HEADER SURFACTANT PROTEIN 28-FEB-20 6VZD TITLE N-TERMINAL DOMAIN OF MOUSE SURFACTANT PROTEIN B (K46E/R51E MUTANT) TITLE 2 WITH BOUND LIPID COMPND MOL_ID: 1; COMPND 2 MOLECULE: PULMONARY SURFACTANT-ASSOCIATED PROTEIN B; COMPND 3 CHAIN: A, E, B, C; COMPND 4 SYNONYM: SP-B,PULMONARY SURFACTANT-ASSOCIATED PROTEOLIPID SPL(PHE); COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: SFTPB, SFTP3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI 2 KEYWDS LIPID-BINDING, LIPID TRANSFER, SAPOSIN-LIKE, SURFACTANT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.A.RAPOPORT,N.O.BODNAR REVDAT 5 11-OCT-23 6VZD 1 REMARK REVDAT 4 20-JAN-21 6VZD 1 JRNL REVDAT 3 09-DEC-20 6VZD 1 JRNL REVDAT 2 02-DEC-20 6VZD 1 JRNL REVDAT 1 25-NOV-20 6VZD 0 JRNL AUTH N.SEVER,G.MILICIC,N.O.BODNAR,X.WU,T.A.RAPOPORT JRNL TITL MECHANISM OF LAMELLAR BODY FORMATION BY LUNG SURFACTANT JRNL TITL 2 PROTEIN B. JRNL REF MOL.CELL V. 81 49 2021 JRNL REFN ISSN 1097-2765 JRNL PMID 33242393 JRNL DOI 10.1016/J.MOLCEL.2020.10.042 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.13 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 28915 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) : 0.170 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.370 REMARK 3 FREE R VALUE TEST SET COUNT : 1841 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 59.1300 - 4.4100 1.00 2320 158 0.1869 0.2307 REMARK 3 2 4.4100 - 3.5000 1.00 2284 157 0.1385 0.1798 REMARK 3 3 3.5000 - 3.0600 1.00 2264 155 0.1500 0.1844 REMARK 3 4 3.0600 - 2.7800 0.99 2237 153 0.1621 0.2469 REMARK 3 5 2.7800 - 2.5800 0.99 2259 152 0.1606 0.2059 REMARK 3 6 2.5800 - 2.4300 0.98 2226 153 0.1608 0.1829 REMARK 3 7 2.4300 - 2.3100 0.97 2201 145 0.1600 0.2327 REMARK 3 8 2.3100 - 2.2100 0.96 2150 142 0.1584 0.2358 REMARK 3 9 2.2100 - 2.1200 0.92 2064 138 0.1652 0.2220 REMARK 3 10 2.1200 - 2.0500 0.88 1997 142 0.1854 0.2194 REMARK 3 11 2.0500 - 1.9800 0.83 1864 132 0.2203 0.2738 REMARK 3 12 1.9800 - 1.9300 0.76 1694 111 0.2526 0.2488 REMARK 3 13 1.9300 - 1.8800 0.67 1514 103 0.3233 0.3909 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) : 0.236 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.667 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.02 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 3042 REMARK 3 ANGLE : 0.736 4043 REMARK 3 CHIRALITY : 0.044 434 REMARK 3 PLANARITY : 0.005 509 REMARK 3 DIHEDRAL : 30.741 1294 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 19 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 6 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.6998 9.5039 -18.4373 REMARK 3 T TENSOR REMARK 3 T11: 0.1221 T22: 0.1190 REMARK 3 T33: 0.0801 T12: -0.0271 REMARK 3 T13: -0.0143 T23: 0.0264 REMARK 3 L TENSOR REMARK 3 L11: 2.6378 L22: 5.1901 REMARK 3 L33: 6.9887 L12: -0.1591 REMARK 3 L13: -1.2647 L23: -0.4568 REMARK 3 S TENSOR REMARK 3 S11: -0.2253 S12: 0.4878 S13: 0.1348 REMARK 3 S21: -0.3641 S22: 0.1295 S23: -0.0899 REMARK 3 S31: 0.0273 S32: -0.0366 S33: -0.0144 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 25 THROUGH 41 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.7237 4.1201 1.5612 REMARK 3 T TENSOR REMARK 3 T11: 0.1183 T22: 0.1594 REMARK 3 T33: 0.1585 T12: -0.0600 REMARK 3 T13: 0.0470 T23: 0.0024 REMARK 3 L TENSOR REMARK 3 L11: 5.9060 L22: 2.4315 REMARK 3 L33: 4.5824 L12: 3.3713 REMARK 3 L13: 4.7694 L23: 2.9615 REMARK 3 S TENSOR REMARK 3 S11: 0.2208 S12: -0.3535 S13: -0.1464 REMARK 3 S21: 0.2495 S22: -0.0943 S23: 0.0706 REMARK 3 S31: 0.2274 S32: -0.4503 S33: -0.1870 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 42 THROUGH 68 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.1111 13.4038 2.5901 REMARK 3 T TENSOR REMARK 3 T11: 0.1282 T22: 0.1010 REMARK 3 T33: 0.1371 T12: -0.0271 REMARK 3 T13: 0.0092 T23: -0.0245 REMARK 3 L TENSOR REMARK 3 L11: 5.0042 L22: 1.3420 REMARK 3 L33: 5.0302 L12: -2.1272 REMARK 3 L13: 3.6768 L23: -1.8471 REMARK 3 S TENSOR REMARK 3 S11: -0.1342 S12: -0.4263 S13: 0.0817 REMARK 3 S21: 0.1152 S22: 0.1538 S23: -0.0764 REMARK 3 S31: -0.1469 S32: -0.4089 S33: -0.0190 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 69 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.2446 19.7148 -18.6419 REMARK 3 T TENSOR REMARK 3 T11: 0.2940 T22: 0.1535 REMARK 3 T33: 0.2285 T12: -0.0541 REMARK 3 T13: -0.0858 T23: 0.0643 REMARK 3 L TENSOR REMARK 3 L11: 7.9048 L22: 4.6006 REMARK 3 L33: 2.3632 L12: -2.0079 REMARK 3 L13: 0.6642 L23: 1.2580 REMARK 3 S TENSOR REMARK 3 S11: -0.0736 S12: 0.2700 S13: 0.6346 REMARK 3 S21: -0.3070 S22: -0.0202 S23: -0.2977 REMARK 3 S31: -0.6040 S32: 0.1348 S33: 0.0217 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 3 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.3757 1.3006 -14.9274 REMARK 3 T TENSOR REMARK 3 T11: 0.1804 T22: 0.1049 REMARK 3 T33: 0.0969 T12: -0.0039 REMARK 3 T13: 0.0459 T23: -0.0262 REMARK 3 L TENSOR REMARK 3 L11: 4.6959 L22: 4.3386 REMARK 3 L33: 4.3654 L12: 0.2702 REMARK 3 L13: -0.3273 L23: -0.5063 REMARK 3 S TENSOR REMARK 3 S11: -0.1777 S12: 0.3626 S13: -0.3241 REMARK 3 S21: -0.3113 S22: 0.1233 S23: -0.1554 REMARK 3 S31: 0.3610 S32: 0.0976 S33: 0.0036 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 25 THROUGH 41 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.1886 19.5968 -11.5030 REMARK 3 T TENSOR REMARK 3 T11: 0.1656 T22: 0.2096 REMARK 3 T33: 0.2911 T12: -0.0611 REMARK 3 T13: 0.0142 T23: 0.0617 REMARK 3 L TENSOR REMARK 3 L11: 3.6619 L22: 4.5844 REMARK 3 L33: 5.8852 L12: -1.4455 REMARK 3 L13: -1.5170 L23: 3.4037 REMARK 3 S TENSOR REMARK 3 S11: -0.0009 S12: 0.3731 S13: 0.3884 REMARK 3 S21: -0.3239 S22: 0.1943 S23: -0.6456 REMARK 3 S31: -0.6607 S32: 0.4591 S33: -0.2859 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 42 THROUGH 69 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.4060 15.9424 -2.5909 REMARK 3 T TENSOR REMARK 3 T11: 0.1395 T22: 0.0780 REMARK 3 T33: 0.1674 T12: -0.0013 REMARK 3 T13: 0.0000 T23: 0.0134 REMARK 3 L TENSOR REMARK 3 L11: 3.8556 L22: 5.8812 REMARK 3 L33: 3.4477 L12: -0.9473 REMARK 3 L13: -0.2257 L23: 0.1206 REMARK 3 S TENSOR REMARK 3 S11: -0.0158 S12: 0.0132 S13: 0.2326 REMARK 3 S21: -0.1722 S22: 0.0232 S23: -0.3230 REMARK 3 S31: -0.1653 S32: 0.1147 S33: -0.0485 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 70 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.7152 -3.0805 -7.6615 REMARK 3 T TENSOR REMARK 3 T11: 0.2042 T22: 0.1502 REMARK 3 T33: 0.1863 T12: 0.0022 REMARK 3 T13: 0.0066 T23: -0.0501 REMARK 3 L TENSOR REMARK 3 L11: 8.1258 L22: 3.4232 REMARK 3 L33: 6.0727 L12: -1.7171 REMARK 3 L13: -6.7522 L23: 1.1379 REMARK 3 S TENSOR REMARK 3 S11: 0.4281 S12: -0.5855 S13: 0.4264 REMARK 3 S21: 0.0597 S22: 0.1838 S23: -0.5003 REMARK 3 S31: -0.0530 S32: 0.5322 S33: -0.6041 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 80 THROUGH 87 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.2809 -6.5859 -6.7107 REMARK 3 T TENSOR REMARK 3 T11: 0.2363 T22: 0.1574 REMARK 3 T33: 0.2504 T12: -0.0540 REMARK 3 T13: 0.0157 T23: 0.0113 REMARK 3 L TENSOR REMARK 3 L11: 4.7218 L22: 2.1478 REMARK 3 L33: 7.7356 L12: 1.1647 REMARK 3 L13: 2.3147 L23: 4.0743 REMARK 3 S TENSOR REMARK 3 S11: 0.0287 S12: 0.2333 S13: -0.5513 REMARK 3 S21: -0.2095 S22: 0.1587 S23: -0.1881 REMARK 3 S31: 0.7206 S32: -0.1594 S33: -0.1690 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 7 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.4787 8.9496 -26.2776 REMARK 3 T TENSOR REMARK 3 T11: 0.2078 T22: 0.2001 REMARK 3 T33: 0.1576 T12: -0.0800 REMARK 3 T13: -0.0547 T23: 0.0908 REMARK 3 L TENSOR REMARK 3 L11: 5.2032 L22: 5.0445 REMARK 3 L33: 8.3843 L12: -2.7181 REMARK 3 L13: -2.6374 L23: 0.7722 REMARK 3 S TENSOR REMARK 3 S11: -0.0192 S12: -0.3184 S13: -0.2066 REMARK 3 S21: 0.1703 S22: -0.0912 S23: 0.0753 REMARK 3 S31: 0.1366 S32: 0.0522 S33: 0.1498 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 25 THROUGH 41 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.0510 11.3403 -46.2250 REMARK 3 T TENSOR REMARK 3 T11: 0.1946 T22: 0.3536 REMARK 3 T33: 0.2533 T12: -0.0167 REMARK 3 T13: 0.0429 T23: 0.0626 REMARK 3 L TENSOR REMARK 3 L11: 5.3008 L22: 4.5597 REMARK 3 L33: 5.6395 L12: -1.2723 REMARK 3 L13: 3.5730 L23: -2.0017 REMARK 3 S TENSOR REMARK 3 S11: -0.2377 S12: 0.8845 S13: 0.2092 REMARK 3 S21: -0.2227 S22: -0.0484 S23: -0.4378 REMARK 3 S31: -0.1933 S32: 1.2063 S33: 0.2236 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 42 THROUGH 51 ) REMARK 3 ORIGIN FOR THE GROUP (A): -42.1631 15.2988 -51.9183 REMARK 3 T TENSOR