HEADER PROTEIN BINDING 12-MAR-17 5XAD TITLE NLIR - LC3B FUSION PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MICROTUBULE-ASSOCIATED PROTEINS 1A/1B LIGHT CHAIN 3B; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AUTOPHAGY-RELATED PROTEIN LC3 B,AUTOPHAGY-RELATED UBIQUITIN- COMPND 5 LIKE MODIFIER LC3 B,MAP1 LIGHT CHAIN 3-LIKE PROTEIN 2,MAP1A/MAP1B COMPND 6 LIGHT CHAIN 3 B,MAP1A/MAP1B LC3 B,MICROTUBULE-ASSOCIATED PROTEIN 1 COMPND 7 LIGHT CHAIN 3 BETA; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: UNCHARACTERISED PROTEIN; COMPND 11 CHAIN: C, D; COMPND 12 FRAGMENT: UNP RESIDUES 12-34; COMPND 13 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: MAP1LC3B, MAP1ALC3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA; SOURCE 11 ORGANISM_TAXID: 91891; SOURCE 12 STRAIN: PHILADELPHIA 1 / ATCC 33152 / DSM 7513; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS AUTOPHAGY, LC3, ATG8, FUSION PROTEIN, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR D.H.KWON,L.KIM,H.K.SONG REVDAT 5 22-NOV-23 5XAD 1 REMARK REVDAT 4 11-OCT-17 5XAD 1 SOURCE REVDAT 3 02-AUG-17 5XAD 1 JRNL REVDAT 2 19-JUL-17 5XAD 1 JRNL REVDAT 1 12-JUL-17 5XAD 0 JRNL AUTH D.H.KWON,L.KIM,B.W.KIM,J.H.KIM,K.H.ROH,E.J.CHOI,H.K.SONG JRNL TITL A NOVEL CONFORMATION OF THE LC3-INTERACTING REGION MOTIF JRNL TITL 2 REVEALED BY THE STRUCTURE OF A COMPLEX BETWEEN LC3B AND RAVZ JRNL REF BIOCHEM. BIOPHYS. RES. V. 490 1093 2017 JRNL REF 2 COMMUN. JRNL REFN ESSN 1090-2104 JRNL PMID 28668392 JRNL DOI 10.1016/J.BBRC.2017.06.173 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575) 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) : 35.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 23313 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.580 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 37.5188 - 4.5274 0.96 1626 153 0.2099 0.2359 REMARK 3 2 4.5274 - 3.5945 1.00 1568 147 0.1757 0.2140 REMARK 3 3 3.5945 - 3.1404 1.00 1561 146 0.1989 0.2391 REMARK 3 4 3.1404 - 2.8534 1.00 1530 144 0.2154 0.2409 REMARK 3 5 2.8534 - 2.6489 1.00 1520 142 0.2206 0.2681 REMARK 3 6 2.6489 - 2.4928 1.00 1536 144 0.2180 0.2871 REMARK 3 7 2.4928 - 2.3679 1.00 1512 143 0.2207 0.2988 REMARK 3 8 2.3679 - 2.2649 1.00 1503 141 0.2162 0.3114 REMARK 3 9 2.2649 - 2.1777 1.00 1521 142 0.2243 0.2565 REMARK 3 10 2.1777 - 2.1026 1.00 1489 140 0.2209 0.2325 REMARK 3 11 2.1026 - 2.0368 1.00 1499 141 0.2349 0.3092 REMARK 3 12 2.0368 - 1.9786 1.00 1488 139 0.2305 0.2700 REMARK 3 13 1.9786 - 1.9265 0.99 1475 139 0.2508 0.3208 REMARK 3 14 1.9265 - 1.8795 0.99 1485 139 0.2678 0.3793 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 