HEADER HYDROLASE 02-AUG-12 4GEW TITLE CRYSTAL STRUCTURE OF TDP2 FROM C. ELEGANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-TYROSYL-DNA PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-362; COMPND 5 SYNONYM: 5'-TYR-DNA PHOSPHODIESTERASE; COMPND 6 EC: 3.1.4.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 3 ORGANISM_COMMON: NEMATODE; SOURCE 4 ORGANISM_TAXID: 6239; SOURCE 5 GENE: Y63D3A.4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS 5'-PHOSPHOTYROSYL-DNA DIESTERASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.SHI,K.KURAHASHI,H.AIHARA REVDAT 3 28-FEB-24 4GEW 1 REMARK REVDAT 2 02-JAN-13 4GEW 1 JRNL REVDAT 1 31-OCT-12 4GEW 0 JRNL AUTH K.SHI,K.KURAHASHI,R.GAO,S.E.TSUTAKAWA,J.A.TAINER,Y.POMMIER, JRNL AUTH 2 H.AIHARA JRNL TITL STRUCTURAL BASIS FOR RECOGNITION OF 5'-PHOSPHOTYROSINE JRNL TITL 2 ADDUCTS BY TDP2. JRNL REF NAT.STRUCT.MOL.BIOL. V. 19 1372 2012 JRNL REFN ISSN 1545-9993 JRNL PMID 23104058 JRNL DOI 10.1038/NSMB.2423 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_1114) 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.19 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 26806 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1348 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 46.1993 - 5.0607 1.00 2733 145 0.1813 0.2239 REMARK 3 2 5.0607 - 4.0176 1.00 2608 128 0.1442 0.1474 REMARK 3 3 4.0176 - 3.5099 1.00 2557 140 0.1493 0.1862 REMARK 3 4 3.5099 - 3.1891 1.00 2533 134 0.1619 0.1969 REMARK 3 5 3.1891 - 2.9606 1.00 2540 128 0.1847 0.2396 REMARK 3 6 2.9606 - 2.7860 1.00 2502 147 0.1888 0.2571 REMARK 3 7 2.7860 - 2.6465 1.00 2515 131 0.2025 0.2230 REMARK 3 8 2.6465 - 2.5313 1.00 2499 125 0.2127 0.2563 REMARK 3 9 2.5313 - 2.4339 1.00 2495 132 0.2221 0.2637 REMARK 3 10 2.4339 - 2.3499 0.99 2476 138 0.2418 0.2602 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.660 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 : 0.004 2704 REMARK 3 ANGLE : 0.912 3627 REMARK 3 CHIRALITY : 0.066 383 REMARK 3 PLANARITY : 0.003 466 REMARK 3 DIHEDRAL : 13.997 995 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 20 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 21:27) REMARK 3 ORIGIN FOR THE GROUP (A): 31.4336 75.9312 76.0054 REMARK 3 T TENSOR REMARK 3 T11: 0.8315 T22: 0.6145 REMARK 3 T33: 0.5496 T12: -0.1412 REMARK 3 T13: -0.0863 T23: -0.1037 REMARK 3 L TENSOR REMARK 3 L11: 8.1392 L22: 4.2717 REMARK 3 L33: 4.2577 L12: 0.2003 REMARK 3 L13: 0.8510 L23: 4.1580 REMARK 3 S TENSOR REMARK 3 S11: -0.3869 S12: 0.3060 S13: 0.4620 REMARK 3 S21: -0.7401 S22: 0.2181 S23: -0.6442 REMARK 3 S31: -1.2568 S32: 1.5126 S33: 0.0287 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 28:34) REMARK 3 ORIGIN FOR THE GROUP (A): 35.1943 75.4974 92.0293 REMARK 3 T TENSOR REMARK 3 T11: 0.9945 