REMARK 3 T11: 0.2267 T22: 0.1769 REMARK 3 T33: 0.2490 T12: 0.0059 REMARK 3 T13: -0.0286 T23: 0.0445 REMARK 3 L TENSOR REMARK 3 L11: 4.3205 L22: 7.5819 REMARK 3 L33: 3.7692 L12: 0.1222 REMARK 3 L13: 0.1170 L23: 5.2460 REMARK 3 S TENSOR REMARK 3 S11: -0.2680 S12: 0.3829 S13: 0.6214 REMARK 3 S21: -0.4990 S22: -0.2200 S23: -0.2177 REMARK 3 S31: -0.4064 S32: 0.4764 S33: 0.3674 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 52 THROUGH 67 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.0651 20.3631 -42.2184 REMARK 3 T TENSOR REMARK 3 T11: 0.3400 T22: 0.1746 REMARK 3 T33: 0.1987 T12: -0.2063 REMARK 3 T13: -0.0494 T23: 0.3015 REMARK 3 L TENSOR REMARK 3 L11: 0.1692 L22: 0.4871 REMARK 3 L33: 0.7951 L12: 0.0940 REMARK 3 L13: -0.1580 L23: -0.4810 REMARK 3 S TENSOR REMARK 3 S11: -0.0404 S12: 0.0709 S13: 0.0341 REMARK 3 S21: -0.1345 S22: -0.0193 S23: -0.0546 REMARK 3 S31: 0.0073 S32: 0.0330 S33: 0.0057 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 68 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): -35.6207 17.2785 -23.5814 REMARK 3 T TENSOR REMARK 3 T11: 0.1877 T22: 0.1935 REMARK 3 T33: 0.1445 T12: -0.0315 REMARK 3 T13: -0.0693 T23: 0.0477 REMARK 3 L TENSOR REMARK 3 L11: 6.3806 L22: 6.9204 REMARK 3 L33: 5.8765 L12: 2.9690 REMARK 3 L13: -0.1584 L23: 0.8210 REMARK 3 S TENSOR REMARK 3 S11: -0.0907 S12: -0.0806 S13: 0.0268 REMARK 3 S21: 0.2337 S22: -0.2406 S23: 0.1001 REMARK 3 S31: -0.2732 S32: -0.4519 S33: 0.2599 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 7 THROUGH 24 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.4661 1.1079 -31.5750 REMARK 3 T TENSOR REMARK 3 T11: 0.4586 T22: 0.2444 REMARK 3 T33: 0.3159 T12: -0.0466 REMARK 3 T13: -0.0804 T23: 0.1273 REMARK 3 L TENSOR REMARK 3 L11: 4.7017 L22: 6.9152 REMARK 3 L33: 5.3567 L12: -1.7857 REMARK 3 L13: -2.6905 L23: -0.4462 REMARK 3 S TENSOR REMARK 3 S11: -0.2030 S12: -0.5702 S13: -1.0320 REMARK 3 S21: 0.0364 S22: -0.1984 S23: -0.2193 REMARK 3 S31: 1.0001 S32: 0.2182 S33: 0.3748 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 25 THROUGH 41 ) REMARK 3 ORIGIN FOR THE GROUP (A): -48.7578 14.2203 -30.7059 REMARK 3 T TENSOR REMARK 3 T11: 0.2076 T22: 0.5202 REMARK 3 T33: 0.2449 T12: -0.0835 REMARK 3 T13: 0.0055 T23: -0.0703 REMARK 3 L TENSOR REMARK 3 L11: 5.6698 L22: 9.1288 REMARK 3 L33: 7.9284 L12: -2.1411 REMARK 3 L13: 0.1444 L23: -5.8287 REMARK 3 S TENSOR REMARK 3 S11: 0.1229 S12: -0.5195 S13: -0.2893 REMARK 3 S21: 0.4419 S22: 0.0234 S23: 0.9056 REMARK 3 S31: -0.1238 S32: -0.9382 S33: -0.2057 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 42 THROUGH 67 ) REMARK 3 ORIGIN FOR THE GROUP (A): -47.6378 14.1546 -40.5521 REMARK 3 T TENSOR REMARK 3 T11: 0.1823 T22: 0.2493 REMARK 3 T33: 0.1479 T12: -0.0048 REMARK 3 T13: -0.0463 T23: -0.0597 REMARK 3 L TENSOR REMARK 3 L11: 7.9674 L22: 2.8950 REMARK 