HEADER HYDROLASE 15-OCT-19 6T57 TITLE THROMBIN IN COMPLEX WITH A D-PHE-PRO-N-AMIDINOPIPERIDINE DERIVATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTHROMBIN; COMPND 3 CHAIN: L; COMPND 4 SYNONYM: COAGULATION FACTOR II; COMPND 5 EC: 3.4.21.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PROTHROMBIN; COMPND 8 CHAIN: H; COMPND 9 SYNONYM: COAGULATION FACTOR II; COMPND 10 EC: 3.4.21.5; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: HIRUDIN VARIANT-2; COMPND 13 CHAIN: I; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 12 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 13 ORGANISM_TAXID: 6421 KEYWDS COAGULATION, BLOOD CLOTTING, CONVERTION OF FIBRINOGEN TO FIBRIN, KEYWDS 2 SERINE PROTEASE, PROTEASE, THROMBIN INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.NGO,N.ABAZI,A.HEINE,G.KLEBE REVDAT 2 24-JAN-24 6T57 1 REMARK REVDAT 1 18-NOV-20 6T57 0 JRNL AUTH K.NGO,N.ABAZI,A.HEINE,G.KLEBE JRNL TITL THROMBIN IN COMPLEX WITH A D-PHE-PRO-N-AMIDINOPIPERIDINE JRNL TITL 2 DERIVATIVE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.57 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.57 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.73 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 48226 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2411 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 43.7300 - 4.0300 0.97 2808 147 0.1706 0.1674 REMARK 3 2 4.0300 - 3.2000 0.96 2700 142 0.1665 0.2043 REMARK 3 3 3.2000 - 2.7900 0.97 2737 144 0.1912 0.1892 REMARK 3 4 2.7900 - 2.5400 0.98 2758 146 0.2041 0.2264 REMARK 3 5 2.5400 - 2.3600 0.96 2691 141 0.1976 0.2270 REMARK 3 6 2.3600 - 2.2200 0.97 2716 143 0.2044 0.2122 REMARK 3 7 2.2200 - 2.1100 0.97 2714 143 0.1907 0.2573 REMARK 3 8 2.1100 - 2.0200 0.97 2711 143 0.1991 0.2219 REMARK 3 9 2.0200 - 1.9400 0.98 2707 142 0.1991 0.2280 REMARK 3 10 1.9400 - 1.8700 0.97 2727 144 0.2095 0.2505 REMARK 3 11 1.8700 - 1.8100 0.92 2572 135 0.2267 0.2725 REMARK 3 12 1.8100 - 1.7600 0.96 2692 142 0.2271 0.2222 REMARK 3 13 1.7600 - 1.7100 0.97 2684 141 0.2313 0.2867 REMARK 3 14 1.7100 - 1.6700 0.96 2674 141 0.2286 0.2623 REMARK 3 15 1.6700 - 1.6300 0.96 2696 142 0.2597 0.2806 REMARK 3 16 1.6300 - 1.6000 0.96 2685 142 0.2952 0.3200 REMARK 3 17 1.6000 - 1.5700 0.92 2543 133 0.3283 0.3468 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) : 0.192 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.462 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.77 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 2448 REMARK 3 ANGLE : 0.888 3321 REMARK 3 CHIRALITY : 0.057 346 REMARK 3 PLANARITY : 0.006 434 REMARK 3 DIHEDRAL : 17.354 1473 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 1C THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9491 14.9354 18.2788 REMARK 3 T TENSOR REMARK 3 T11: 0.2594 T22: 0.2479 REMARK 3 T33: 0.2742 T12: 0.0987 REMARK 3 T13: 0.0346 T23: 0.0319 REMARK 3 L TENSOR REMARK 3 L11: 0.0064 L22: 0.0011 REMARK 3 L33: 0.0015 L12: 0.0004 REMARK 3 L13: 0.0034 L23: 0.0002 REMARK 3 S TENSOR REMARK 3 S11: 0.0100 S12: 0.0217 S13: 0.0190 REMARK 3 S21: -0.0193 S22: -0.0895 S23: -0.0467 REMARK 3 S31: -0.0883 S32: -0.0103 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 8 THROUGH 14B) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5550 12.4809 20.8773 REMARK 3 T TENSOR REMARK 3 T11: 0.2170 T22: 0.2820 REMARK 3 T33: 0.3068 T12: 0.1257 REMARK 3 T13: 0.0250 T23: -0.0207 REMARK 3 L TENSOR REMARK 3 L11: 0.0070 L22: 0.0374 REMARK 3 L33: 0.0091 L12: 0.0095 REMARK 3 L13: -0.0020 L23: -0.0171 REMARK 3 S TENSOR REMARK 3 S11: -0.0006 S12: 0.0079 S13: 0.0067 REMARK 3 S21: -0.0066 S22: -0.0295 S23: 0.0144 REMARK 3 S31: -0.0405 S32: -0.0401 S33: -0.0078 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 14C THROUGH 14K) REMARK 3 ORIGIN FOR THE GROUP (A): -0.5016 5.9441 33.1684 REMARK 3 T TENSOR REMARK 3 T11: 0.2087 T22: 0.2420 REMARK 3 T33: 0.3056 T12: 0.0542 REMARK 3 T13: 0.0724 T23: -0.0203 REMARK 3 L TENSOR REMARK 3 L11: 0.0082 L22: 0.0043 REMARK 3 L33: 0.0059 L12: 0.0038 REMARK 3 L13: 0.0024 L23: -0.0016 REMARK 3 S TENSOR REMARK 3 S11: 0.0204 S12: -0.0078 S13: -0.0015 REMARK 3 S21: 0.0317 S22: 0.0175 S23: 0.0376 REMARK 3 S31: 0.0039 S32: -0.0349 S33: 0.0041 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 16 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2034 0.9781 17.2320 REMARK 3 T TENSOR REMARK 3 T11: 0.2493 T22: 0.2578 REMARK 3 T33: 0.2828 T12: 0.0860 REMARK 3 T13: -0.0460 T23: -0.0445 REMARK 3 L TENSOR REMARK 3 L11: 0.0052 L22: 0.0032 REMARK 3 L33: 0.0047 L12: 0.0002 REMARK 3 L13: 0.0047 L23: -0.0039 REMARK 3 S TENSOR REMARK 3 S11: 0.1469 S12: 0.0610 S13: -0.0340 REMARK 3 S21: -0.0370 S22: -0.0474 S23: 0.0606 REMARK 3 S31: 0.0074 S32: -0.0454 S33: -0.0001 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 30 THROUGH 50 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3327 -0.7781 8.6525 REMARK 3 T TENSOR REMARK 3 T11: 0.3454 T22: 0.4149 REMARK 3 T33: 0.1988 T12: 0.3297 REMARK 3 T13: 0.0275 T23: -0.0481 REMARK 3 L TENSOR REMARK 3 L11: 0.0704 L22: 0.0571 REMARK 3 L33: 0.0979 L12: -0.0074 REMARK 3 L13: 0.0164 L23: -0.0129 REMARK 3 S TENSOR REMARK 3 S11: 0.0601 S12: 0.1577 S13: -0.0898 REMARK 3 S21: -0.0992 S22: -0.0603 S23: 0.0092 REMARK 3 S31: 0.1069 S32: 0.0523 S33: 0.0080 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 51 THROUGH 60I) REMARK 3 ORIGIN FOR THE GROUP (A): 23.3077 -6.7765 14.3743 REMARK 3 T TENSOR REMARK 3 T11: 0.2802 T22: 0.4576 REMARK 3 T33: 0.2426 T12: 0.3993 REMARK 3 T13: 0.0025 T23: -0.0474 REMARK 3 L TENSOR REMARK 3 L11: 0.0498 L22: 0.1725 REMARK 3 L33: 0.0547 L12: -0.0902 REMARK 3 L13: -0.0070 L23: -0.0128 REMARK 3 S TENSOR REMARK 3 S11: 0.1059 S12: 0.1302 S13: 0.0134 REMARK 3 S21: -0.0241 S22: 0.0394 S23: -0.0574 REMARK 3 S31: 0.0276 S32: 0.0244 S33: 0.2450 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 61 THROUGH 80 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7723 0.5331 3.6229 REMARK 3 T TENSOR REMARK 3 T11: 0.4811 T22: 0.5245 REMARK 3 T33: 0.1873 T12: 0.3662 REMARK 3 T13: -0.0296 T23: -0.0777 REMARK 3 L TENSOR REMARK 3 L11: 0.0206 L22: 0.0830 REMARK 3 L33: 0.0199 L12: 0.0091 REMARK 3 L13: -0.0145 L23: 0.0203 REMARK 3 S TENSOR REMARK 3 S11: 0.0246 S12: 0.0523 S13: -0.0255 