK SG CYS A 587 C6 C49 C 10 1555 1555 1.84 LINK O3' DT C 9 P C49 C 10 1555 1555 1.61 LINK O3' C49 C 10 P DC C 11 1555 1555 1.61 CISPEP 1 ASN A 280 PRO A 281 0 2.28 CISPEP 2 GLY A 305 PRO A 306 0 1.03 CISPEP 3 PRO A 306 PRO A 307 0 1.53 CISPEP 4 GLN A 364 PRO A 365 0 -3.54 CRYST1 117.968 231.582 54.344 90.00 90.00 90.00 C 2 2 21 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 0.008477 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004318 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018401 0.00000