HEADER VIRAL PROTEIN 16-MAY-17 5O02 TITLE GII.17 KAWASAKI323 PROTRUDING DOMAIN IN COMPLEX WITH NANOBODY NANO-4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 225-528; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NANOBODY (VHH) NANO-4; COMPND 8 CHAIN: C; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOROVIRUS 13-BH-1/2013/GII.17; SOURCE 3 ORGANISM_TAXID: 1508693; SOURCE 4 VARIANT: KAWASAKI323; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PMBP; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 10 ORGANISM_COMMON: ALPACA; SOURCE 11 ORGANISM_TAXID: 30538; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 EXPRESSION_SYSTEM_VARIANT: WK6; SOURCE 15 EXPRESSION_SYSTEM_PLASMID: PHEN6C KEYWDS NOROVIRUS, PROTRUDING DOMAIN, CAPSID, VHH, NANOBODY, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.D.KOROMYSLOVA,G.S.HANSMAN REVDAT 4 17-JAN-24 5O02 1 REMARK REVDAT 3 10-APR-19 5O02 1 SOURCE REVDAT 2 15-NOV-17 5O02 1 JRNL REVDAT 1 04-OCT-17 5O02 0 JRNL AUTH A.D.KOROMYSLOVA,G.S.HANSMAN JRNL TITL NANOBODIES TARGETING NOROVIRUS CAPSID REVEAL FUNCTIONAL JRNL TITL 2 EPITOPES AND POTENTIAL MECHANISMS OF NEUTRALIZATION. JRNL REF PLOS PATHOG. V. 13 06636 2017 JRNL REFN ESSN 1553-7374 JRNL PMID 29095961 JRNL DOI 10.1371/JOURNAL.PPAT.1006636 REMARK 2 REMARK 2 RESOLUTION. 1.72 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.06 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 54046 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2703 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 45.0758 - 4.5881 0.98 2799 148 0.1359 0.1511 REMARK 3 2 4.5881 - 3.6422 0.96 2690 141 0.1162 0.1408 REMARK 3 3 3.6422 - 3.1820 0.97 2698 142 0.1353 0.1501 REMARK 3 4 3.1820 - 2.8911 0.98 2725 144 0.1445 0.1655 REMARK 3 5 2.8911 - 2.6839 0.98 2700 142 0.1526 0.1800 REMARK 3 6 2.6839 - 2.5257 0.97 2723 143 0.1554 0.2142 REMARK 3 7 2.5257 - 2.3992 0.98 2685 142 0.1541 0.1846 REMARK 3 8 2.3992 - 2.2948 0.98 2724 143 0.1518 0.1933 REMARK 3 9 2.2948 - 2.2064 0.98 2696 142 0.1506 0.1700 REMARK 3 10 2.2064 - 2.1303 0.98 2692 141 0.1496 0.1832 REMARK 3 11 2.1303 - 2.0637 0.98 2732 144 0.1524 0.1937 REMARK 3 12 2.0637 - 2.0047 0.98 2711 143 0.1617 0.2002 REMARK 3 13 2.0047 - 1.9519 0.98 2685 141 0.1651 0.2268 REMARK 3 14 1.9519 - 1.9043 0.98 2707 143 0.1701 0.2198 REMARK 3 15 1.9043 - 1.8610 0.98 2681 141 0.1803 0.2193 REMARK 3 16 1.8610 - 1.8214 0.98 2701 142 0.1916 0.2392 REMARK 3 17 1.8214 - 1.7850 0.97 2664 140 0.2024 0.2573 REMARK 3 18 1.7850 - 1.7513 0.97 2665 141 0.2364 0.2382 REMARK 3 19 1.7513 - 1.7200 0.97 2665 140 0.2605 0.3030 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.71 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.95 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 : 0.006 3628 REMARK 3 ANGLE : 1.051 4960 REMARK 3 CHIRALITY : 0.045 521 REMARK 3 PLANARITY : 0.005 672 REMARK 3 DIHEDRAL : 12.071 1322 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 225 THROUGH 315 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.9811 -63.1776 204.5607 REMARK 3 T TENSOR REMARK 3 T11: 0.0770 T22: 0.1092 REMARK 3 T33: 0.0876 T12: 0.0089 REMARK 3 T13: 0.0162 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.7055 L22: 1.2686 REMARK 3 L33: 1.3169 L12: 0.1930 REMARK 3 L13: 0.2189 L23: 0.8918 REMARK 3 S TENSOR REMARK 3 S11: 0.0108 S12: 0.0943 S13: -0.0767 REMARK 3 S21: -0.0686 S22: 0.0198 S23: -0.1019 REMARK 3 S31: 0.0361 S32: 0.0684 S33: -0.0097 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 316 THROUGH 426 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.2817 -73.4175 201.6517 REMARK 3 T TENSOR REMARK 3 T11: 0.0968 T22: 0.1024 REMARK 3 T33: 0.1143 T12: 0.0258 REMARK 3 T13: 0.0112 T23: -0.0286 REMARK 3 L TENSOR REMARK 3 L11: 1.3689 L22: 0.5665 REMARK 3 L33: 0.7923 L12: 0.4170 REMARK 3 L13: 0.2285 L23: 0.1684 REMARK 3 S TENSOR REMARK 3 S11: 0.0342 S12: 0.1012 S13: -0.2507 REMARK 3 S21: -0.0778 S22: 0.0166 S23: -0.1118 REMARK 3 S31: 0.0463 S32: 0.0486 S33: -0.0443 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 427 THROUGH 528 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.7728 -51.0198 219.7183 REMARK 3 T TENSOR REMARK 3 T11: 0.0779 T22: 0.1124 REMARK 3 T33: 0.0621 T12: -0.0022 REMARK 3 T13: 0.0129 T23: 0.0005 REMARK 3 L TENSOR REMARK 3 L11: 0.7518 L22: 1.5544 REMARK 3 L33: 0.4461 L12: 0.6471 REMARK 3 L13: 0.2837 L23: 0.3394 REMARK 3 S TENSOR REMARK 3 S11: 0.0173 S12: -0.0225 S13: 0.0119 REMARK 3 S21: 0.0554 S22: -0.0186 S23: -0.0139 REMARK 3 S31: -0.0030 S32: 0.0332 S33: -0.0005 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.3049 -26.7987 223.5207 REMARK 3 T TENSOR REMARK 3 T11: 0.2763 T22: 0.2507 REMARK 3 T33: 0.1671 T12: -0.0392 REMARK 3 T13: 0.0447 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 3.2904 L22: 6.9674 REMARK 3 L33: 2.7137 L12: 4.7880 REMARK 3 L13: 2.9882 L23: 4.3483 REMARK 3 S TENSOR REMARK 3 S11: -0.5516 S12: 0.7342 S13: 0.2049 REMARK 3 S21: -0.7296 S22: 0.3543 S23: 0.0809 REMARK 3 S31: -0.6963 S32: 0.7527 S33: 0.3243 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 8 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.6698 -21.4852 244.0880 REMARK 3 T TENSOR REMARK 3 T11: 0.1764 T22: 0.2236 REMARK 3 T33: 0.1489 T12: -0.0715 REMARK 3 T13: -0.0219 T23: -0.0119 REMARK 3 L TENSOR REMARK 3 L11: 1.7354 L22: 6.2300 REMARK 3 L33: 4.4885 L12: -1.6663 REMARK 3 L13: -1.4202 L23: -2.5431 REMARK 3 S TENSOR REMARK 3 S11: -0.3401 S12: 0.0608 S13: 0.3423 REMARK 3 S21: -0.0024 S22: 0.0926 S23: -0.1771 REMARK 3 S31: -0.6062 S32: 0.7805 S33: 0.2276 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 18 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.3918 -23.2417 230.7100 REMARK 3 T TENSOR REMARK 3 T11: 0.1939 T22: 0.1402 REMARK 3 T33: 0.1191 T12: 0.0270 REMARK 3 T13: -0.0075 T23: -0.0242 REMARK 3 L TENSOR REMARK 3 L11: 7.7142 L22: 5.3353 REMARK 3 L33: 6.7805 L12: 6.3941 REMARK 3 L13: 7.1982 L23: 6.0139 REMARK 3 S TENSOR REMARK 3 S11: -0.0396 S12: -0.0159 S13: 0.2119 REMARK 3 S21: -0.2451 S22: -0.0259 S23: 