REMARK 3 S21: -0.1002 S22: -0.0412 S23: 0.0375 REMARK 3 S31: 0.0501 S32: 0.0536 S33: -0.0181 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 81 THROUGH 103 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.6403 -2.5585 18.1940 REMARK 3 T TENSOR REMARK 3 T11: 0.2451 T22: 0.4428 REMARK 3 T33: 0.2436 T12: 0.2554 REMARK 3 T13: 0.0280 T23: 0.0283 REMARK 3 L TENSOR REMARK 3 L11: 0.1565 L22: 0.0076 REMARK 3 L33: 0.0858 L12: 0.0280 REMARK 3 L13: 0.0691 L23: 0.0272 REMARK 3 S TENSOR REMARK 3 S11: 0.1469 S12: 0.1810 S13: 0.0102 REMARK 3 S21: -0.0477 S22: -0.0025 S23: -0.1174 REMARK 3 S31: -0.0018 S32: -0.0104 S33: 0.2463 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 104 THROUGH 140 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.2078 8.2833 21.7818 REMARK 3 T TENSOR REMARK 3 T11: 0.1985 T22: 0.2877 REMARK 3 T33: 0.2318 T12: 0.0937 REMARK 3 T13: 0.0241 T23: 0.0341 REMARK 3 L TENSOR REMARK 3 L11: 0.1647 L22: 0.5279 REMARK 3 L33: 0.0276 L12: 0.2706 REMARK 3 L13: 0.0666 L23: 0.1130 REMARK 3 S TENSOR REMARK 3 S11: 0.1694 S12: 0.1007 S13: 0.0899 REMARK 3 S21: 0.0878 S22: -0.1826 S23: -0.0230 REMARK 3 S31: 0.0278 S32: 0.0804 S33: 0.0138 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 141 THROUGH 164 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0653 -7.1266 20.6864 REMARK 3 T TENSOR REMARK 3 T11: 0.3323 T22: 0.2464 REMARK 3 T33: 0.2861 T12: 0.1067 REMARK 3 T13: -0.1090 T23: -0.0704 REMARK 3 L TENSOR REMARK 3 L11: 0.0344 L22: 0.0242 REMARK 3 L33: 0.0058 L12: 0.0297 REMARK 3 L13: -0.0131 L23: -0.0106 REMARK 3 S TENSOR REMARK 3 S11: 0.1555 S12: 0.0551 S13: -0.1992 REMARK 3 S21: -0.0295 S22: -0.1156 S23: 0.1772 REMARK 3 S31: 0.0942 S32: 0.0226 S33: -0.0025 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 165 THROUGH 179 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.6736 -10.3740 35.9928 REMARK 3 T TENSOR REMARK 3 T11: 0.3040 T22: 0.1757 REMARK 3 T33: 0.2737 T12: 0.0425 REMARK 3 T13: -0.0615 T23: 0.0153 REMARK 3 L TENSOR REMARK 3 L11: 0.0015 L22: 0.0021 REMARK 3 L33: 0.0046 L12: 0.0023 REMARK 3 L13: -0.0043 L23: -0.0037 REMARK 3 S TENSOR REMARK 3 S11: 0.0409 S12: -0.0175 S13: -0.0646 REMARK 3 S21: 0.0248 S22: -0.0247 S23: -0.0174 REMARK 3 S31: 0.0729 S32: 0.0655 S33: 0.0000 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 180 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.8482 -9.3725 29.7337 REMARK 3 T TENSOR REMARK 3 T11: 0.2949 T22: 0.1664 REMARK 3 T33: 0.2979 T12: 0.0368 REMARK 3 T13: -0.0574 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.0018 L22: 0.0105 REMARK 3 L33: 0.0072 L12: -0.0018 REMARK 3 L13: 0.0034 L23: -0.0099 REMARK 3 S TENSOR REMARK 3 S11: 0.0932 S12: -0.0096 S13: -0.1636 REMARK 3 S21: -0.0496 S22: 0.0039 S23: 0.0642 REMARK 3 S31: 0.1298 S32: 0.0189 S33: 0.0000 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 194 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4638 -1.1153 26.8910 REMARK 3 T TENSOR REMARK 3 T11: 0.2288 T22: 0.1678 REMARK 3 T33: 0.2423 T12: 0.0901 REMARK 3 T13: -0.0129 T23: -0.0234 REMARK 3 L TENSOR REMARK 3 L11: 0.0858 L22: 0.0858 REMARK 3 L33: 0.0607 L12: 0.0779 REMARK 