HEADER DNA/DNA BINDING PROTEIN 28-MAY-20 6X6D TITLE GLUCOCORTICOID RECEPTOR DNA BINDING DOMAIN IN COMPLEX WITH UNMODIFIED TITLE 2 PRECURSOR FOR A MODERN RECOGNITION ELEMENT (PRE-GBS) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOCORTICOID RECEPTOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GR,NUCLEAR RECEPTOR SUBFAMILY 3 GROUP C MEMBER 1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'- COMPND 8 D(*CP*CP*AP*GP*AP*AP*CP*GP*GP*AP*GP*CP*GP*TP*TP*CP*TP*G)-3'); COMPND 9 CHAIN: C; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'- COMPND 13 D(*TP*CP*AP*GP*AP*AP*CP*GP*CP*TP*CP*CP*GP*TP*TP*CP*TP*G)-3'); COMPND 14 CHAIN: D; COMPND 15 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: NR3C1, GRL; 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: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_TAXID: 9606 KEYWDS GR, PRE-GBS, DNA BINDING PROTEIN, DNA-DNA BINDING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.LIU,E.A.ORTLUND REVDAT 4 18-OCT-23 6X6D 1 REMARK REVDAT 3 22-SEP-21 6X6D 1 JRNL REVDAT 2 04-AUG-21 6X6D 1 JRNL REVDAT 1 02-JUN-21 6X6D 0 JRNL AUTH X.LIU,E.R.WEIKUM,D.TILO,C.VINSON,E.A.ORTLUND JRNL TITL STRUCTURAL BASIS FOR GLUCOCORTICOID RECEPTOR RECOGNITION OF JRNL TITL 2 BOTH UNMODIFIED AND METHYLATED BINDING SITES, PRECURSORS OF JRNL TITL 3 A MODERN RECOGNITION ELEMENT. JRNL REF NUCLEIC ACIDS RES. V. 49 8923 2021 JRNL REFN ESSN 1362-4962 JRNL PMID 34289059 JRNL DOI 10.1093/NAR/GKAB605 REMARK 2 REMARK 2 RESOLUTION. 2.48 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12_2829 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) : 2.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 15307 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 768 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 39.4560 - 4.2395 0.99 3001 159 0.1664 0.1812 REMARK 3 2 4.2395 - 3.3656 0.99 2923 155 0.1724 0.2085 REMARK 3 3 3.3656 - 2.9403 0.98 2884 152 0.2259 0.2351 REMARK 3 4 2.9403 - 2.6715 0.99 2885 152 0.2473 0.2710 REMARK 3 5 2.6715 - 2.4801 0.98 2846 150 0.2826 0.2931 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.460 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 71.88 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 : 0.005 1965 REMARK 3 ANGLE : 0.662 2791 REMARK 3 CHIRALITY : 0.034 306 REMARK 3 PLANARITY : 0.004 234 REMARK 3 DIHEDRAL : 22.598 1060 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 22 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 417 THROUGH 429 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.7455 -26.5024 -4.7829 REMARK 3 T TENSOR REMARK 3 T11: 0.6108 T22: 0.5209 REMARK 3 T33: 0.9829 T12: -0.0021 REMARK 3 T13: 0.0838 T23: -0.0946 REMARK 3 L TENSOR REMARK 3 L11: 4.0445 L22: 5.5150 REMARK 3 L33: 9.4207 L12: 