0.0751 REMARK 3 S31: -0.3148 S32: -0.0713 S33: 0.1460 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 29 THROUGH 39 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5198 -31.6177 232.1295 REMARK 3 T TENSOR REMARK 3 T11: 0.1157 T22: 0.1196 REMARK 3 T33: 0.0728 T12: 0.0041 REMARK 3 T13: 0.0174 T23: -0.0389 REMARK 3 L TENSOR REMARK 3 L11: 8.6237 L22: 2.9436 REMARK 3 L33: 8.6309 L12: -3.0829 REMARK 3 L13: 7.8748 L23: -3.5899 REMARK 3 S TENSOR REMARK 3 S11: -0.2296 S12: 0.0116 S13: 0.0892 REMARK 3 S21: 0.0302 S22: 0.0998 S23: -0.0489 REMARK 3 S31: -0.2639 S32: -0.1902 S33: 0.1465 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 40 THROUGH 51 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0836 -36.6521 239.5696 REMARK 3 T TENSOR REMARK 3 T11: 0.1686 T22: 0.1199 REMARK 3 T33: 0.1438 T12: 0.0190 REMARK 3 T13: -0.0461 T23: -0.0026 REMARK 3 L TENSOR REMARK 3 L11: 6.5934 L22: 2.2778 REMARK 3 L33: 4.9444 L12: 0.3517 REMARK 3 L13: 0.1206 L23: -0.5845 REMARK 3 S TENSOR REMARK 3 S11: -0.1001 S12: -0.4329 S13: -0.1271 REMARK 3 S21: 0.3468 S22: 0.0308 S23: -0.5668 REMARK 3 S31: 0.3648 S32: 0.3240 S33: 0.0517 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 52 THROUGH 64 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.2286 -30.7435 242.0080 REMARK 3 T TENSOR REMARK 3 T11: 0.1335 T22: 0.1734 REMARK 3 T33: 0.1120 T12: 0.0098 REMARK 3 T13: 0.0291 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 4.1896 L22: 3.1152 REMARK 3 L33: 7.2548 L12: -0.0545 REMARK 3 L13: 5.4894 L23: -0.0052 REMARK 3 S TENSOR REMARK 3 S11: 0.1004 S12: -0.3574 S13: -0.0430 REMARK 3 S21: 0.2317 S22: -0.0665 S23: 0.2146 REMARK 3 S31: 0.1650 S32: -0.4940 S33: -0.0403 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 65 THROUGH 73 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.4357 -25.3464 242.5770 REMARK 3 T TENSOR REMARK 3 T11: 0.1201 T22: 0.1445 REMARK 3 T33: 0.0841 T12: 0.0061 REMARK 3 T13: 0.0177 T23: -0.0288 REMARK 3 L TENSOR REMARK 3 L11: 4.5883 L22: 4.3949 REMARK 3 L33: 1.5987 L12: 0.4674 REMARK 3 L13: 0.2059 L23: 2.6498 REMARK 3 S TENSOR REMARK 3 S11: -0.0845 S12: -0.4213 S13: -0.0569 REMARK 3 S21: 0.1681 S22: -0.0788 S23: 0.2549 REMARK 3 S31: 0.0409 S32: -0.3191 S33: -0.0082 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 74 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.4684 -21.6860 234.6013 REMARK 3 T TENSOR REMARK 3 T11: 0.2175 T22: 0.1805 REMARK 3 T33: 0.1434 T12: 0.0211 REMARK 3 T13: -0.0463 T23: 0.0022 REMARK 3 L TENSOR REMARK 3 L11: 4.2462 L22: 3.0896 REMARK 3 L33: 7.7358 L12: -2.8855 REMARK 3 L13: 5.6695 L23: -3.5572 REMARK 3 S TENSOR REMARK 3 S11: -0.1322 S12: 0.1686 S13: 0.2574 REMARK 3 S21: -0.0416 S22: -0.0035 S23: 0.0528 REMARK 3 S31: -0.3339 S32: 0.1794 S33: 0.1940 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 84 THROUGH 108 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.3190 -33.0757 237.2116 REMARK 3 T TENSOR REMARK 3 T11: 0.1196 T22: 0.1109 REMARK 3 T33: 0.0566 T12: 0.0172 REMARK 3 T13: 0.0190 