PDB Short entry for 6H1D HEADER GENE REGULATION 11-JUL-18 6H1D TITLE CRYSTAL STRUCTURE OF C21ORF127-TRMT112 IN COMPLEX WITH SAH COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMK METHYLTRANSFERASE FAMILY MEMBER 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: M.HSAHEMK2P,N(6)-ADENINE-SPECIFIC DNA METHYLTRANSFERASE 1; COMPND 5 EC: 2.1.1.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: MULTIFUNCTIONAL METHYLTRANSFERASE SUBUNIT TRM112-LIKE COMPND 9 PROTEIN; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: TRNA METHYLTRANSFERASE 112 HOMOLOG; COMPND 12 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: N6AMT1, C21ORF127, HEMK2, PRED28; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: TRMT112, AD-001, HSPC152, HSPC170; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN METHYLTRANSFERASE, HISTONE METHYLATION, COMPLEX, SAH, GENE KEYWDS 2 REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR S.WANG,B.HERMANN,E.METZGER,L.PENG,O.EINSLE,R.SCHUELE REVDAT 2 17-JAN-24 6H1D 1 REMARK REVDAT 1 22-MAY-19 6H1D 0 JRNL AUTH E.METZGER,S.WANG,S.URBAN,D.WILLMANN,A.SCHMIDT,A.OFFERMANN, JRNL AUTH 2 A.ALLEN,M.SUM,N.OBIER,F.COTTARD,S.ULFERTS,B.T.PRECA, JRNL AUTH 3 B.HERMANN,J.MAURER,H.GRESCHIK,V.HORNUNG,O.EINSLE,S.PERNER, JRNL AUTH 4 A.IMHOF,M.JUNG,R.SCHULE JRNL TITL KMT9 MONOMETHYLATES HISTONE H4 LYSINE 12 AND CONTROLS JRNL TITL 2 PROLIFERATION OF PROSTATE CANCER CELLS. JRNL REF NAT.STRUCT.MOL.BIOL. V. 26 361 2019 JRNL REFN ESSN 1545-9985 JRNL PMID 31061526 JRNL DOI 10.1038/S41594-019-0219-9 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.510 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 26185 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1282 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 65.5900 - 4.0400 1.00 2978 154 0.1541 0.2022 REMARK 3 2 4.0400 - 3.2000 1.00 2822 145 0.1691 0.2204 REMARK 3 3 3.2000 - 2.8000 1.00 2773 144 0.2032 0.2538 REMARK 3 4 2.8000 - 2.5400 1.00 2741 147 0.2002 0.2505 REMARK 3 5 2.5400 - 2.3600 1.00 2740 140 0.1930 0.2664 REMARK 3 6 2.3600 - 2.2200 1.00 2748 133 0.1980 0.2709 REMARK 3 7 2.2200 - 2.1100 1.00 2709 133 0.2056 0.2176 REMARK 3 8 2.1100 - 2.0200 1.00 2682 162 0.2308 0.3030 REMARK 3 9 2.0200 - 1.9400 1.00 2710 124 0.2620 0.2717 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.226 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.086 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.20 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 : 0.007 2589 REMARK 3 ANGLE : 0.915 3523 REMARK 3 CHIRALITY : 0.056 405 REMARK 3 PLANARITY : 0.006 456 REMARK 3 DIHEDRAL : 4.862 2167 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 7 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2821 -10.1805 -21.2914 REMARK 3 T TENSOR REMARK 3 T11: 0.1732 T22: 0.4342 REMARK 3 T33: 0.2572 T12: 0.0249 REMARK 3 T13: -0.0029 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.0108 L22: 