3 L33: 7.3363 L12: 1.7177 REMARK 3 L13: 0.9025 L23: -1.1148 REMARK 3 S TENSOR REMARK 3 S11: 0.0928 S12: -0.1518 S13: 0.2275 REMARK 3 S21: 0.0114 S22: -0.1540 S23: 0.4626 REMARK 3 S31: -0.2096 S32: -0.4390 S33: 0.0563 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 68 THROUGH 72 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.9529 -5.0030 -37.2664 REMARK 3 T TENSOR REMARK 3 T11: 0.8871 T22: 0.5115 REMARK 3 T33: 1.2574 T12: -0.0491 REMARK 3 T13: -0.1042 T23: -0.0978 REMARK 3 L TENSOR REMARK 3 L11: 2.4982 L22: 5.6889 REMARK 3 L33: 8.2508 L12: 1.7564 REMARK 3 L13: -2.9066 L23: -6.6228 REMARK 3 S TENSOR REMARK 3 S11: -0.6834 S12: 0.6754 S13: -3.0177 REMARK 3 S21: 0.5103 S22: 0.4416 S23: 0.4951 REMARK 3 S31: 2.4338 S32: -0.2547 S33: 0.2126 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 73 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.9834 -0.1535 -42.1112 REMARK 3 T TENSOR REMARK 3 T11: 0.5243 T22: 0.3187 REMARK 3 T33: 0.5094 T12: 0.0679 REMARK 3 T13: -0.0827 T23: 0.0575 REMARK 3 L TENSOR REMARK 3 L11: 6.0172 L22: 3.7429 REMARK 3 L33: 4.6042 L12: 3.7865 REMARK 3 L13: -2.2943 L23: -3.6952 REMARK 3 S TENSOR REMARK 3 S11: 0.0468 S12: -0.4787 S13: -1.6959 REMARK 3 S21: -0.1813 S22: -0.2191 S23: -0.8698 REMARK 3 S31: 1.6444 S32: 0.8458 S33: 0.2110 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 6VZD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1000247354. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31237 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 59.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.2 REMARK 200 DATA REDUNDANCY : 53.80 REMARK 200 R MERGE (I) : 0.10010 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 40.8600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.51100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.410 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 6VYN (LIPID REMOVED) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM CITRATE BUFFER PH 5.4, 23-25% REMARK 280 PEG 4000, 14-15% 2-PROPANOL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 33.06200 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E 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 REMARK 350 BIOMOLECULE: 2 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: 3410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 1 REMARK 465 HIS A 2 REMARK 465 ALA A 3 REMARK 465 GLY A 4 REMARK 465 ALA A 5 REMARK 465 ARG A 85 REMARK 465 GLY A 86 REMARK 465 GLN A 87 REMARK 465 SER E 1 REMARK 465 HIS E 2 REMARK 465 SER B 1 REMARK 465 HIS B 2 REMARK 465 ALA B 3 REMARK 465 GLY B 4 REMARK 465 ALA B 5 REMARK 465 ASN B 6 REMARK 465 ARG B 85 REMARK 465 GLY B 86 REMARK 465 GLN B 87 REMARK 465 SER C 1 REMARK 465 HIS C 2 REMARK 465 ALA C 3 REMARK 465 GLY C 4 REMARK 465 ALA C 5 REMARK 465 ASN C 6 REMARK 465 ARG C 85 REMARK 