T22: 0.7788 REMARK 3 T33: 0.5825 T12: 0.0444 REMARK 3 T13: -0.0407 T23: -0.0881 REMARK 3 L TENSOR REMARK 3 L11: 5.3757 L22: 2.4332 REMARK 3 L33: 5.5880 L12: 3.6270 REMARK 3 L13: 5.4683 L23: 3.6956 REMARK 3 S TENSOR REMARK 3 S11: 0.2871 S12: 1.4043 S13: 0.2970 REMARK 3 S21: -0.4820 S22: -0.0757 S23: -0.4051 REMARK 3 S31: -1.7652 S32: 1.0657 S33: -0.0371 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 35:41) REMARK 3 ORIGIN FOR THE GROUP (A): 46.4290 77.4290 86.0558 REMARK 3 T TENSOR REMARK 3 T11: 1.3634 T22: 1.3918 REMARK 3 T33: 1.2984 T12: -0.1526 REMARK 3 T13: -0.0247 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 3.4989 L22: 5.8355 REMARK 3 L33: 2.3397 L12: -4.1354 REMARK 3 L13: 0.8976 L23: 0.3739 REMARK 3 S TENSOR REMARK 3 S11: 1.3778 S12: 1.6011 S13: -1.0442 REMARK 3 S21: -0.2073 S22: -1.0330 S23: 0.0581 REMARK 3 S31: -0.3102 S32: -0.3633 S33: -0.7941 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 42:52) REMARK 3 ORIGIN FOR THE GROUP (A): 57.0230 66.9263 84.6256 REMARK 3 T TENSOR REMARK 3 T11: 1.1435 T22: 1.6999 REMARK 3 T33: 0.9695 T12: -0.4197 REMARK 3 T13: 0.0108 T23: -0.3075 REMARK 3 L TENSOR REMARK 3 L11: 4.8829 L22: 4.3281 REMARK 3 L33: 6.8519 L12: 4.3306 REMARK 3 L13: -4.1393 L23: -3.0921 REMARK 3 S TENSOR REMARK 3 S11: 0.1400 S12: -1.3887 S13: 0.7308 REMARK 3 S21: 0.5489 S22: 0.0728 S23: -1.5044 REMARK 3 S31: -2.6343 S32: 2.1332 S33: -0.1645 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 53:61) REMARK 3 ORIGIN FOR THE GROUP (A): 50.9980 58.8644 86.0992 REMARK 3 T TENSOR REMARK 3 T11: 1.0394 T22: 1.4286 REMARK 3 T33: 1.0846 T12: 0.0710 REMARK 3 T13: -0.0419 T23: -0.2651 REMARK 3 L TENSOR REMARK 3 L11: 6.7880 L22: 2.0267 REMARK 3 L33: 9.6200 L12: -1.9903 REMARK 3 L13: 3.8550 L23: -0.2836 REMARK 3 S TENSOR REMARK 3 S11: -0.6554 S12: -0.0320 S13: -1.1819 REMARK 3 S21: 1.5638 S22: 0.1387 S23: -0.9387 REMARK 3 S31: 0.7153 S32: 0.1489 S33: 0.6099 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 62:89) REMARK 3 ORIGIN FOR THE GROUP (A): 54.0888 58.5251 75.5397 REMARK 3 T TENSOR REMARK 3 T11: 0.7686 T22: 1.3855 REMARK 3 T33: 0.8962 T12: -0.1896 REMARK 3 T13: 0.0521 T23: -0.2296 REMARK 3 L TENSOR REMARK 3 L11: 7.5124 L22: 2.9925 REMARK 3 L33: 9.5250 L12: 3.6609 REMARK 3 L13: 5.9732 L23: 5.2870 REMARK 3 S TENSOR REMARK 3 S11: -0.6760 S12: 1.0575 S13: -0.0525 REMARK 3 S21: -1.0633 S22: 1.1538 S23: -1.1500 REMARK 3 S31: -1.1153 S32: 2.6967 S33: -0.5672 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 90:114) REMARK 3 ORIGIN FOR THE GROUP (A): 44.6701 43.1343 78.7802 REMARK 3 T TENSOR REMARK 3 T11: 0.7321 T22: 0.8817 REMARK 3 T33: 0.5711 T12: 0.1956 REMARK 3 T13: -0.1159 T23: -0.2161 REMARK 3 L TENSOR REMARK 3 L11: 4.7735 L22: 4.0849 REMARK 3 L33: 1.2951 L12: -4.4357 REMARK 3 L13: -1.7577 L23: 1.7758 REMARK 3 S TENSOR REMARK 3 S11: -0.4943 S12: 0.1039 S13: 0.6466 REMARK 3 S21: 0.4892 S22: 0.5069 S23: -0.3776 REMARK 3 S31: 0.7774 S32: 0.0019 S33: 0.1545 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 115:123) REMARK 3 ORIGIN FOR THE GROUP (A): 53.7936 21.0431 64.7942 REMARK 3 T TENSOR REMARK 3 T11: 0.6673 T22: 0.6694 REMARK 3 T33: 0.5168 T12: -0.0679 REMARK 3 T13: 0.1017 T23: 0.0617 REMARK 3 L TENSOR REMARK 3 L11: 7.8998 L22: 3.5056 REMARK 3 L33: 3.7260 L12: -5.0537 REMARK 3 L13: -5.4263 L23: 3.4693 REMARK 3 S TENSOR REMARK 3 S11: 0.1155 S12: -1.3391 S13: -0.4223 REMARK 3 S21: 0.6782 S22: 0.7304 S23: 0.0258 REMARK 3 S31: 0.1912 S32: 0.6586 S33: -1.0453 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 124:161) REMARK 3 ORIGIN FOR THE GROUP (A): 57.3220 14.1140 44.0564 REMARK 3 T TENSOR REMARK 3 T11: 0.4903 T22: 0.3916 REMARK 3 T33: 0.3785 T12: -0.0463 REMARK 3 T13: 0.0394 T23: -0.0167 REMARK 3 L TENSOR REMARK 3 L11: 6.9209 L22: 6.5859 REMARK 3 L33: 8.0732 L12: -2.0983 REMARK 3 L13: -3.3849 L23: 2.6160 REMARK 3 S TENSOR REMARK 3 S11: -0.0942 S12: 0.4034 S13: -0.3636 REMARK 3 S21: -0.3904 S22: 0.0594 S23: -0.0949 REMARK 3 S31: 0.5092 S32: 0.0818 S33: 0.0515 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 162:193) REMARK 3 ORIGIN FOR THE GROUP (A): 47.8888 15.6048 43.6200 REMARK 3 T TENSOR REMARK 3 T11: 0.4145 T22: 0.5213 REMARK 3 T33: 0.3637 T12: -0.1009 REMARK 3 T13: -0.0020 T23: -0.0610 REMARK 3 L TENSOR REMARK 3 L11: 4.9229 L22: 8.5044 REMARK 3 L33: 6.1324 L12: 0.4283 REMARK 3 L13: -1.5889 L23: -1.8009 REMARK 3 S TENSOR REMARK 3 S11: -0.1416 S12: 0.6176 S13: -0.3802 REMARK 3 S21: -0.7251 S22: 0.1360 S23: 0.4140 REMARK 3 S31: 0.8189 S32: -0.5483 S33: -0.0186 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN A AND RESID 194:201) REMARK 3 ORIGIN FOR THE GROUP (A): 40.3116 23.2679 53.9814 REMARK 3 T TENSOR REMARK 3 T11: 0.7242 T22: 0.9304 REMARK 3 T33: 0.6313 T12: -0.0143 REMARK 3 T13: 0.0592 T23: 0.0496 REMARK 3 L TENSOR REMARK 3 L11: 4.4654 L22: 5.5608 REMARK 3 L33: 4.0129 L12: -5.0003 REMARK 3 L13: 4.1810 L23: -4.6450 REMARK 3 S TENSOR REMARK 3 S11: -0.2867 S12: -1.0752 S13: 0.0747 REMARK 3 S21: 1.1164 S22: 0.2301 S23: 1.0985 REMARK 3 S31: -0.4779 S32: -1.1116 S33: 0.1157 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN A AND RESID 202:217) REMARK 3 ORIGIN FOR THE GROUP (A): 48.9396 31.5102 39.4258 REMARK 3 T TENSOR REMARK 3 T11: 0.4587 T22: 0.6759 REMARK 3 T33: 0.3872 T12: 0.0384 REMARK 3 T13: 0.0029 T23: 0.0673 REMARK 3 L TENSOR REMARK 3 L11: 6.8983 L22: 7.7321 REMARK 3 L33: 7.5211 L12: 3.7173 REMARK 3 L13: -5.1713 L23: -3.7793 REMARK 3 S TENSOR REMARK 3 S11: 0.1472 S12: 0.8287 S13: 0.1791 REMARK 3 S21: -0.7674 S22: 0.1609 S23: 0.2459 REMARK 3 S31: -0.3061 S32: -0.5568 