3 L13: 0.0105 L23: -0.0008 REMARK 3 S TENSOR REMARK 3 S11: 0.1699 S12: 0.0572 S13: -0.0799 REMARK 3 S21: 0.0252 S22: -0.0909 S23: 0.0970 REMARK 3 S31: 0.1328 S32: 0.0328 S33: 0.1249 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 232 THROUGH 246 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.5043 8.8714 22.7876 REMARK 3 T TENSOR REMARK 3 T11: 0.1676 T22: 0.3018 REMARK 3 T33: 0.3706 T12: 0.0605 REMARK 3 T13: 0.0540 T23: 0.0729 REMARK 3 L TENSOR REMARK 3 L11: 0.0007 L22: 0.0020 REMARK 3 L33: 0.0034 L12: 0.0016 REMARK 3 L13: -0.0004 L23: 0.0015 REMARK 3 S TENSOR REMARK 3 S11: 0.0161 S12: 0.0384 S13: 0.0488 REMARK 3 S21: 0.0019 S22: -0.0337 S23: -0.0409 REMARK 3 S31: -0.0121 S32: 0.0297 S33: -0.0020 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'I' AND (RESID 517 THROUGH 527 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7090 -1.3128 -2.8278 REMARK 3 T TENSOR REMARK 3 T11: 0.6697 T22: 0.7331 REMARK 3 T33: 0.3015 T12: 0.3705 REMARK 3 T13: 0.0000 T23: -0.1082 REMARK 3 L TENSOR REMARK 3 L11: 0.0139 L22: 0.0081 REMARK 3 L33: 0.0169 L12: -0.0103 REMARK 3 L13: -0.0152 L23: 0.0118 REMARK 3 S TENSOR REMARK 3 S11: 0.0266 S12: 0.0349 S13: -0.0034 REMARK 3 S21: -0.0032 S22: 0.0043 S23: -0.0093 REMARK 3 S31: 0.0148 S32: -0.0094 S33: 0.0134 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 6T57 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292104873. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48242 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.568 REMARK 200 RESOLUTION RANGE LOW (A) : 43.735 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 3.520 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04200 REMARK 200 FOR THE DATA SET : 15.0300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.57 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 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) : 0.48200 REMARK 200 FOR SHELL : 2.280 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: 4UE7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MM NAH2PO4, 350 MM NACL, 27% (W/V) REMARK 280 PEG8000, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 35.14500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.83000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.14500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.83000 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 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, I 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 H 403 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 THR L -4 REMARK 465 PHE L -3 REMARK 465 GLY L -2 REMARK 465 SER L -1 REMARK 465 GLY L 0 REMARK 465 ASP L 15 REMARK 465 GLY L 16 REMARK 465 ARG L 17 REMARK 465 THR H 146A REMARK 465 TRP H 146B REMARK 465 THR H 146C REMARK 465 ALA H 146D REMARK 465 ASN H 146E REMARK 465 VAL H 146F REMARK 465 GLY H 146G REMARK 465 LYS H 146H REMARK 465 GLU H 247 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 GLU L 1C CG CD OE1 OE2 REMARK 470 LYS L 14A CD CE NZ REMARK 470 ARG L 14D CD NE CZ NH1 NH2 REMARK 470 LEU L 14G CD2 REMARK 470 GLU H 18 OE1 OE2 REMARK 470 LEU H 33 CD1 REMARK 