2386 REMARK 3 ANGLE : 1.206 3208 REMARK 3 CHIRALITY : 0.060 355 REMARK 3 PLANARITY : 0.007 420 REMARK 3 DIHEDRAL : 11.472 1475 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 2 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): 117.9798 117.1288 135.4594 REMARK 3 T TENSOR REMARK 3 T11: 0.7310 T22: 0.4378 REMARK 3 T33: 0.3835 T12: 0.2578 REMARK 3 T13: 0.0225 T23: 0.0465 REMARK 3 L TENSOR REMARK 3 L11: 0.9429 L22: 6.9073 REMARK 3 L33: 0.7831 L12: -1.8294 REMARK 3 L13: -0.5518 L23: 1.6646 REMARK 3 S TENSOR REMARK 3 S11: -0.4766 S12: -0.4628 S13: 0.0176 REMARK 3 S21: 1.0574 S22: -0.4181 S23: 0.3862 REMARK 3 S31: -1.6077 S32: -0.9174 S33: 0.0182 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 7 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): 130.4008 111.0810 124.9062 REMARK 3 T TENSOR REMARK 3 T11: 0.1892 T22: 0.1621 REMARK 3 T33: 0.1953 T12: -0.0155 REMARK 3 T13: 0.0172 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 3.5513 L22: 1.3061 REMARK 3 L33: 3.6175 L12: 0.2809 REMARK 3 L13: 1.5895 L23: -0.4650 REMARK 3 S TENSOR REMARK 3 S11: -0.1674 S12: 0.2097 S13: 0.0849 REMARK 3 S21: 0.0336 S22: 0.0903 S23: 0.0317 REMARK 3 S31: -0.1861 S32: -0.1077 S33: -0.0719 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): 135.4692 112.6534 140.4907 REMARK 3 T TENSOR REMARK 3 T11: 0.2777 T22: 0.1984 REMARK 3 T33: 0.2041 T12: 0.0856 REMARK 3 T13: 0.0222 T23: 0.0049 REMARK 3 L TENSOR REMARK 3 L11: 2.1568 L22: 3.0926 REMARK 3 L33: 4.4181 L12: -0.8607 REMARK 3 L13: 0.8112 L23: -0.7850 REMARK 3 S TENSOR REMARK 3 S11: -0.1739 S12: -0.3283 S13: -0.0118 REMARK 3 S21: 0.4174 S22: 0.2129 S23: 0.0796 REMARK 3 S31: -0.7570 S32: -0.2307 S33: -0.0003 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 71 THROUGH 94 ) REMARK 3 ORIGIN FOR THE GROUP (A): 136.1043 106.0322 144.7326 REMARK 3 T TENSOR REMARK 3 T11: 0.3048 T22: 0.2507 REMARK 3 T33: 0.2834 T12: 0.0922 REMARK 3 T13: 0.0345 T23: 0.0614 REMARK 3 L TENSOR REMARK 3 L11: 4.3079 L22: 1.4384 REMARK 3 L33: 3.0601 L12: -1.4927 REMARK 3 L13: -0.2061 L23: -1.6579 REMARK 3 S TENSOR REMARK 3 S11: 0.0624 S12: -0.2978 S13: 0.0286 REMARK 3 S21: 0.1270 S22: 0.3301 S23: 0.0341 REMARK 3 S31: -0.3010 S32: -0.3774 S33: -0.0355 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 95 THROUGH 118 ) REMARK 3 ORIGIN FOR THE GROUP (A): 132.7501 103.3101 134.4298 REMARK 3 T TENSOR REMARK 3 T11: 0.1957 T22: 0.1947 REMARK 3 T33: 0.2700 T12: -0.0153 REMARK 3 T13: 0.0238 T23: 0.0414 REMARK 3 L TENSOR REMARK 3 L11: 3.0536 L22: 1.6672 REMARK 3 L33: 3.8311 L12: -0.4879 REMARK 3 L13: 1.0531 L23: -0.8302 REMARK 3 S TENSOR REMARK 3 S11: -0.0204 S12: -0.1988 