465 GLY C 86 REMARK 465 GLN C 87 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RXY A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RXY A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RXY E 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RXY B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RXY B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RXY B 403 DBREF 6VZD A 2 87 UNP P50405 PSPB_MOUSE 61 146 DBREF 6VZD E 2 87 UNP P50405 PSPB_MOUSE 61 146 DBREF 6VZD B 2 87 UNP P50405 PSPB_MOUSE 61 146 DBREF 6VZD C 2 87 UNP P50405 PSPB_MOUSE 61 146 SEQADV 6VZD SER A 1 UNP P50405 EXPRESSION TAG SEQADV 6VZD GLU A 46 UNP P50405 LYS 105 ENGINEERED MUTATION SEQADV 6VZD GLU A 51 UNP P50405 ARG 110 ENGINEERED MUTATION SEQADV 6VZD SER E 1 UNP P50405 EXPRESSION TAG SEQADV 6VZD GLU E 46 UNP P50405 LYS 105 ENGINEERED MUTATION SEQADV 6VZD GLU E 51 UNP P50405 ARG 110 ENGINEERED MUTATION SEQADV 6VZD SER B 1 UNP P50405 EXPRESSION TAG SEQADV 6VZD GLU B 46 UNP P50405 LYS 105 ENGINEERED MUTATION SEQADV 6VZD GLU B 51 UNP P50405 ARG 110 ENGINEERED MUTATION SEQADV 6VZD SER C 1 UNP P50405 EXPRESSION TAG SEQADV 6VZD GLU C 46 UNP P50405 LYS 105 ENGINEERED MUTATION SEQADV 6VZD GLU C 51 UNP P50405 ARG 110 ENGINEERED MUTATION SEQRES 1 A 87 SER HIS ALA GLY ALA ASN ASP LEU CYS GLN GLU CYS GLU SEQRES 2 A 87 ASP ILE VAL HIS LEU LEU THR LYS MET THR LYS GLU ASP SEQRES 3 A 87 ALA PHE GLN GLU ALA ILE ARG LYS PHE LEU GLU GLN GLU SEQRES 4 A 87 CYS ASP ILE LEU PRO LEU GLU LEU LEU VAL PRO GLU CYS SEQRES 5 A 87 ARG GLN VAL LEU ASP VAL TYR LEU PRO LEU VAL ILE ASP SEQRES 6 A 87 TYR PHE GLN SER GLN ILE ASN PRO LYS ALA ILE CYS ASN SEQRES 7 A 87 HIS VAL GLY LEU CYS PRO ARG GLY GLN SEQRES 1 E 87 SER HIS ALA GLY ALA ASN ASP LEU CYS GLN GLU CYS GLU SEQRES 2 E 87 ASP ILE VAL HIS LEU LEU THR LYS MET THR LYS GLU ASP SEQRES 3 E 87 ALA PHE GLN GLU ALA ILE ARG LYS PHE LEU GLU GLN GLU SEQRES 4 E 87 CYS ASP ILE LEU PRO LEU GLU LEU LEU VAL PRO GLU CYS SEQRES 5 E 87 ARG GLN VAL LEU ASP VAL TYR LEU PRO LEU VAL ILE ASP SEQRES 6 E 87 TYR PHE GLN SER GLN ILE ASN PRO LYS ALA ILE CYS ASN SEQRES 7 E 87 HIS VAL GLY LEU CYS PRO ARG GLY GLN SEQRES 1 B 87 SER HIS ALA GLY ALA ASN ASP LEU CYS GLN GLU CYS GLU SEQRES 2 B 87 ASP ILE VAL HIS LEU LEU THR LYS MET THR LYS GLU ASP SEQRES 3 B 87 ALA PHE GLN GLU ALA ILE ARG LYS PHE LEU GLU GLN GLU SEQRES 4 B 87 CYS ASP ILE LEU PRO LEU GLU LEU LEU VAL PRO GLU CYS SEQRES 5 B 87 ARG GLN VAL LEU ASP VAL TYR LEU PRO LEU VAL ILE ASP SEQRES 6 B 87 TYR PHE GLN SER GLN ILE ASN PRO LYS ALA ILE CYS ASN SEQRES 7 B 87 HIS VAL GLY LEU CYS PRO ARG GLY GLN SEQRES 1 C 87 SER HIS ALA GLY ALA ASN ASP LEU CYS GLN GLU CYS GLU SEQRES 2 C 87 ASP ILE VAL HIS LEU LEU THR LYS MET THR LYS GLU ASP SEQRES 3 C 87 ALA PHE GLN GLU ALA ILE ARG LYS PHE LEU GLU GLN GLU SEQRES 4 C 87 CYS ASP ILE LEU PRO LEU GLU LEU