S33: -0.3856 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN A AND RESID 218:235) REMARK 3 ORIGIN FOR THE GROUP (A): 48.3647 27.8864 52.4544 REMARK 3 T TENSOR REMARK 3 T11: 0.2997 T22: 0.4564 REMARK 3 T33: 0.3767 T12: -0.0054 REMARK 3 T13: 0.0211 T23: 0.0231 REMARK 3 L TENSOR REMARK 3 L11: 5.6433 L22: 5.3391 REMARK 3 L33: 9.7390 L12: 1.5917 REMARK 3 L13: -3.9014 L23: -4.1336 REMARK 3 S TENSOR REMARK 3 S11: 0.3413 S12: -0.1181 S13: 0.1541 REMARK 3 S21: 0.3197 S22: 0.0357 S23: 0.4387 REMARK 3 S31: -0.5536 S32: -0.8170 S33: -0.4451 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN A AND RESID 236:251) REMARK 3 ORIGIN FOR THE GROUP (A): 59.0157 38.2080 40.7709 REMARK 3 T TENSOR REMARK 3 T11: 0.6070 T22: 0.4460 REMARK 3 T33: 0.4932 T12: 0.0098 REMARK 3 T13: 0.1380 T23: 0.0743 REMARK 3 L TENSOR REMARK 3 L11: 8.0815 L22: 5.2159 REMARK 3 L33: 8.6099 L12: -5.6365 REMARK 3 L13: 0.8401 L23: 2.5934 REMARK 3 S TENSOR REMARK 3 S11: 0.0744 S12: 0.5214 S13: 0.2414 REMARK 3 S21: -0.4393 S22: -0.2457 S23: -0.1149 REMARK 3 S31: -0.5906 S32: 0.2405 S33: 0.0838 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN A AND RESID 252:276) REMARK 3 ORIGIN FOR THE GROUP (A): 52.2785 34.7359 53.1780 REMARK 3 T TENSOR REMARK 3 T11: 0.5201 T22: 0.5103 REMARK 3 T33: 0.4046 T12: 0.0035 REMARK 3 T13: -0.0043 T23: -0.0388 REMARK 3 L TENSOR REMARK 3 L11: 9.3846 L22: 5.9633 REMARK 3 L33: 5.5934 L12: -2.3797 REMARK 3 L13: -5.7201 L23: -0.2390 REMARK 3 S TENSOR REMARK 3 S11: 0.2552 S12: 0.0944 S13: 0.3129 REMARK 3 S21: 0.4471 S22: -0.1212 S23: 0.1790 REMARK 3 S31: -0.5175 S32: -0.3235 S33: -0.1473 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: (CHAIN A AND RESID 277:281) REMARK 3 ORIGIN FOR THE GROUP (A): 63.6127 41.5557 48.4506 REMARK 3 T TENSOR REMARK 3 T11: 1.0941 T22: 0.6797 REMARK 3 T33: 0.6373 T12: -0.0657 REMARK 3 T13: 0.0155 T23: -0.1657 REMARK 3 L TENSOR REMARK 3 L11: 2.4954 L22: 2.6216 REMARK 3 L33: 9.5927 L12: -2.4540 REMARK 3 L13: -3.1094 L23: 2.5536 REMARK 3 S TENSOR REMARK 3 S11: 0.6564 S12: -0.1763 S13: 2.0442 REMARK 3 S21: -1.0477 S22: 0.2164 S23: -0.6788 REMARK 3 S31: -1.1510 S32: 1.0257 S33: -1.3463 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: (CHAIN A AND RESID 282:290) REMARK 3 ORIGIN FOR THE GROUP (A): 60.1272 35.2976 58.2314 REMARK 3 T TENSOR REMARK 3 T11: 0.6853 T22: 0.5828 REMARK 3 T33: 0.4374 T12: -0.0400 REMARK 3 T13: 0.0910 T23: -0.0825 REMARK 3 L TENSOR REMARK 3 L11: 8.8316 L22: 9.9116 REMARK 3 L33: 6.8067 L12: -4.8148 REMARK 3 L13: -3.4613 L23: 0.2455 REMARK 3 S TENSOR REMARK 3 S11: 0.2634 S12: -0.7814 S13: 0.7628 REMARK 3 S21: 0.9670 S22: -0.2433 S23: -0.0544 REMARK 3 S31: -1.2370 S32: 0.1943 S33: -0.0903 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: (CHAIN A AND RESID 291:311) REMARK 