0.4573 REMARK 3 L33: 0.2553 L12: -0.0107 REMARK 3 L13: 0.0327 L23: -0.0628 REMARK 3 S TENSOR REMARK 3 S11: -0.1499 S12: 0.2985 S13: -0.1568 REMARK 3 S21: -0.0702 S22: -0.0900 S23: -0.5444 REMARK 3 S31: 0.0378 S32: 0.4885 S33: -0.0043 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.9335 -7.6174 -32.4190 REMARK 3 T TENSOR REMARK 3 T11: 0.2539 T22: 0.4183 REMARK 3 T33: -0.0324 T12: -0.0210 REMARK 3 T13: 0.0261 T23: -0.0478 REMARK 3 L TENSOR REMARK 3 L11: 0.2449 L22: 0.1496 REMARK 3 L33: 0.1328 L12: 0.1776 REMARK 3 L13: -0.0603 L23: -0.0860 REMARK 3 S TENSOR REMARK 3 S11: 0.0853 S12: 0.2398 S13: -0.0835 REMARK 3 S21: -0.3822 S22: -0.0272 S23: -0.1475 REMARK 3 S31: 0.0308 S32: 0.3088 S33: 0.0477 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.9059 -3.1658 -20.6985 REMARK 3 T TENSOR REMARK 3 T11: 0.0891 T22: 0.1260 REMARK 3 T33: 0.0646 T12: -0.0065 REMARK 3 T13: 0.0002 T23: 0.0144 REMARK 3 L TENSOR REMARK 3 L11: 0.1013 L22: 0.1106 REMARK 3 L33: 0.0614 L12: 0.0641 REMARK 3 L13: 0.0655 L23: 0.0056 REMARK 3 S TENSOR REMARK 3 S11: 0.0004 S12: 0.1469 S13: 0.0181 REMARK 3 S21: -0.0671 S22: -0.0750 S23: -0.0327 REMARK 3 S31: 0.0104 S32: 0.0696 S33: -0.0003 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 92 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.0066 -4.9642 -14.7100 REMARK 3 T TENSOR REMARK 3 T11: 0.1250 T22: 0.2277 REMARK 3 T33: 0.2331 T12: -0.0460 REMARK 3 T13: 0.0041 T23: -0.0200 REMARK 3 L TENSOR REMARK 3 L11: 0.0599 L22: 0.4961 REMARK 3 L33: 0.3593 L12: 0.1578 REMARK 3 L13: 0.1032 L23: 0.3829 REMARK 3 S TENSOR REMARK 3 S11: -0.0243 S12: -0.0306 S13: 0.1852 REMARK 3 S21: 0.1157 S22: 0.1530 S23: -0.5614 REMARK 3 S31: 0.1032 S32: 0.3363 S33: 0.0597 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 93 THROUGH 106 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.2457 -5.4777 -13.6255 REMARK 3 T TENSOR REMARK 3 T11: 0.1599 T22: 0.1351 REMARK 3 T33: 0.1599 T12: -0.0356 REMARK 3 T13: 0.0290 T23: 0.0109 REMARK 3 L TENSOR REMARK 3 L11: 0.0948 L22: 0.0590 REMARK 3 L33: 0.1954 L12: -0.0657 REMARK 3 L13: 0.0466 L23: 0.0285 REMARK 3 S TENSOR REMARK 3 S11: 0.0657 S12: 0.0949 S13: 0.2079 REMARK 3 S21: 0.0656 S22: 0.1155 S23: 0.0182 REMARK 3 S31: -0.0741 S32: -0.0607 S33: 0.0006 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 107 THROUGH 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.1273 -12.3412 -18.3885 REMARK 3 T TENSOR REMARK 3 T11: 0.1380 T22: 0.1285 REMARK 3 T33: 0.1250 T12: -0.0211 REMARK 3 T13: -0.0371 T23: -0.0245 REMARK 3 L TENSOR REMARK 3 L11: 0.2656 L22: 0.5174 REMARK 3 L33: 0.8849 L12: 0.2980 REMARK 3 L13: -0.1910 L23: -0.3848 REMARK 3 S TENSOR REMARK 3 S11: 0.1871 S12: 0.1282 S13: -0.1214 REMARK 3 S21: -0.2348 S22: -0.0915 S23: 0.1894 REMARK 3 S31: 0.0611 S32: -0.1131 S33: 0.8309 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 130 THROUGH 149 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.0810 -26.1330 -17.7870 REMARK 3 T TENSOR REMARK 3 T11: 0.2656 T22: 0.2174 REMARK 3 T33: 0.1809 T12: 0.0203 REMARK 3 T13: -0.0070 T23: -0.0582 REMARK 3 L TENSOR REMARK 3 L11: 0.0300 L22: 0.1980 REMARK 3 L33: 0.0934 L12: -0.0715 REMARK 3 L13: -0.0279 L23: -0.0043 REMARK 3 S TENSOR REMARK 3 S11: -0.0389 S12: 0.0848 S13: -0.1154 REMARK 3 S21: -0.0561 S22: 0.0170 S23: 0.1295 REMARK 3 S31: 0.2574 S32: 0.0757 S33: -0.0004 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 150 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.7372 -16.0284 -23.3563 REMARK 3 T TENSOR REMARK 3 T11: 0.1868 T22: 0.1776 REMARK 3 T33: 0.2025 T12: -0.0171 REMARK 3 T13: -0.0321 T23: -0.0314 REMARK 3 L TENSOR REMARK 3 L11: 0.4573 L22: 0.1322 REMARK 3 L33: 0.3556 L12: 0.1817 REMARK 3 L13: 0.1967 L23: -0.0597 REMARK 3 S TENSOR REMARK 3 S11: 0.1013 S12: 0.1603 S13: -0.0416 REMARK 3 S21: -0.0397 S22: -0.0420 S23: 0.1609 REMARK 3 S31: 0.0938 S32: -0.1438 S33: 0.0030 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 189 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.8291 -20.9299 -28.9153 REMARK 3 T TENSOR REMARK 3 T11: 0.2860 T22: 0.3021 REMARK 3 T33: 0.2420 T12: -0.0475 REMARK 3 T13: -0.0855 T23: -0.0504 REMARK 3 L TENSOR REMARK 3 L11: 0.0777 L22: 0.1026 REMARK 3 L33: 0.2404 L12: 0.0887 REMARK 3 L13: -0.1374 L23: -0.1567 REMARK 3 S TENSOR REMARK 3 S11: 0.0939 S12: -0.0918 S13: -0.2964 REMARK 3 S21: -0.2557 S22: -0.2039 S23: 0.3252 REMARK 3 S31: 0.4489 S32: -0.1886 S33: -0.0253 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 190 THROUGH 201 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.9244 -15.3238 -34.9819 REMARK 3 T TENSOR REMARK 3 T11: 0.3232 T22: 0.2981 REMARK 3 T33: 0.0923 T12: 0.0430 REMARK 3 T13: -0.0321 T23: -0.1558 REMARK 3 L TENSOR REMARK 3 L11: 0.4081 L22: 0.4756 REMARK 3 L33: 0.2977 L12: -0.3125 REMARK 3 L13: 0.2804 L23: -0.0571 REMARK 3 S TENSOR REMARK 3 S11: 0.0481 S12: 0.1030 S13: -0.0572 REMARK 3 S21: -0.3810 S22: 0.0292 S23: 0.1183 REMARK 3 S31: -0.0286 S32: 0.0351 S33: 0.3511 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 202 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.0848 -16.8855 -31.8152 REMARK 3 T TENSOR REMARK 3 T11: 0.3007 T22: 0.2848 REMARK 3 T33: 0.1340 T12: 0.0556 REMARK 3 T13: -0.0177 T23: -0.0832 REMARK 3 L TENSOR REMARK 3 L11: 0.3507 L22: 0.4929 REMARK 3 L33: 0.1240 L12: 0.4143 REMARK 3 L13: -0.0394 L23: -0.0636 REMARK 3 S TENSOR REMARK 3 S11: 0.0907 S12: 0.1050 S13: 0.0255 REMARK 3 S21: -0.2846 S22: -0.0195 S23: 0.1402 REMARK 3 S31: 0.2707 S32: -0.1776 S33: 0.1018 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 9 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.7263 1.7818 -6.1434 REMARK 3 T TENSOR REMARK 3 T11: 0.1474 T22: 0.1611 REMARK 3 T33: 0.2161 T12: 0.0161 REMARK 3 T13: -0.0126 T23: -0.0171 REMARK 3 L TENSOR REMARK 3 L11: 0.0155 L22: 0.0341 REMARK 3 L33: 0.0096 L12: -0.0029 REMARK 3 L13: -0.0088 L23: -0.0137 REMARK 3 S TENSOR REMARK 3 S11: 0.0294 S12: 0.1485 S13: 0.1504 REMARK 3 S21: -0.0180 S22: 0.0004 S23: -0.0577 REMARK 3 S31: 0.0939 S32: 0.0690 S33: -0.0002 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 10 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.8738 -9.3975 -0.5455 REMARK 3 T TENSOR REMARK 3 T11: 0.1551 T22: 0.2130 REMARK 3 T33: 0.2777 T12: -0.0573 REMARK 3 T13: -0.0351 T23: 0.0289 REMARK 3 L TENSOR REMARK 3 L11: 0.0070 L22: 0.0084 REMARK 3 L33: 0.2385 L12: 0.0081 REMARK 3 L13: 0.0351 L23: 0.0448 REMARK 3 S TENSOR REMARK 3 S11: 0.1274 S12: -0.0835 S13: -0.3774 REMARK 3 S21: -0.0185 S22: -0.0815 S23: 0.2990 REMARK 3 S31: 0.1439 S32: -0.2562 S33: 0.0035 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 25 THROUGH 33 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.6157 2.6435 2.8917 REMARK 3 T TENSOR REMARK 3 T11: 0.1149 T22: 0.1238 REMARK 3 T33: 0.1666 T12: 0.0132 REMARK 3 T13: -0.0133 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.0385 L22: 0.0582 REMARK 3 L33: 0.0626 L12: 0.0322 REMARK 3 L13: 0.0490 L23: 0.0230 REMARK 3 S TENSOR REMARK 3 S11: -0.2155 S12: -0.0549 S13: -0.0838 REMARK 3 S21: 0.0662 S22: 0.0684 S23: -0.3331 REMARK 3 S31: 0.0232 S32: 0.0886 S33: 0.0000 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 34 THROUGH 39 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.6897 12.4979 -14.0057 REMARK 3 T TENSOR REMARK 3 T11: 0.1774 T22: 0.2870 REMARK 3 T33: 0.2539 T12: 0.0032 REMARK 3 T13: 0.0001 T23: 0.0643 REMARK 3 L TENSOR REMARK 3 L11: 0.0055 L22: 0.0192 REMARK 3 L33: 0.0202 L12: 0.0112 REMARK 3 L13: 0.0108 L23: 0.0204 REMARK 3 S TENSOR REMARK 3 S11: 0.0517 S12: 0.2059 S13: -0.0463 REMARK 3 S21: 0.0082 S22: 0.1613 S23: -0.1779 REMARK 3 S31: -0.0722 S32: 0.3621 S33: -0.0002 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 40 THROUGH 49 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.2005 9.7559 -15.8552 REMARK 3 T TENSOR REMARK 3 T11: 0.2130 T22: 0.2197 REMARK 3 T33: 0.2169 T12: -0.0048 REMARK 3 T13: -0.0124 T23: 0.0281 REMARK 3 L TENSOR REMARK 3 L11: 0.0494 L22: 0.0123 REMARK 3 L33: 0.0037 L12: -0.0233 REMARK 3 L13: 0.0108 L23: -0.0082 REMARK 3 S TENSOR REMARK 3 S11: 0.0077 S12: 0.2339 S13: 0.0837 REMARK 3 S21: -0.0798 S22: -0.0368 S23: -0.0285 REMARK 3 S31: 0.0983 S32: -0.2603 S33: 0.0000 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 50 THROUGH 61 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.9090 6.8013 0.3429 REMARK 3 T TENSOR REMARK 3 T11: 0.1336 T22: 0.1752 REMARK 3 T33: 0.1794 T12: 0.0158 REMARK 3 T13: -0.0113 T23: -0.0157 REMARK 3 L TENSOR REMARK 3 L11: 0.0762 L22: 0.0901 REMARK 3 L33: 0.1308 L12: -0.0074 REMARK 3 L13: -0.0066 L23: 0.0051 REMARK 3 S TENSOR REMARK 3 S11: -0.1489 S12: -0.2182 S13: 0.2187 REMARK 3 S21: 0.1316 S22: -0.0291 S23: 0.2599 REMARK 3 S31: -0.0060 S32: -0.2253 S33: -0.0044 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 62 