LEU VAL PRO GLU CYS SEQRES 5 C 87 ARG GLN VAL LEU ASP VAL TYR LEU PRO LEU VAL ILE ASP SEQRES 6 C 87 TYR PHE GLN SER GLN ILE ASN PRO LYS ALA ILE CYS ASN SEQRES 7 C 87 HIS VAL GLY LEU CYS PRO ARG GLY GLN HET RXY A 101 244 HET RXY A 102 122 HET RXY E 201 122 HET RXY B 401 122 HET RXY B 402 244 HET RXY B 403 122 HETNAM RXY (7Z,19R,22R)-25-AMINO-22-HYDROXY-16,22-DIOXO-17,21,23- HETNAM 2 RXY TRIOXA-22LAMBDA~5~-PHOSPHAPENTACOS-7-EN-19-YL (9Z)- HETNAM 3 RXY OCTADEC-9-ENOATE FORMUL 5 RXY 6(C39 H74 N O8 P) FORMUL 11 HOH *318(H2 O) HELIX 1 AA1 ASP A 7 THR A 23 1 17 HELIX 2 AA2 GLU A 25 ASP A 41 1 17 HELIX 3 AA3 PRO A 44 VAL A 49 1 6 HELIX 4 AA4 GLU A 51 SER A 69 1 19 HELIX 5 AA5 ASN A 72 VAL A 80 1 9 HELIX 6 AA6 GLY E 4 ASN E 6 5 3 HELIX 7 AA7 ASP E 7 THR E 23 1 17 HELIX 8 AA8 GLU E 25 ASP E 41 1 17 HELIX 9 AA9 PRO E 44 VAL E 49 1 6 HELIX 10 AB1 GLU E 51 GLN E 70 1 20 HELIX 11 AB2 LYS E 74 VAL E 80 1 7 HELIX 12 AB3 LEU B 8 THR B 23 1 16 HELIX 13 AB4 GLU B 25 ASP B 41 1 17 HELIX 14 AB5 PRO B 44 VAL B 49 1 6 HELIX 15 AB6 GLU B 51 GLN B 68 1 18 HELIX 16 AB7 ASN B 72 VAL B 80 1 9 HELIX 17 AB8 LEU C 8 LYS C 24 1 17 HELIX 18 AB9 GLU C 25 ASP C 41 1 17 HELIX 19 AC1 PRO C 44 VAL C 49 1 6 HELIX 20 AC2 GLU C 51 GLN C 68 1 18 HELIX 21 AC3 ASN C 72 VAL C 80 1 9 SSBOND 1 CYS A 9 CYS A 83 1555 1555 2.03 SSBOND 2 CYS A 12 CYS A 77 1555 1555 2.06 SSBOND 3 CYS A 40 CYS A 52 1555 1555 2.09 SSBOND 4 CYS E 9 CYS E 83 1555 1555 2.10 SSBOND 5 CYS E 12 CYS E 77 1555 1555 2.12 SSBOND 6 CYS E 40 CYS E 52 1555 1555 2.04 SSBOND 7 CYS B 9 CYS B 83 1555 1555 2.04 SSBOND 8 CYS B 12 CYS B 77 1555 1555 2.08 SSBOND 9 CYS B 40 CYS B 52 1555 1555 2.04 SSBOND 10 CYS C 9 CYS C 83 1555 1555 2.04 SSBOND 11 CYS C 12 CYS C 77 1555 1555 2.05 SSBOND 12 CYS C 40 CYS C 52 1555 1555 2.03 CISPEP 1 LEU A 43 PRO A 44 0 3.30 CISPEP 2 LEU E 43 PRO E 44 0 -0.03 CISPEP 3 LEU B 43 PRO B 44 0 2.35 CISPEP 4 LEU C 43 PRO C 44 0 2.97 SITE 1 AC1 8 PRO A 44 LEU A 45 TYR A 66 RXY A 102 SITE 2 AC1 8 HOH A 209 TYR E 59 TYR E 66 RXY E 201 SITE 1 AC2 6 CYS A 12 TYR A 66 ILE A 76 HIS A 79 SITE 2 AC2 6 RXY A 101 GLU E 39 SITE 1 AC3 11 PHE A 35 GLU A 39 CYS A 52 RXY A 101 SITE 2 AC3 11 CYS E 12 TYR E 66 PHE E 67 ILE E 76 SITE 3 AC3 11 HIS E 79 VAL E 80 HOH E 321 SITE 1 AC4 7 GLU B 39 RXY B 402 HOH B 524 CYS C 12 SITE 2 AC4 7 TYR C 66 ILE C 76 HIS C 79 SITE 1 AC5 12 VAL B 49 TYR B 59 LEU B 62 TYR B 66 SITE 2 AC5 12 RXY B 401 RXY B 403 HOH B 518 VAL C 49 SITE 3 AC5 12 TYR C 59 VAL C 63 TYR C 66 PHE C 67 SITE 1 AC6 9 CYS B 12 ILE B 15 TYR B 66 HIS B 79 SITE 2 AC6 9 RXY B 402 HOH B 526 PHE C 35 LEU C 36 SITE 3 AC6 9 HOH C 106 CRYST1 49.793 66.124 59.620 90.00 97.37 90.00 P 1 21 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.020083 0.000000 0.002598 0.00000 SCALE2 0.000000 0.015123 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016913 0.00000