3 ORIGIN FOR THE GROUP (A): 71.4487 23.5574 48.4816 REMARK 3 T TENSOR REMARK 3 T11: 0.3925 T22: 0.4772 REMARK 3 T33: 0.3773 T12: -0.0100 REMARK 3 T13: 0.0227 T23: 0.0295 REMARK 3 L TENSOR REMARK 3 L11: 8.6466 L22: 8.7626 REMARK 3 L33: 8.8846 L12: -1.7792 REMARK 3 L13: -4.5693 L23: 6.0464 REMARK 3 S TENSOR REMARK 3 S11: 0.0387 S12: -0.6765 S13: 0.1748 REMARK 3 S21: 0.1093 S22: 0.2454 S23: -0.3252 REMARK 3 S31: 0.0407 S32: 1.1630 S33: -0.3291 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: (CHAIN A AND RESID 312:329) REMARK 3 ORIGIN FOR THE GROUP (A): 66.3273 28.1800 47.5606 REMARK 3 T TENSOR REMARK 3 T11: 0.4107 T22: 0.3540 REMARK 3 T33: 0.3133 T12: 0.0215 REMARK 3 T13: 0.0316 T23: 0.0351 REMARK 3 L TENSOR REMARK 3 L11: 8.7567 L22: 2.9112 REMARK 3 L33: 7.0898 L12: -1.9754 REMARK 3 L13: -5.2523 L23: 0.8569 REMARK 3 S TENSOR REMARK 3 S11: 0.3862 S12: 0.1857 S13: 0.1393 REMARK 3 S21: -0.3185 S22: -0.2206 S23: -0.3228 REMARK 3 S31: 0.0159 S32: 0.3492 S33: -0.0173 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: (CHAIN A AND RESID 330:362) REMARK 3 ORIGIN FOR THE GROUP (A): 64.4736 17.1574 52.1552 REMARK 3 T TENSOR REMARK 3 T11: 0.5396 T22: 0.4916 REMARK 3 T33: 0.3734 T12: -0.0102 REMARK 3 T13: 0.0238 T23: 0.0281 REMARK 3 L TENSOR REMARK 3 L11: 7.2276 L22: 6.8705 REMARK 3 L33: 4.2877 L12: -5.3158 REMARK 3 L13: -5.4454 L23: 5.1200 REMARK 3 S TENSOR REMARK 3 S11: -0.2410 S12: -0.4204 S13: -0.1384 REMARK 3 S21: 0.3530 S22: 0.2246 S23: -0.0988 REMARK 3 S31: 0.8706 S32: 0.4815 S33: 0.0083 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 4GEW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000074095. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 96 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28157 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% POLYETHYLENE GLYCOL (PEG) 6,000, REMARK 280 0.3M AMMONIUM CHLORIDE, AND 0.1M MES-NAOH, PH 6.0, 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 60.44550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 50.63650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 50.63650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 30.22275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 50.63650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 50.63650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 90.66825 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 50.63650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.63650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 30.22275 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 50.63650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.63650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 90.66825 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 60.44550 