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.3314 15.1037 -0.8678 REMARK 3 T TENSOR REMARK 3 T11: 0.1370 T22: 0.1647 REMARK 3 T33: 0.2438 T12: 0.0213 REMARK 3 T13: -0.0592 T23: -0.0319 REMARK 3 L TENSOR REMARK 3 L11: 0.9455 L22: 0.9027 REMARK 3 L33: 0.6517 L12: 0.4172 REMARK 3 L13: -0.6861 L23: 0.0316 REMARK 3 S TENSOR REMARK 3 S11: 0.1469 S12: 0.1135 S13: 0.2287 REMARK 3 S21: -0.0707 S22: 0.0329 S23: 0.0934 REMARK 3 S31: 0.0414 S32: 0.0802 S33: 0.3060 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 75 THROUGH 90 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.1566 16.4979 -10.6397 REMARK 3 T TENSOR REMARK 3 T11: 0.1130 T22: 0.1205 REMARK 3 T33: 0.2381 T12: -0.0171 REMARK 3 T13: -0.0723 T23: 0.0471 REMARK 3 L TENSOR REMARK 3 L11: 0.1913 L22: 0.0852 REMARK 3 L33: 0.2938 L12: -0.1168 REMARK 3 L13: -0.1755 L23: 0.1453 REMARK 3 S TENSOR REMARK 3 S11: -0.1382 S12: 0.1707 S13: 0.1864 REMARK 3 S21: -0.1538 S22: 0.1618 S23: 0.1441 REMARK 3 S31: -0.0574 S32: 0.0626 S33: 0.0843 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 91 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.7927 0.5196 -0.4325 REMARK 3 T TENSOR REMARK 3 T11: 0.1087 T22: 0.1355 REMARK 3 T33: 0.1422 T12: 0.0054 REMARK 3 T13: -0.0427 T23: 0.0140 REMARK 3 L TENSOR REMARK 3 L11: 1.1517 L22: 0.0854 REMARK 3 L33: 1.1430 L12: 0.2652 REMARK 3 L13: -1.1017 L23: -0.2580 REMARK 3 S TENSOR REMARK 3 S11: -0.2111 S12: -0.0039 S13: -0.0782 REMARK 3 S21: -0.0408 S22: 0.0667 S23: -0.0489 REMARK 3 S31: 0.0746 S32: -0.0588 S33: -0.1626 REMARK 3 TLS GROUP : 21 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 101 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.8291 -9.4926 4.1820 REMARK 3 T TENSOR REMARK 3 T11: 0.0978 T22: 0.1721 REMARK 3 T33: 0.1960 T12: -0.0006 REMARK 3 T13: 0.0240 T23: 0.0256 REMARK 3 L TENSOR REMARK 3 L11: 0.5217 L22: 0.2184 REMARK 3 L33: 0.2159 L12: -0.1424 REMARK 3 L13: 0.1369 L23: -0.2089 REMARK 3 S TENSOR REMARK 3 S11: 0.1274 S12: 0.0605 S13: -0.0726 REMARK 3 S21: 0.0112 S22: 0.1243 S23: 0.0664 REMARK 3 S31: -0.0768 S32: -0.2471 S33: 0.4036 REMARK 3 TLS GROUP : 22 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 119 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.3485 -9.0805 -3.9213 REMARK 3 T TENSOR REMARK 3 T11: 0.1678 T22: 0.1585 REMARK 3 T33: 0.1959 T12: -0.0220 REMARK 3 T13: -0.0063 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.0181 L22: 0.0297 REMARK 3 L33: 0.0156 L12: -0.0122 REMARK 3 L13: -0.0105 L23: 0.0234 REMARK 3 S TENSOR REMARK 3 S11: 0.1789 S12: -0.1334 S13: -0.1329 REMARK 3 S21: -0.0892 S22: -0.1281 S23: -0.0427 REMARK 3 S31: 0.1100 S32: -0.0130 S33: 0.0001 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 6H1D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1200010869. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-AUG-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2810 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26240 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 65.580 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 24.80 REMARK 200 R MERGE (I) : 0.17800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.4200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 24.20 REMARK 200 R MERGE FOR SHELL (I) : 0.90300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.490 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: 3Q87, 4QTT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5, 1.1-1.3 M SODIUM REMARK 280 CITRATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 35.92050 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.92050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 65.55650 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.92050 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.92050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 65.55650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.92050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.92050 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 65.55650 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.92050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.92050 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 65.55650 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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 B 202 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 SER A 214 REMARK 465 MET B 1 REMARK 465 VAL B 17 REMARK 465 GLY B 18 REMARK 465 SER B 19 REMARK 465 SER B 120 REMARK 465 GLU B 121 REMARK 465 GLU B 122 REMARK 465 GLU B 123 REMARK 465 THR B 124 REMARK 465 GLU B 125 REMARK 465 SER B 126 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 HIS A 11 45.47 -150.77 REMARK 500 ALA A 26 -159.48 -130.03 REMARK 500 LEU A 104 -102.07 57.34 REMARK 500 ASN A 178 69.51 62.02 REMARK 500 LEU A 197 136.85 -170.26 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 SAH A 301 DBREF 6H1D A 8 214 UNP Q9Y5N5 HEMK2_HUMAN 8 214 DBREF 6H1D B 3 126 UNP Q9UI30 TR112_HUMAN 2 125 SEQADV 6H1D SER A 7 UNP Q9Y5N5 EXPRESSION TAG SEQADV 6H1D MET B 1 UNP Q9UI30 INITIATING METHIONINE SEQADV 6H1D GLY B 2 UNP Q9UI30 EXPRESSION TAG SEQRES 1 A 208 SER THR PRO PHE HIS GLY HIS VAL GLY ARG GLY ALA PHE SEQRES 2 A 208 SER ASP VAL TYR GLU PRO ALA GLU ASP THR PHE LEU LEU SEQRES 3 A 208 LEU ASP ALA LEU GLU ALA ALA ALA ALA GLU LEU ALA GLY SEQRES 4 A 208 VAL GLU ILE CYS LEU GLU VAL GLY SER GLY SER GLY VAL SEQRES 5 A 208 VAL SER ALA PHE LEU ALA SER MET ILE GLY PRO GLN ALA SEQRES 6 A 208 LEU TYR MET CYS THR ASP ILE ASN PRO GLU ALA ALA ALA SEQRES 7 A 208 CYS THR LEU GLU THR ALA ARG CYS ASN LYS VAL HIS ILE SEQRES 8 A 208 GLN PRO VAL ILE THR ASP LEU VAL LYS GLY LEU LEU PRO SEQRES 9 A 208 ARG LEU THR GLU LYS VAL ASP LEU LEU VAL PHE ASN PRO SEQRES 10 A 208 PRO TYR VAL VAL THR PRO PRO GLN GLU VAL GLY SER HIS SEQRES 11 A 208 GLY ILE GLU ALA