T23: -0.0009 REMARK 3 L TENSOR REMARK 3 L11: 3.6584 L22: 1.7508 REMARK 3 L33: 2.8813 L12: 1.7067 REMARK 3 L13: 2.5489 L23: 1.7093 REMARK 3 S TENSOR REMARK 3 S11: 0.0103 S12: -0.1503 S13: -0.0576 REMARK 3 S21: 0.1380 S22: -0.0326 S23: 0.0234 REMARK 3 S31: 0.0563 S32: -0.0509 S33: 0.0000 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 109 THROUGH 117 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.0218 -35.1873 227.9151 REMARK 3 T TENSOR REMARK 3 T11: 0.1042 T22: 0.0923 REMARK 3 T33: 0.0687 T12: 0.0166 REMARK 3 T13: 0.0166 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 3.0744 L22: 4.1297 REMARK 3 L33: 4.6125 L12: 2.1883 REMARK 3 L13: 1.7869 L23: 2.1993 REMARK 3 S TENSOR REMARK 3 S11: -0.2852 S12: 0.1369 S13: -0.0921 REMARK 3 S21: -0.2844 S22: 0.2012 S23: -0.2284 REMARK 3 S31: 0.0015 S32: 0.3746 S33: 0.0932 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 118 THROUGH 124 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.3607 -26.7920 240.6376 REMARK 3 T TENSOR REMARK 3 T11: 0.1091 T22: 0.2668 REMARK 3 T33: 0.1317 T12: 0.0058 REMARK 3 T13: -0.0011 T23: -0.0549 REMARK 3 L TENSOR REMARK 3 L11: 7.5453 L22: 7.8913 REMARK 3 L33: 3.2285 L12: -0.4126 REMARK 3 L13: 4.5946 L23: -2.0918 REMARK 3 S TENSOR REMARK 3 S11: -0.1021 S12: 0.0742 S13: 0.0365 REMARK 3 S21: -0.0566 S22: 0.3547 S23: -0.4400 REMARK 3 S31: -0.5018 S32: 0.9850 S33: -0.1766 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 5O02 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1200003601. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-15 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 : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.965 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55894 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.690 REMARK 200 RESOLUTION RANGE LOW (A) : 45.060 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 3.165 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.93 REMARK 200 R MERGE FOR SHELL (I) : 0.42700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.260 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6, PHASER REMARK 200 STARTING MODEL: 5F4M AND 4X4C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M CALCIUM ACETATE, 10% (W/V) REMARK 280 PEG8000, 0.1 M IMIDAZOLE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K 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 59.23500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.02000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.23500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.02000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 760 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1018 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1033 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 GLY A 221 REMARK 465 PRO A 222 REMARK 465 GLY A 223 REMARK 465 SER A 224 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 VAL A 256 CG1 CG2 REMARK 470 LEU A 257 CG CD1 CD2 REMARK 470 GLU A 352 CG CD OE1 OE2 REMARK 470 GLN C 5 CG CD OE1 NE2 REMARK 470 GLU C 44 CG CD OE1 OE2 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 GLN A 260 49.95 -151.75 REMARK 500 SER A 373 119.79 -160.27 REMARK 500 ASP A 375 7.06 58.37 REMARK 500 ASP A 393 76.89 -102.95 REMARK 500 ASP A 516 -63.22 -95.68 REMARK 500 ASP C 104 -125.25 48.