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 120.89100 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 A 575 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 MET A 1 REMARK 465 SER A 2 REMARK 465 ASN A 3 REMARK 465 SER A 4 REMARK 465 ASP A 5 REMARK 465 ASP A 6 REMARK 465 GLU A 7 REMARK 465 ILE A 8 REMARK 465 GLN A 9 REMARK 465 GLU A 10 REMARK 465 ILE A 11 REMARK 465 GLU A 12 REMARK 465 ALA A 13 REMARK 465 LYS A 14 REMARK 465 ARG A 15 REMARK 465 GLN A 16 REMARK 465 LYS A 17 REMARK 465 MET A 18 REMARK 465 SER A 19 REMARK 465 GLN A 20 REMARK 465 LYS A 39 REMARK 465 ASN A 40 REMARK 465 SER A 41 REMARK 465 ALA A 98 REMARK 465 SER A 99 REMARK 465 SER A 100 REMARK 465 SER A 101 REMARK 465 MET A 102 REMARK 465 ALA A 103 REMARK 465 SER A 104 REMARK 465 SER A 105 REMARK 465 GLY A 106 REMARK 465 ALA A 107 REMARK 465 ALA A 108 REMARK 465 VAL A 109 REMARK 465 MET A 110 REMARK 465 THR A 111 REMARK 465 ALA A 112 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 GLU A 34 36.63 -91.66 REMARK 500 LYS A 37 -172.10 -66.53 REMARK 500 ASP A 71 -22.40 -30.61 REMARK 500 TRP A 72 42.29 102.53 REMARK 500 THR A 236 146.73 77.58 REMARK 500 PRO A 329 30.64 -78.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 409 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4FPV RELATED DB: PDB REMARK 900 RELATED ID: 4F1H RELATED DB: PDB REMARK 900 RELATED ID: 4F1I RELATED DB: PDB REMARK 900 RELATED ID: 4FVA RELATED DB: PDB DBREF 4GEW A 1 362 UNP Q9XWG3 TYDP2_CAEEL 1 362 SEQRES 1 A 362 MET SER ASN SER ASP ASP GLU ILE GLN GLU ILE GLU ALA SEQRES 2 A 362 LYS ARG GLN LYS MET SER GLN GLU ASP SER GLU VAL GLU SEQRES 3 A 362 ILE GLU ILE LEU ASP GLU PRO GLU GLN GLY LYS LEU LYS SEQRES 4 A 362 ASN SER SER MET SER ASP GLU GLN LYS LEU HIS GLU PHE SEQRES 5 A 362 ALA ILE ILE THR ALA THR ASP GLU ALA PHE ALA GLN SER SEQRES 6 A 362 ILE LEU GLN ASP VAL ASP TRP ASP LEU LYS LYS ALA LEU SEQRES 7 A 362 ASP VAL PHE TYR GLY SER GLU ALA PHE ALA GLU ALA ARG SEQRES 8 A 362 SER ALA ALA VAL MET GLY ALA SER SER SER MET ALA SER SEQRES 9 A 362 SER GLY ALA ALA VAL MET THR ALA GLU ASP LEU LYS GLY SEQRES 10 A 362 PHE GLU VAL SER VAL MET SER TRP ASN ILE ASP GLY LEU SEQRES 11 A 362 ASP GLY ARG SER LEU LEU THR ARG MET LYS ALA VAL ALA SEQRES 12 A 362 HIS ILE VAL LYS ASN VAL ASN PRO ASP ILE LEU PHE LEU SEQRES 13 A 362 GLN GLU VAL VAL ASP ARG ASP LEU ALA PRO ILE ASP LYS SEQRES 14 A 362 LEU GLN SER LEU TYR LYS ILE TYR TYR SER ASN LYS GLY SEQRES 15 A 362 CYS GLN TYR TYR THR ALA ILE LEU VAL SER LYS MET PHE SEQRES 16 A 362 ASP VAL GLU LYS HIS ASP VAL ILE HIS PHE GLN ASN SER SEQRES 17 A 362 GLY MET TYR ARG THR LEU GLN ILE LEU GLU GLY SER ILE SEQRES 18 A 362 GLY GLY LEU LYS VAL PHE LEU LEU ASN THR HIS LEU GLU SEQRES 19 A 362 SER THR ARG GLU HIS ARG PRO GLN ARG CYS ALA GLN