S13: -0.3595 REMARK 3 S21: 0.0320 S22: 0.2619 S23: 0.1693 REMARK 3 S31: 0.1943 S32: -0.0723 S33: -0.2091 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): 145.1257 74.1290 134.8985 REMARK 3 T TENSOR REMARK 3 T11: 0.5539 T22: 0.4125 REMARK 3 T33: 1.0556 T12: 0.0734 REMARK 3 T13: -0.1999 T23: -0.1414 REMARK 3 L TENSOR REMARK 3 L11: 6.5456 L22: 8.0981 REMARK 3 L33: 1.9996 L12: 4.5320 REMARK 3 L13: -9.0888 L23: -5.5163 REMARK 3 S TENSOR REMARK 3 S11: -1.1676 S12: -0.3737 S13: -0.4209 REMARK 3 S21: -0.1041 S22: -0.2557 S23: -1.4385 REMARK 3 S31: 0.2860 S32: 0.0008 S33: -2.3546 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 7 THROUGH 12 ) REMARK 3 ORIGIN FOR THE GROUP (A): 139.7735 81.1880 131.0829 REMARK 3 T TENSOR REMARK 3 T11: 0.1625 T22: 0.2797 REMARK 3 T33: 0.6080 T12: 0.0554 REMARK 3 T13: 0.0681 T23: -0.0536 REMARK 3 L TENSOR REMARK 3 L11: 2.4774 L22: 5.3586 REMARK 3 L33: 5.0738 L12: 1.1557 REMARK 3 L13: -0.7030 L23: 2.4298 REMARK 3 S TENSOR REMARK 3 S11: -0.1015 S12: 0.2214 S13: -0.1407 REMARK 3 S21: 0.3513 S22: 0.4975 S23: -1.6134 REMARK 3 S31: -0.2472 S32: 0.9838 S33: 0.0465 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 13 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 128.1322 85.5153 129.0096 REMARK 3 T TENSOR REMARK 3 T11: 0.2658 T22: 0.2287 REMARK 3 T33: 0.3988 T12: -0.0273 REMARK 3 T13: 0.0015 T23: 0.0304 REMARK 3 L TENSOR REMARK 3 L11: 8.0821 L22: 5.4409 REMARK 3 L33: 5.0343 L12: 1.4369 REMARK 3 L13: 0.2550 L23: 0.4142 REMARK 3 S TENSOR REMARK 3 S11: -0.2540 S12: 0.0033 S13: 0.6393 REMARK 3 S21: -0.8116 S22: 0.0460 S23: 0.2687 REMARK 3 S31: -0.2654 S32: -0.4124 S33: -0.0395 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 27 THROUGH 59 ) REMARK 3 ORIGIN FOR THE GROUP (A): 132.0155 76.3855 143.2879 REMARK 3 T TENSOR REMARK 3 T11: 0.3055 T22: 0.2833 REMARK 3 T33: 0.3980 T12: -0.0630 REMARK 3 T13: -0.0321 T23: -0.0385 REMARK 3 L TENSOR REMARK 3 L11: 3.9674 L22: 3.5365 REMARK 3 L33: 3.5924 L12: 0.4218 REMARK 3 L13: 2.0251 L23: 0.6869 REMARK 3 S TENSOR REMARK 3 S11: 0.3186 S12: -0.5212 S13: -0.1682 REMARK 3 S21: 0.3759 S22: -0.1168 S23: -0.3891 REMARK 3 S31: 0.4978 S32: 0.0275 S33: -0.1121 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 60 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): 127.8691 73.2714 151.4202 REMARK 3 T TENSOR REMARK 3 T11: 0.5079 T22: 0.4031 REMARK 3 T33: 0.3388 T12: -0.1347 REMARK 3 T13: -0.0590 T23: -0.0214 REMARK 3 L TENSOR REMARK 3 L11: 5.4197 L22: 6.8259 REMARK 3 L33: 6.7838 L12: -0.1549 REMARK 3 L13: 0.0754 L23: 1.1715 REMARK 3 S TENSOR REMARK 3 S11: 0.0790 S12: -0.8389 S13: -0.1363 REMARK 3 S21: 0.7807 