470 SER H 36A OG REMARK 470 ASN H 62 OD1 ND2 REMARK 470 LEU H 85 CD1 REMARK 470 LYS H 87 CG CD CE NZ REMARK 470 LYS H 110 CE NZ REMARK 470 LYS H 145 CE NZ REMARK 470 GLN H 151 OE1 NE2 REMARK 470 SER H 153 OG REMARK 470 LYS H 185 NZ REMARK 470 ASP H 187 CG OD1 OD2 REMARK 470 LYS H 187C CG CD CE NZ REMARK 470 LYS H 236 CD CE NZ REMARK 470 GLN H 239 CG CD OE1 NE2 REMARK 470 LYS H 240 CD CE NZ REMARK 470 ASP I 517 CG OD1 OD2 REMARK 470 GLU I 520 CG CD OE1 OE2 REMARK 470 GLU I 523 CG CD OE1 OE2 REMARK 470 GLU I 524 CG CD OE1 OE2 REMARK 470 LEU I 526 CG CD1 CD2 REMARK 470 GLN I 527 CG CD OE1 NE2 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 PHE L 7 -86.94 -132.86 REMARK 500 TYR H 60A 86.93 -152.81 REMARK 500 ASN H 60G 78.13 -156.18 REMARK 500 HIS H 71 -64.40 -130.39 REMARK 500 ILE H 79 -61.81 -127.65 REMARK 500 GLU H 97A -75.00 -115.98 REMARK 500 SER H 214 -65.94 -122.17 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 NA H 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS H 169 O REMARK 620 2 THR H 172 O 75.7 REMARK 620 3 PHE H 204A O 14.4 83.5 REMARK 620 4 HOH H 442 O 93.1 160.9 82.5 REMARK 620 5 HOH H 506 O 157.6 88.5 150.7 97.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 221A O REMARK 620 2 LYS H 224 O 92.9 REMARK 620 3 HOH H 449 O 106.7 111.1 REMARK 620 4 HOH H 467 O 152.6 71.0 99.8 REMARK 620 5 HOH H 492 O 74.8 76.5 171.9 79.8 REMARK 620 6 HOH H 503 O 99.6 147.2 94.2 84.8 77.7 REMARK 620 N 1 2 3 4 5 DBREF 6T57 L -4 17 UNP P00734 THRB_HUMAN 328 363 DBREF 6T57 H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 6T57 I 517 527 UNP P09945 HIRV2_HIRME 62 72 SEQRES 1 L 36 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 2 L 36 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 3 L 36 GLU LEU LEU GLU SER TYR ILE ASP GLY ARG SEQRES 1 H 259 ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER PRO SEQRES 2 H 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 H 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 H 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 H 259 ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 H 259 HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS ILE SEQRES 7 H 259 SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 H 259 TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET LYS SEQRES 9 H 259 LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS PRO SEQRES 10 H 259 VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU LEU SEQRES 11 H 259 GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 H 259 LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY GLN SEQRES 13 H 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL GLU SEQRES 14 H 259 ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE THR SEQRES 15 H 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU GLY SEQRES 16 H 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 H 259 PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR GLN SEQRES 18 H 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 H 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 H 259 LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY GLU SEQRES 1 I 11 ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU GLN MODRES 6T57 TYS I 525 TYR MODIFIED RESIDUE HET TYS I 525 16 HET DMS H 301 4 HET PO4 H 302 5 HET NA H 303 1 HET NA H 304 1 HET NAG H 305 14 HET J3I H 306 29 HET TFA H 307 7 HETNAM TYS O-SULFO-L-TYROSINE HETNAM DMS DIMETHYL SULFOXIDE HETNAM PO4 PHOSPHATE ION HETNAM NA SODIUM ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM J3I (2~{S})-1-[(2~{R})-2-AZANYL-3-PHENYL-PROPANOYL]-~{N}- HETNAM 2 J3I [(1-CARBAMIMIDOYLPIPERIDIN-4-YL)METHYL]PYRROLIDINE-2- HETNAM 3 J3I CARBOXAMIDE HETNAM TFA TRIFLUOROACETIC ACID HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 DMS C2 H6 O S FORMUL 5 PO4 O4 P 3- FORMUL 6 NA 2(NA 1+) FORMUL 8 NAG C8 H15 N O6 FORMUL 9 J3I C21 H32 N6 O2 FORMUL 10 TFA C2 H F3 O2 FORMUL 11 HOH *155(H2 O) HELIX 1 AA1 PHE L 7 SER L 11 5 5 HELIX 2 AA2 THR L 14B TYR L 14J 1 9 HELIX 3 AA3 ALA H 55 CYS H 58 5 4 HELIX 4 AA4 PRO H 60B ASP H 60E 5 4 HELIX 5 AA5 THR H 60I ASN H 62 5 3 HELIX 6 AA6 ASP H 125 LEU H 130 1 9 HELIX 7 AA7 GLU H 164 SER H 171 1 8 HELIX 8 AA8 LEU H 234 GLY H 246 1 13 HELIX 9 AA9 PRO I 522 GLN I 527 1 6 SHEET 1 AA1 7 SER H 20 ASP H 21 0 SHEET 2 AA1 7 GLN H 156 PRO H 161 -1 O VAL H 157 N SER H 20 SHEET 3 AA1 7 LYS H 135 GLY H 140 -1 N VAL H 138 O VAL H 158 SHEET 4 AA1 7 PRO H 198 LYS H 202 -1 O VAL H 200 N ARG H 137 SHEET 5 AA1 7 TRP H 207 TRP H 215 -1 O TYR H 208 N MET H 201 SHEET 6 AA1 7 GLY H 226 HIS H 230 -1 O PHE H 227 N TRP H 215 SHEET 7 AA1 7 MET H 180 ALA H 183 -1 N PHE H 181 O TYR H 228 SHEET 1 AA2 7 GLN H 30 ARG H 35 0 SHEET 2 AA2 7 GLU H 39 LEU H 46 -1 O GLU H 39 N ARG H 35 SHEET 3 AA2 7 TRP H 51 THR H 54 -1 O LEU H 53 N SER H 45 SHEET 4 AA2 7 ALA H 104 LEU H 108 -1 O ALA H 104 N THR H 54 SHEET 5 AA2 7 LYS H 81 ILE H 90 -1 N GLU H 86 O LYS H 107 SHEET 6 AA2 7 LEU H 64 ILE H 68 -1 N ILE H 68 O LYS H 81 SHEET 7 AA2 7 GLN H 30 ARG H 35 -1 N PHE H 34 O LEU H 65 SHEET 1 AA3 2 LEU H 60 TYR H 60A 0 SHEET 2 AA3 2 LYS H 60F ASN H 60G-1 O LYS H 60F N TYR H 60A SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.06 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.04 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.01 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.05 LINK ND2 ASN H 60G C1 NAG H 305 1555 1555 1.43 LINK C GLU I 524 N TYS I 525 1555 1555 1.33 LINK C TYS I 525 N LEU I 526 1555 1555 1.33 LINK O LYS H 169 NA NA H 304 1555 1555 2.48 LINK O THR H 172 NA NA H 304 1555 1555 2.61 LINK O PHE H 204A NA NA H 304 1555 4556 2.47 LINK O ARG H 221A NA NA H 303 1555 1555 2.42 LINK O LYS H 224 NA NA H 303 1555 1555 2.46 LINK NA NA H 303 O HOH H 449 1555 1555 2.36 LINK NA NA H 303 O HOH H 467 1555 1555 2.41 LINK NA NA H 303 O HOH H 492 1555 1555 2.39 LINK NA NA H 303 O HOH H 503 1555 1555 2.75 LINK NA NA H 304 O HOH H 442 1555 1555 2.42 LINK NA NA H 304 O HOH H 506 1555 4546 2.27 CISPEP 1 SER H 36A PRO H 37 0 -5.63 CRYST1 70.290 71.660 73.245 90.00 100.68 90.00 C 1 2 1 4 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 0.014227 0.000000 0.002683 0.00000 SCALE2 0.000000 0.013955 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013893 0.00000