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1049 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH A1050 DISTANCE = 6.20 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD C 203 DBREF1 5O02 A 225 528 UNP A0A0A7CJV4_9CALI DBREF2 5O02 A A0A0A7CJV4 225 528 DBREF 5O02 C 1 124 PDB 5O02 5O02 1 124 SEQADV 5O02 GLY A 221 UNP A0A0A7CJV EXPRESSION TAG SEQADV 5O02 PRO A 222 UNP A0A0A7CJV EXPRESSION TAG SEQADV 5O02 GLY A 223 UNP A0A0A7CJV EXPRESSION TAG SEQADV 5O02 SER A 224 UNP A0A0A7CJV EXPRESSION TAG SEQRES 1 A 308 GLY PRO GLY SER LYS PRO PHE SER LEU PRO ILE LEU THR SEQRES 2 A 308 LEU SER GLU LEU THR ASN SER ARG PHE PRO VAL PRO ILE SEQRES 3 A 308 ASP SER LEU PHE THR ALA GLN ASN ASN VAL LEU GLN VAL SEQRES 4 A 308 GLN CYS GLN ASN GLY ARG CYS THR LEU ASP GLY GLU LEU SEQRES 5 A 308 GLN GLY THR THR GLN LEU LEU PRO SER GLY ILE CYS ALA SEQRES 6 A 308 PHE ARG GLY ARG VAL THR ALA GLU THR ASP HIS ARG ASP SEQRES 7 A 308 LYS TRP HIS MET GLN LEU GLN ASN LEU ASN GLY THR THR SEQRES 8 A 308 TYR ASP PRO THR ASP ASP VAL PRO ALA PRO LEU GLY THR SEQRES 9 A 308 PRO ASP PHE LYS GLY VAL VAL PHE GLY VAL ALA SER GLN SEQRES 10 A 308 ARG ASN VAL GLY ASN ASP ALA PRO GLY SER THR ARG ALA SEQRES 11 A 308 HIS GLU ALA VAL ILE SER THR TYR SER PRO GLN PHE VAL SEQRES 12 A 308 PRO LYS LEU GLY SER VAL ASN PHE ARG SER ASN ASP ASN SEQRES 13 A 308 ASP PHE GLN LEU GLN PRO THR LYS PHE THR PRO VAL GLY SEQRES 14 A 308 ILE ASN ASP ASP GLY ASP HIS PRO PHE ARG GLN TRP GLU SEQRES 15 A 308 LEU PRO ASP TYR SER GLY LEU LEU THR LEU ASN MET ASN SEQRES 16 A 308 LEU ALA PRO PRO VAL ALA PRO ASN PHE PRO GLY GLU GLN SEQRES 17 A 308 LEU LEU PHE PHE ARG SER PHE VAL PRO CYS SER GLY GLY SEQRES 18 A 308 TYR ASN GLN GLY ILE VAL ASP CYS LEU ILE PRO GLN GLU SEQRES 19 A 308 TRP ILE GLN HIS PHE TYR GLN GLU SER ALA PRO SER GLN SEQRES 20 A 308 SER ASP VAL ALA LEU ILE ARG TYR VAL ASN PRO ASP THR SEQRES 21 A 308 GLY ARG THR LEU PHE GLU ALA LYS LEU HIS ARG SER GLY SEQRES 22 A 308 TYR ILE THR VAL ALA HIS SER GLY ASP TYR PRO LEU VAL SEQRES 23 A 308 VAL PRO ALA ASN GLY TYR PHE ARG PHE ASP SER TRP VAL SEQRES 24 A 308 ASN GLN PHE TYR SER LEU ALA PRO MET SEQRES 1 C 124 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 C 124 PRO GLY GLY SER LEU ARG LEU PHE CYS ALA ALA SER GLY SEQRES 3 C 124 PHE THR PHE SER SER TYR ALA MET ARG TRP TYR ARG GLN SEQRES 4 C 124 ALA PRO GLY LYS GLU ARG GLU LEU VAL ALA ALA ILE THR SEQRES 5 C 124 SER ALA GLY GLY SER THR HIS TYR ALA ASP SER VAL LYS SEQRES 6 C 124 GLU ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN THR SEQRES 7 C 124 MET TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR SEQRES 8 C 124 ALA VAL TYR TYR CYS ASN ALA ARG ARG ASP TYR GLY ASP