0.1562 REMARK 3 L13: 1.6628 L23: -0.4663 REMARK 3 S TENSOR REMARK 3 S11: 0.4274 S12: 0.0958 S13: -2.7891 REMARK 3 S21: -0.2914 S22: -0.1531 S23: 0.4789 REMARK 3 S31: 1.4185 S32: -0.7403 S33: -0.3300 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 430 THROUGH 450 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.1518 -14.9225 -0.1429 REMARK 3 T TENSOR REMARK 3 T11: 0.4448 T22: 0.3934 REMARK 3 T33: 0.6333 T12: 0.0385 REMARK 3 T13: 0.0549 T23: -0.0531 REMARK 3 L TENSOR REMARK 3 L11: 3.4877 L22: 4.4819 REMARK 3 L33: 7.7622 L12: 1.0413 REMARK 3 L13: 1.6458 L23: -2.6602 REMARK 3 S TENSOR REMARK 3 S11: 0.0919 S12: -0.3073 S13: 0.0792 REMARK 3 S21: 0.6120 S22: -0.1396 S23: 0.8359 REMARK 3 S31: -0.1383 S32: -0.7080 S33: 0.0382 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 451 THROUGH 455 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.3807 -6.0088 6.2154 REMARK 3 T TENSOR REMARK 3 T11: 0.9733 T22: 0.9511 REMARK 3 T33: 1.1945 T12: 0.1172 REMARK 3 T13: -0.4068 T23: -0.1911 REMARK 3 L TENSOR REMARK 3 L11: 2.4445 L22: 4.1219 REMARK 3 L33: 4.2247 L12: -2.8635 REMARK 3 L13: 3.1922 L23: -3.9628 REMARK 3 S TENSOR REMARK 3 S11: -0.4389 S12: -1.2398 S13: 2.1106 REMARK 3 S21: 1.5956 S22: -0.6802 S23: 0.3081 REMARK 3 S31: -1.0519 S32: -0.9439 S33: 0.4923 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 456 THROUGH 465 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.7065 -17.4147 1.7658 REMARK 3 T TENSOR REMARK 3 T11: 0.4757 T22: 0.6301 REMARK 3 T33: 0.7249 T12: -0.0007 REMARK 3 T13: -0.0027 T23: 0.0493 REMARK 3 L TENSOR REMARK 3 L11: 2.0233 L22: 8.6779 REMARK 3 L33: 9.1944 L12: 2.3362 REMARK 3 L13: 2.7950 L23: 0.7756 REMARK 3 S TENSOR REMARK 3 S11: 0.0481 S12: -0.0325 S13: -0.7445 REMARK 3 S21: 0.2713 S22: -0.0738 S23: -1.7352 REMARK 3 S31: -0.1408 S32: 0.9425 S33: 0.2676 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 466 THROUGH 473 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.9541 -23.9890 5.3411 REMARK 3 T TENSOR REMARK 3 T11: 0.6097 T22: 0.5746 REMARK 3 T33: 0.8302 T12: 0.0271 REMARK 3 T13: -0.0450 T23: 0.1210 REMARK 3 L TENSOR REMARK 3 L11: 1.8478 L22: 5.7363 REMARK 3 L33: 7.9874 L12: -0.6430 REMARK 3 L13: 2.9239 L23: 0.4920 REMARK 3 S TENSOR REMARK 3 S11: 0.9056 S12: -1.1735 S13: -1.2279 REMARK 3 S21: -0.6546 S22: -0.2902 S23: 0.0208 REMARK 3 S31: 1.4282 S32: -0.1844 S33: -0.1007 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 474 THROUGH 483 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.7584 -14.3473 -1.6473 REMARK 3 T TENSOR REMARK 3 T11: 0.3692 T22: 0.4317 REMARK 3 T33: 0.5434 T12: -0.0011 REMARK 3 T13: 0.0350 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 8.4497 L22: 3.9705 REMARK 3 L33: 8.8226 L12: -0.5696 REMARK 3 L13: 4.4705 L23: -1.9806 REMARK 3 S TENSOR REMARK 3 S11: -0.3779 S12: 0.3737 S13: 0.2649 REMARK 3 S21: -0.4002 S22: -0.1775 S23: -0.4389 REMARK 3 S31: 0.1688 S32: 0.2056 S33: 0.2241 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 484 THROUGH 490 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.9976 -9.6177 -6.6422 REMARK 3 T TENSOR REMARK 3 T11: 0.6476 T22: 0.4248 REMARK 3 T33: 0.9445 T12: 0.0903 REMARK 3 T13: -0.0737 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.3882 L22: 9.7446 REMARK 3 L33: 2.9924 L12: -1.8364 REMARK 3 L13: -0.3485 L23: 0.7340 REMARK 3 S TENSOR REMARK 3 S11: 0.1663 S12: 0.2564 S13: 1.0268 REMARK 3 S21: -1.2727 S22: -0.3846 S23: 2.1777 REMARK 3 S31: -0.8350 S32: -0.6834 S33: 0.1328 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 418 THROUGH 438 ) REMARK 3 ORIGIN FOR THE GROUP (A): 45.1050 -14.0121 25.6194 REMARK 3 T TENSOR REMARK 3 T11: 1.0705 T22: 1.0067 REMARK 3 T33: 0.7462 T12: 0.0099 REMARK 3 T13: -0.1364 T23: -0.1064 REMARK 3 L TENSOR REMARK 3 L11: 6.2429 L22: 3.2824 REMARK 3 L33: 2.5107 L12: -0.2766 REMARK 3 L13: -0.1185 L23: 2.4984 REMARK 3 S TENSOR REMARK 3 S11: -0.0892 S12: -1.0787 S13: 0.7855 REMARK 3 S21: 1.2740 S22: 0.1239 S23: -0.4544 REMARK 3 S31: -1.4189 S32: 0.6303 S33: -0.0047 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 439 THROUGH 450 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.7103 -22.6442 25.2730 REMARK 3 T TENSOR REMARK 3 T11: 0.9201 T22: 0.8239 REMARK 3 T33: 0.5977 T12: -0.0535 REMARK 3 T13: -0.0249 T23: 0.0868 REMARK 3 L TENSOR REMARK 3 L11: 7.3811 L22: 4.5156 REMARK 3 L33: 3.1410 L12: -0.9504 REMARK 3 L13: 0.7593 L23: 3.5421 REMARK 3 S TENSOR REMARK 3 S11: 0.3560 S12: -1.1787 S13: -0.5176 REMARK 3 S21: 0.7846 S22: -0.4759 S23: 0.4829 REMARK 3 S31: 1.1503 S32: -0.5789 S33: 0.2612 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 451 THROUGH 455 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.2299 -30.4166 18.0312 REMARK 3 T TENSOR REMARK 3 T11: 1.5368 T22: 0.9832 REMARK 3 T33: 1.1889 T12: -0.3281 REMARK 3 T13: 0.1464 T23: 0.1521 REMARK 3 L TENSOR REMARK 3 L11: 1.0326 L22: 0.2073 REMARK 3 L33: -0.0030 L12: -0.4541 REMARK 3 L13: 0.0319 L23: -0.0160 REMARK 3 S TENSOR REMARK 3 S11: -1.5509 S12: -0.9960 S13: -1.1451 REMARK 3 S21: 2.0944 S22: -0.7828 S23: 0.8377 REMARK 3 S31: 3.9403 S32: -1.9679 S33: 0.0984 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 456 THROUGH 465 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.5843 -22.1940 7.0582 REMARK 3 T TENSOR REMARK 3 T11: 0.5466 T22: 0.5370 REMARK 3 T33: 0.5822 T12: 0.0486 REMARK 3 T13: 0.0168 T23: 0.0123 REMARK 3 L TENSOR REMARK 3 L11: 4.1991 L22: 3.3177 REMARK 3 L33: 2.8904 L12: -1.1159 REMARK 3 L13: 0.8984 L23: 2.4675 REMARK 3 S TENSOR REMARK 3 S11: -0.1821 S12: -0.1476 S13: 0.0101 REMARK 3 S21: -0.0856 S22: -0.2556 S23: -0.0772 REMARK 3 S31: -0.1403 S32: -0.2943 S33: 0.0440 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 466 THROUGH 473 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.8433 -13.5159 13.6793 REMARK 3 T TENSOR REMARK 3 T11: 0.9596 T22: 0.6738 REMARK 3 T33: 0.6616 T12: 0.1024 REMARK 3 T13: -0.1427 T23: -0.0344 REMARK 3 L TENSOR REMARK 3 L11: 6.7858 L22: 3.6348 REMARK 3 L33: 2.1472 L12: -0.6994 REMARK 3 L13: 0.7046 L23: 0.5015 REMARK 3 S TENSOR REMARK 3 S11: -0.8573 S12: -0.5859 S13: 0.8765 REMARK 3 S21: -0.6015 S22: -0.6511 S23: -0.1487 REMARK 3 S31: -1.9498 S32: -0.6050 S33: 0.3964 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 474 THROUGH 484 ) REMARK 3 ORIGIN FOR THE GROUP (A): 42.4120 -23.8481 17.1472 REMARK 3 T TENSOR REMARK 3 T11: 0.6904 T22: 0.6260 REMARK 3 T33: 0.6487 T12: 0.0220 REMARK 3 T13: -0.1298 T23: 0.1413 REMARK 3 L TENSOR REMARK 3 L11: 6.4849 L22: 3.0533 REMARK 3 L33: 3.1554 L12: -1.4930 REMARK 3 L13: 2.2892 L23: 1.9239 REMARK 3 S TENSOR REMARK 3 S11: -0.3221 S12: -0.3317 S13: 0.3376 REMARK 3 S21: 0.3874 S22: -0.0141 S23: -1.0273 REMARK 3 S31: 0.5854 S32: 0.5172 S33: -0.0871 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 485 THROUGH 490 ) REMARK 3 ORIGIN FOR THE GROUP (A): 44.1468 -27.4495 29.4136 REMARK 3 T TENSOR REMARK 3 T11: 1.3394 T22: 1.1538 REMARK 3 T33: 0.9486 T12: 0.1405 REMARK 3 T13: 0.0138 T23: 0.1266 REMARK 3 L TENSOR REMARK 3 L11: 5.2972 L22: 2.6261 REMARK 3 L33: 2.7704 L12: -1.3038 REMARK 3 L13: 1.2892 L23: 1.7275 REMARK 3 S TENSOR REMARK 3 S11: 0.2732 S12: -1.9151 S13: -1.6109 REMARK 3 S21: 1.8943 S22: 0.5189 S23: 0.0913 REMARK 3 S31: 2.0751 S32: 0.7139 S33: -0.1213 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 5 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2540 -14.3445 0.7338 REMARK 3 T TENSOR REMARK 3 T11: 0.5255 T22: 0.8841 REMARK 3 T33: 0.8973 T12: 0.0777 REMARK 3 T13: -0.0209 T23: -0.1121 REMARK 3 L TENSOR REMARK 3 L11: 3.1008 L22: 2.7661 REMARK 3 L33: 7.6295 L12: 0.1786 REMARK 3 L13: 3.6025 L23: -2.4680 REMARK 3 S TENSOR REMARK 3 S11: 0.2213 S12: -0.1963 S13: -1.0063 REMARK 3 S21: -0.1474 S22: 0.0159 S23: -0.3490 REMARK 3 S31: -0.5730 S32: -0.3147 S33: 0.0314 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 6 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.5557 -18.9760 17.0765 REMARK 3 T TENSOR REMARK 3 T11: 0.8723 T22: 1.3539 REMARK 3 T33: 0.8876 T12: 0.0193 REMARK 3 T13: -0.0081 T23: 0.1400 REMARK 3 L TENSOR REMARK 3 L11: 8.6968 L22: 3.7455 REMARK 3 L33: 8.7825 L12: -0.0541 REMARK 3 L13: 5.5363 L23: -1.3473 REMARK 3 S TENSOR REMARK 3 S11: -1.1397 S12: -1.2643 S13: -1.1397 REMARK 3 S21: 2.5260 S22: 0.6587 S23: 0.0688 REMARK 3 S31: -1.4344 S32: -0.7006 S33: -0.4697 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 11 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.7637 -14.3461 24.5721 REMARK 3 T TENSOR REMARK 3 T11: 0.9720 T22: 1.1236 REMARK 3 T33: 0.6816 T12: 0.0254 REMARK 3 T13: -0.1627 T23: -0.0814 REMARK 3 L TENSOR REMARK 3 L11: 3.4616 L22: 2.3141 REMARK 3 L33: 7.9227 L12: 0.6800 REMARK 3 L13: 3.4873 L23: -1.0951 REMARK 3 S TENSOR REMARK 3 S11: 0.9483 S12: -1.6794 S13: -0.7276 REMARK 3 S21: 0.2460 S22: -0.4297 S23: -0.6836 REMARK 3 S31: -0.9106 S32: -1.8457 S33: -0.0986 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 16 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.9444 -12.7549 40.7921 REMARK 3 T TENSOR REMARK 3 T11: 1.5807 T22: 2.1494 REMARK 3 T33: 0.5105 T12: 0.3449 REMARK 3 T13: -0.2429 T23: -0.2432 REMARK 3 L TENSOR REMARK 3 L11: 6.7326 L22: 5.7761 REMARK 3 L33: 5.2856 L12: -5.0021 REMARK 3 L13: 4.6450 L23: -5.5132 REMARK 3 S TENSOR REMARK 3 S11: -0.5623 S12: -2.1457 S13: -0.1522 REMARK 3 S21: 2.1936 S22: 1.1783 S23: 0.4109 REMARK 3 S31: -1.2300 S32: -2.1924 S33: 1.9303 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 5 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.0792 -18.7471 36.3867 REMARK 3 T TENSOR REMARK 3 T11: 1.1763 T22: 1.6207 REMARK 3 T33: 0.6894 T12: -0.1218 REMARK 3 T13: -0.2206 T23: 0.0527 REMARK 3 L TENSOR REMARK 3 L11: 7.9995 L22: 3.4297 REMARK 3 L33: 8.7577 L12: -3.0901 REMARK 3 L13: 5.5851 L23: 0.0646 REMARK 3 S TENSOR REMARK 3 S11: -1.0595 S12: -1.1906 S13: -0.8278 REMARK 3 S21: -1.3136 S22: 0.6393 S23: 0.6252 REMARK 3 S31: -1.2844 S32: -0.0453 S33: -0.2496 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 6 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.5540 -13.1517 26.4755 REMARK 3 T TENSOR REMARK 3 T11: 1.0306 T22: 1.6946 REMARK 3 T33: 0.7543 T12: 0.2506 REMARK 3 T13: -0.0976 T23: -0.1191 REMARK 3 L TENSOR REMARK 3 L11: 9.9117 L22: 4.3451 REMARK 3 L33: 8.6653 L12: -1.5358 REMARK 3 L13: 6.3231 L23: 0.5305 REMARK 3 S TENSOR REMARK 3 S11: 0.3216 S12: -2.5384 S13: -0.5321 REMARK 3 S21: 0.8653 S22: 0.6626 S23: 1.1315 REMARK 3 S31: -0.5737 S32: -1.5217 S33: 0.1841 REMARK 3 TLS GROUP : 21 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 11 THROUGH 15 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4318 -19.7677 10.0802 REMARK 3 T TENSOR REMARK 3 T11: 0.6212 T22: 0.6833 REMARK 3 T33: 0.6134 T12: -0.0174 REMARK 3 T13: -0.0350 T23: 0.0412 REMARK 3 L TENSOR REMARK 3 L11: 8.5048 L22: 3.8986 REMARK 3 L33: 9.8004 L12: -1.7285 REMARK 3 L13: 4.3086 L23: 1.2453 REMARK 3 S TENSOR REMARK 3 S11: -0.3092 S12: -1.3056 S13: -1.0731 REMARK 3 S21: -0.6894 S22: 0.1384 S23: 0.2274 REMARK 3 S31: -0.8554 S32: -0.5489 S33: -0.2743 REMARK 3 TLS GROUP : 22 