ALA TRP ALA GLY GLY ARG ASN GLY ARG SEQRES 12 A 208 GLU VAL MET ASP ARG PHE PHE PRO LEU VAL PRO ASP LEU SEQRES 13 A 208 LEU SER PRO ARG GLY LEU PHE TYR LEU VAL THR ILE LYS SEQRES 14 A 208 GLU ASN ASN PRO GLU GLU ILE LEU LYS ILE MET LYS THR SEQRES 15 A 208 LYS GLY LEU GLN GLY THR THR ALA LEU SER ARG GLN ALA SEQRES 16 A 208 GLY GLN GLU THR LEU SER VAL LEU LYS PHE THR LYS SER SEQRES 1 B 126 MET GLY LYS LEU LEU THR HIS ASN LEU LEU SER SER HIS SEQRES 2 B 126 VAL ARG GLY VAL GLY SER ARG GLY PHE PRO LEU ARG LEU SEQRES 3 B 126 GLN ALA THR GLU VAL ARG ILE CYS PRO VAL GLU PHE ASN SEQRES 4 B 126 PRO ASN PHE VAL ALA ARG MET ILE PRO LYS VAL GLU TRP SEQRES 5 B 126 SER ALA PHE LEU GLU ALA ALA ASP ASN LEU ARG LEU ILE SEQRES 6 B 126 GLN VAL PRO LYS GLY PRO VAL GLU GLY TYR GLU GLU ASN SEQRES 7 B 126 GLU GLU PHE LEU ARG THR MET HIS HIS LEU LEU LEU GLU SEQRES 8 B 126 VAL GLU VAL ILE GLU GLY THR LEU GLN CYS PRO GLU SER SEQRES 9 B 126 GLY ARG MET PHE PRO ILE SER ARG GLY ILE PRO ASN MET SEQRES 10 B 126 LEU LEU SER GLU GLU GLU THR GLU SER HET SAH A 301 26 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 3 SAH C14 H20 N6 O5 S FORMUL 4 HOH *48(H2 O) HELIX 1 AA1 ARG A 16 SER A 20 5 5 HELIX 2 AA2 ALA A 26 ALA A 39 1 14 HELIX 3 AA3 ALA A 39 ALA A 44 1 6 HELIX 4 AA4 GLY A 57 GLY A 68 1 12 HELIX 5 AA5 ASN A 79 ASN A 93 1 15 HELIX 6 AA6 PRO A 129 VAL A 133 5 5 HELIX 7 AA7 GLY A 137 TRP A 142 5 6 HELIX 8 AA8 GLY A 145 GLY A 148 5 4 HELIX 9 AA9 ARG A 149 PHE A 156 1 8 HELIX 10 AB1 LEU A 158 LEU A 162 1 5 HELIX 11 AB2 ASN A 178 LYS A 189 1 12 HELIX 12 AB3 LYS B 3 ASN B 8 1 6 HELIX 13 AB4 ASN B 39 ILE B 47 1 9 HELIX 14 AB5 PRO B 48 VAL B 50 5 3 HELIX 15 AB6 GLU B 51 LEU B 62 1 12 HELIX 16 AB7 GLY B 74 GLU B 77 5 4 HELIX 17 AB8 ASN B 78 GLU B 91 1 14 SHEET 1 AA1 7 GLN A 98 ILE A 101 0 SHEET 2 AA1 7 LEU A 72 ASP A 77 1 N TYR A 73 O GLN A 98 SHEET 3 AA1 7 ILE A 48 VAL A 52 1 N CYS A 49 O LEU A 72 SHEET 4 AA1 7 VAL A 116 PHE A 121 1 O VAL A 120 N VAL A 52 SHEET 5 AA1 7 LEU A 163 ILE A 174 1 O TYR A 170 N LEU A 119 SHEET 6 AA1 7 GLU A 204 THR A 212 -1 O LEU A 209 N LEU A 171 SHEET 7 AA1 7 GLN A 192 ALA A 201 -1 N LEU A 197 O VAL A 208 SHEET 1 AA2 4 ARG B 25 ILE B 33 0 SHEET 2 AA2 4 VAL B 92 GLN B 100 -1 O GLU B 93 N ARG B 32 SHEET 3 AA2 4 MET B 107 SER B 111 -1 O PHE B 108 N LEU B 99 SHEET 4 AA2 4 ILE B 114 PRO B 115 -1 O ILE B 114 N SER B 111 CISPEP 1 LEU A 109 PRO A 110 0 9.05 CISPEP 2 PHE B 22 PRO B 23 0 -8.26 SITE 1 AC1 18 TYR A 23 THR A 29 GLU A 51 GLY A 53 SITE 2 AC1 18 SER A 54 GLY A 55 ASP A 77 ILE A 78 SITE 3 AC1 18 THR A 102 ASP A 103 LEU A 104 ASN A 122 SITE 4 AC1 18 ALA A 140 ARG A 154 HOH A 402 HOH A 404 SITE 5 AC1 18 HOH A 416 HOH A 418 CRYST1 71.841 71.841 131.113 90.00 90.00 90.00 P 42 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 0.013920 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013920 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007627 0.00000