SEQRES 9 C 124 SER TRP PHE THR ALA GLY GLY GLY TYR TRP GLY GLN GLY SEQRES 10 C 124 THR GLN VAL THR VAL SER SER HET EDO A 601 4 HET EDO A 602 4 HET EDO A 603 4 HET EDO A 604 4 HET EDO C 201 4 HET EDO C 202 4 HET IMD C 203 5 HETNAM EDO 1,2-ETHANEDIOL HETNAM IMD IMIDAZOLE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 6(C2 H6 O2) FORMUL 9 IMD C3 H5 N2 1+ FORMUL 10 HOH *515(H2 O) HELIX 1 AA1 THR A 233 LEU A 237 5 5 HELIX 2 AA2 LEU A 279 ILE A 283 5 5 HELIX 3 AA3 SER A 407 THR A 411 5 5 HELIX 4 AA4 PRO A 452 SER A 463 1 12 HELIX 5 AA5 THR C 28 SER C 30 5 3 HELIX 6 AA6 ASP C 62 LYS C 65 5 4 HELIX 7 AA7 LYS C 87 THR C 91 5 5 HELIX 8 AA8 SER C 105 ALA C 109 5 5 SHEET 1 AA1 4 ILE A 446 CYS A 449 0 SHEET 2 AA1 4 GLU A 427 PHE A 435 -1 N PHE A 432 O CYS A 449 SHEET 3 AA1 4 SER A 248 THR A 251 -1 N PHE A 250 O PHE A 431 SHEET 4 AA1 4 TYR A 503 PRO A 504 -1 O TYR A 503 N THR A 251 SHEET 1 AA2 6 ILE A 446 CYS A 449 0 SHEET 2 AA2 6 GLU A 427 PHE A 435 -1 N PHE A 432 O CYS A 449 SHEET 3 AA2 6 TYR A 494 ALA A 498 -1 O VAL A 497 N GLN A 428 SHEET 4 AA2 6 THR A 483 HIS A 490 -1 N HIS A 490 O TYR A 494 SHEET 5 AA2 6 VAL A 470 VAL A 476 -1 N ALA A 471 O LEU A 489 SHEET 6 AA2 6 TYR A 512 VAL A 519 -1 O TYR A 512 N VAL A 476 SHEET 1 AA3 6 THR A 348 SER A 356 0 SHEET 2 AA3 6 VAL A 330 ARG A 338 -1 N GLN A 337 O ARG A 349 SHEET 3 AA3 6 PRO A 382 ASN A 391 -1 O VAL A 388 N PHE A 332 SHEET 4 AA3 6 PHE A 286 GLU A 293 -1 N PHE A 286 O PHE A 385 SHEET 5 AA3 6 TRP A 300 GLN A 305 -1 O GLN A 305 N ARG A 287 SHEET 6 AA3 6 SER A 368 PHE A 371 -1 O VAL A 369 N MET A 302 SHEET 1 AA4 4 GLN C 3 SER C 7 0 SHEET 2 AA4 4 LEU C 18 SER C 25 -1 O ALA C 23 N GLN C 5 SHEET 3 AA4 4 THR C 78 MET C 83 -1 O MET C 83 N LEU C 18 SHEET 4 AA4 4 PHE C 68 ASP C 73 -1 N THR C 69 O GLN C 82 SHEET 1 AA5 6 GLY C 10 VAL C 12 0 SHEET 2 AA5 6 THR C 118 VAL C 122 1 O THR C 121 N GLY C 10 SHEET 3 AA5 6 ALA C 92 ARG C 100 -1 N TYR C 94 O THR C 118 SHEET 4 AA5 6 TYR C 32 GLN C 39 -1 N TYR C 37 O TYR C 95 SHEET 5 AA5 6 GLU C 46 ILE C 51 -1 O VAL C 48 N TRP C 36 SHEET 6 AA5 6 THR C 58 TYR C 60 -1 O HIS C 59 N ALA C 50 SHEET 1 AA6 4 GLY C 10 VAL C 12 0 SHEET 2 AA6 4 THR C 118 VAL C 122 1 O THR C 121 N GLY C 10 SHEET 3 AA6 4 ALA C 92 ARG C 100 -1 N TYR C 94 O THR C 118 SHEET 4 AA6 4 TYR C 113 TRP C 114 -1 O TYR C 113 N ALA C 98 SSBOND 1 CYS C 22 CYS C 96 1555 1555 2.06 SITE 1 AC1 6 LEU A 272 GLN A 273 GLY A 274 THR A 276 SITE 2 AC1 6 LEU A 322 HOH A 749 SITE 1 AC2 5 GLU A 454 HIS A 458 HOH A 760 HOH A 772 SITE 2 AC2 5 HOH A 811 SITE 1 AC3 4 TYR A 503 HOH A 730 HOH A 822 HOH A 908 SITE 1 AC4 2 GLU A 236 HOH A 739 SITE 1 AC5 3 ARG C 45 IMD C 203 HOH C 311 SITE 1 AC6 7 PRO C 41 VAL C 93 GLN C 119 HOH C 302 SITE 2 AC6 7 HOH C 358 HOH C 396 HOH C 421 SITE 1 AC7 3 ARG C 45 EDO C 201 HOH C 383 CRYST1 118.470 64.040 70.030 90.00 97.26 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 0.008441 0.000000 0.001075 0.00000 SCALE2 0.000000 0.015615 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014395 0.00000