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 16 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.3303 -16.8254 6.6905 REMARK 3 T TENSOR REMARK 3 T11: 0.5324 T22: 0.9227 REMARK 3 T33: 0.9892 T12: 0.0542 REMARK 3 T13: 0.0114 T23: -0.0315 REMARK 3 L TENSOR REMARK 3 L11: 8.5450 L22: 4.4354 REMARK 3 L33: 8.7689 L12: -1.1385 REMARK 3 L13: 5.0645 L23: -1.1292 REMARK 3 S TENSOR REMARK 3 S11: 0.1150 S12: -0.6817 S13: -1.1762 REMARK 3 S21: 0.8911 S22: 0.5543 S23: 1.9925 REMARK 3 S31: -0.4227 S32: -1.0415 S33: -0.0567 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 6X6D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1000249678. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-AUG-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15307 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.480 REMARK 200 RESOLUTION RANGE LOW (A) : 39.456 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.48 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.57 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: 3FYL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM SODIUM CACODYLATE PH 6.5, 80 MM REMARK 280 CALCIUM CHLORIDE, 1 % GLYCEROL, AND 8.5% PEG 400, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 289.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 65.21300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.50000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 65.21300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.50000 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH C 204 LIES ON A SPECIAL POSITION. 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 PRO B 417 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 418 127.88 -37.68 REMARK 500 SER A 425 -2.40 79.40 REMARK 500 HIS A 453 58.79 -68.46 REMARK 500 ARG B 460 27.49 -141.45 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 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 421 SG REMARK 620 2 CYS A 424 SG 116.0 REMARK 620 3 CYS A 438 SG 109.6 105.8 REMARK 620 4 CYS A 441 SG 108.4 117.4 98.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 457 SG REMARK 620 2 CYS A 463 SG 100.4 REMARK 620 3 CYS A 473 SG 116.8 112.2 REMARK 620 4 CYS A 476 SG 109.5 109.6 108.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 421 SG REMARK 620 2 CYS B 424 SG 109.4 REMARK 620 3 CYS B 438 SG 118.7 107.1 REMARK 620 4 CYS B 441 SG 106.7 116.6 98.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 457 SG REMARK 620 2 CYS B 463 SG 101.4 REMARK 620 3 CYS B 473 SG 115.6 116.3 REMARK 620 4 CYS B 476 SG 112.2 109.4 102.