PHE SEQRES 20 A 362 GLY PHE CYS MET ASP LYS VAL ARG GLU ILE ILE ALA GLN SEQRES 21 A 362 ASN PRO GLY ALA LEU VAL PHE PHE GLY GLY ASP LEU ASN SEQRES 22 A 362 LEU ARG ASP GLU GLU VAL SER ARG VAL PRO ASP GLY VAL SEQRES 23 A 362 LYS ASP ALA TRP GLU ALA ALA GLY SER ASP ASN LYS THR SEQRES 24 A 362 LYS PHE THR TRP ASP THR PHE LYS ASN ASP ASN LYS GLN SEQRES 25 A 362 GLY PHE HIS GLY ALA LYS MET ARG PHE ASP ARG LEU TYR SEQRES 26 A 362 TRP SER GLY PRO LEU ASP LYS VAL LYS PHE THR LEU GLU SEQRES 27 A 362 GLY ARG GLN ARG ILE ARG SER CYS LEU CYS PHE PRO SER SEQRES 28 A 362 ASP HIS TRP ALA ILE ASN ALA THR PHE PHE ALA HET GOL A 401 6 HET GOL A 402 6 HET GOL A 403 6 HET GOL A 404 6 HET GOL A 405 6 HET GOL A 406 6 HET GOL A 407 6 HET GOL A 408 6 HET GOL A 409 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 9(C3 H8 O3) FORMUL 11 HOH *137(H2 O) HELIX 1 1 SER A 44 ALA A 57 1 14 HELIX 2 2 ASP A 59 LEU A 67 1 9 HELIX 3 3 ASP A 73 SER A 84 1 12 HELIX 4 4 PHE A 87 MET A 96 1 10 HELIX 5 5 SER A 134 ASN A 150 1 17 HELIX 6 6 LEU A 164 LYS A 169 1 6 HELIX 7 7 LEU A 170 SER A 172 5 3 HELIX 8 8 THR A 236 GLU A 238 5 3 HELIX 9 9 HIS A 239 ASN A 261 1 23 HELIX 10 10 ARG A 275 VAL A 279 5 5 HELIX 11 11 ALA A 289 ALA A 293 1 5 HELIX 12 12 ASP A 296 LYS A 300 5 5 SHEET 1 A 6 TYR A 174 TYR A 178 0 SHEET 2 A 6 TYR A 186 SER A 192 -1 O VAL A 191 N LYS A 175 SHEET 3 A 6 ILE A 153 VAL A 159 -1 N VAL A 159 O TYR A 186 SHEET 4 A 6 GLU A 119 ASN A 126 1 N MET A 123 O PHE A 155 SHEET 5 A 6 ALA A 355 PHE A 361 -1 O ALA A 358 N VAL A 122 SHEET 6 A 6 LYS A 332 GLU A 338 -1 N LYS A 334 O THR A 359 SHEET 1 B 6 PHE A 195 HIS A 204 0 SHEET 2 B 6 THR A 213 ILE A 221 -1 O ILE A 216 N ASP A 201 SHEET 3 B 6 LEU A 224 HIS A 232 -1 O VAL A 226 N GLY A 219 SHEET 4 B 6 LEU A 265 ASP A 271 1 O PHE A 267 N LEU A 229 SHEET 5 B 6 ASP A 322 SER A 327 -1 O TYR A 325 N PHE A 268 SHEET 6 B 6 LYS A 287 ASP A 288 -1 N LYS A 287 O TRP A 326 SHEET 1 C 2 TRP A 303 ASP A 304 0 SHEET 2 C 2 LYS A 318 MET A 319 -1 O MET A 319 N TRP A 303 SITE 1 AC1 9 ASP A 31 GLU A 158 HIS A 232 SER A 235 SITE 2 AC1 9 ASP A 271 ASN A 273 TRP A 303 PHE A 321 SITE 3 AC1 9 HIS A 353 SITE 1 AC2 3 LYS A 175 ILE A 176 HOH A 572 SITE 1 AC3 5 GLY A 285 TRP A 326 GLY A 328 LEU A 330 SITE 2 AC3 5 ASP A 331 SITE 1 AC4 4 ASN A 150 PRO A 151 ASP A 152 SER A 192 SITE 1 AC5 4 ALA A 141 GLN A 341 ILE A 343 HOH A 541 SITE 1 AC6 5 ILE A 176 TYR A 177 TYR A 178 HIS A 200 SITE 2 AC6 5 HOH A 636 SITE 1 AC7 3 ALA A 292 LYS A 332 VAL A 333 SITE 1 AC8 2 GLU A 113 PRO A 329 SITE 1 AC9 3 GLU A 113 LEU A 115 ARG A 342 CRYST1 101.273 101.273 120.891 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 0.009874 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009874 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008272 0.00000