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CAC C 101 DBREF 6X6D A 417 490 UNP P04150 GCR_HUMAN 391 464 DBREF 6X6D B 417 490 UNP P04150 GCR_HUMAN 391 464 DBREF 6X6D C 1 18 PDB 6X6D 6X6D 1 18 DBREF 6X6D D 1 18 PDB 6X6D 6X6D 1 18 SEQRES 1 A 74 PRO PRO LYS LEU CYS LEU VAL CYS SER ASP GLU ALA SER SEQRES 2 A 74 GLY CYS HIS TYR GLY VAL LEU THR CYS GLY SER CYS LYS SEQRES 3 A 74 VAL PHE PHE LYS ARG ALA VAL GLU GLY GLN HIS ASN TYR SEQRES 4 A 74 LEU CYS ALA GLY ARG ASN ASP CYS ILE ILE ASP LYS ILE SEQRES 5 A 74 ARG ARG LYS ASN CYS PRO ALA CYS ARG TYR ARG LYS CYS SEQRES 6 A 74 LEU GLN ALA GLY MET ASN LEU GLU ALA SEQRES 1 B 74 PRO PRO LYS LEU CYS LEU VAL CYS SER ASP GLU ALA SER SEQRES 2 B 74 GLY CYS HIS TYR GLY VAL LEU THR CYS GLY SER CYS LYS SEQRES 3 B 74 VAL PHE PHE LYS ARG ALA VAL GLU GLY GLN HIS ASN TYR SEQRES 4 B 74 LEU CYS ALA GLY ARG ASN ASP CYS ILE ILE ASP LYS ILE SEQRES 5 B 74 ARG ARG LYS ASN CYS PRO ALA CYS ARG TYR ARG LYS CYS SEQRES 6 B 74 LEU GLN ALA GLY MET ASN LEU GLU ALA SEQRES 1 C 18 DC DC DA DG DA DA DC DG DG DA DG DC DG SEQRES 2 C 18 DT DT DC DT DG SEQRES 1 D 18 DT DC DA DG DA DA DC DG DC DT DC DC DG SEQRES 2 D 18 DT DT DC DT DG HET ZN A 501 1 HET ZN A 502 1 HET ZN B 501 1 HET ZN B 502 1 HET CAC C 101 5 HETNAM ZN ZINC ION HETNAM CAC CACODYLATE ION HETSYN CAC DIMETHYLARSINATE FORMUL 5 ZN 4(ZN 2+) FORMUL 9 CAC C2 H6 AS O2 1- FORMUL 10 HOH *13(H2 O) HELIX 1 AA1 CYS A 438 GLY A 451 1 14 HELIX 2 AA2 CYS A 473 GLY A 485 1 13 HELIX 3 AA3 CYS B 438 GLY B 451 1 14 HELIX 4 AA4 ILE B 468 ASN B 472 5 5 HELIX 5 AA5 CYS B 473 ALA B 484 1 12 SHEET 1 AA1 2 GLY A 430 HIS A 432 0 SHEET 2 AA1 2 VAL A 435 THR A 437 -1 O VAL A 435 N HIS A 432 SHEET 1 AA2 2 GLY B 430 HIS B 432 0 SHEET 2 AA2 2 VAL B 435 THR B 437 -1 O VAL B 435 N HIS B 432 LINK SG CYS A 421 ZN ZN A 501 1555 1555 2.27 LINK SG CYS A 424 ZN ZN A 501 1555 1555 2.26 LINK SG CYS A 438 ZN ZN A 501 1555 1555 2.34 LINK SG CYS A 441 ZN ZN A 501 1555 1555 2.35 LINK SG CYS A 457 ZN ZN A 502 1555 1555 2.41 LINK SG CYS A 463 ZN ZN A 502 1555 1555 2.34 LINK SG CYS A 473 ZN ZN A 502 1555 1555 2.23 LINK SG CYS A 476 ZN ZN A 502 1555 1555 2.40 LINK SG CYS B 421 ZN ZN B 501 1555 1555 2.46 LINK SG CYS B 424 ZN ZN B 501 1555 1555 2.33 LINK SG CYS B 438 ZN ZN B 501 1555 1555 2.42 LINK SG CYS B 441 ZN ZN B 501 1555 1555 2.30 LINK SG CYS B 457 ZN ZN B 502 1555 1555 2.30 LINK SG CYS B 463 ZN ZN B 502 1555 1555 2.33 LINK SG CYS B 473 ZN ZN B 502 1555 1555 2.21 LINK SG CYS B 476 ZN ZN B 502 1555 1555 2.38 SITE 1 AC1 4 CYS A 421 CYS A 424 CYS A 438 CYS A 441 SITE 1 AC2 4 CYS A 457 CYS A 463 CYS A 473 CYS A 476 SITE 1 AC3 4 CYS B 421 CYS B 424 CYS B 438 CYS B 441 SITE 1 AC4 4 CYS B 457 CYS B 463 CYS B 473 CYS B 476 SITE 1 AC5 1 DG C 9 CRYST1 130.426 39.000 96.791 90.00 118.71 90.00 C 1 2 1 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 0.007667 0.000000 0.004200 0.00000 SCALE2 0.000000 0.025641 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011780 0.00000