S22: 0.4905 S23: 0.3171 REMARK 3 S31: 1.0965 S32: -0.2552 S33: 0.0029 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 71 THROUGH 94 ) REMARK 3 ORIGIN FOR THE GROUP (A): 133.4214 79.1072 153.9170 REMARK 3 T TENSOR REMARK 3 T11: 0.5785 T22: 0.5865 REMARK 3 T33: 0.3728 T12: -0.0976 REMARK 3 T13: -0.0427 T23: 0.0304 REMARK 3 L TENSOR REMARK 3 L11: 4.7274 L22: 4.8636 REMARK 3 L33: 4.3192 L12: -0.6233 REMARK 3 L13: -0.3352 L23: 1.9104 REMARK 3 S TENSOR REMARK 3 S11: 0.1189 S12: -0.7302 S13: -0.1551 REMARK 3 S21: 0.2637 S22: 0.0180 S23: -0.3370 REMARK 3 S31: 0.4394 S32: 0.0438 S33: -0.1131 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 95 THROUGH 108 ) REMARK 3 ORIGIN FOR THE GROUP (A): 128.7853 89.3357 141.7913 REMARK 3 T TENSOR REMARK 3 T11: 0.3019 T22: 0.2785 REMARK 3 T33: 0.4050 T12: -0.0251 REMARK 3 T13: -0.0016 T23: -0.0489 REMARK 3 L TENSOR REMARK 3 L11: 4.7252 L22: 4.3046 REMARK 3 L33: 6.2424 L12: 0.9097 REMARK 3 L13: -0.6178 L23: -0.0556 REMARK 3 S TENSOR REMARK 3 S11: 0.1016 S12: -0.5247 S13: 0.5782 REMARK 3 S21: 0.1328 S22: 0.0495 S23: -0.0289 REMARK 3 S31: 0.1615 S32: -0.2999 S33: -0.0387 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 109 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): 139.9781 78.8685 150.9155 REMARK 3 T TENSOR REMARK 3 T11: 0.3659 T22: 0.3690 REMARK 3 T33: 0.4517 T12: -0.0321 REMARK 3 T13: -0.0487 T23: -0.0345 REMARK 3 L TENSOR REMARK 3 L11: 5.8629 L22: 0.2846 REMARK 3 L33: 1.1792 L12: -0.5629 REMARK 3 L13: 1.9497 L23: 0.1843 REMARK 3 S TENSOR REMARK 3 S11: 0.1204 S12: -0.9799 S13: -0.4432 REMARK 3 S21: 0.1576 S22: 0.2889 S23: -0.1046 REMARK 3 S31: 0.4683 S32: -0.3117 S33: -0.4599 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 11 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 120.3614 129.7811 127.9179 REMARK 3 T TENSOR REMARK 3 T11: 0.2712 T22: 0.3289 REMARK 3 T33: 0.1915 T12: 0.0530 REMARK 3 T13: 0.0303 T23: 0.0024 REMARK 3 L TENSOR REMARK 3 L11: 5.0869 L22: 2.4380 REMARK 3 L33: 3.1576 L12: -3.4930 REMARK 3 L13: 3.8419 L23: -2.4965 REMARK 3 S TENSOR REMARK 3 S11: 0.2903 S12: -0.0024 S13: 0.0378 REMARK 3 S21: -0.8068 S22: -0.2184 S23: -0.1736 REMARK 3 S31: 0.4074 S32: 0.4611 S33: -0.0262 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 18 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): 121.9956 145.5091 120.5184 REMARK 3 T TENSOR REMARK 3 T11: 0.5242 T22: 0.6685 REMARK 3 T33: 0.8609 T12: -0.1740 REMARK 3 T13: 0.0585 T23: 0.1328 REMARK 3 L TENSOR REMARK 3 L11: 8.1255 L22: 5.4091 REMARK 3 L33: 4.4330 L12: -0.3971 REMARK 3 L13: -1.8901 L23: 4.3112 REMARK 3 S TENSOR REMARK 3 S11: 0.1556 S12: 0.8078 S13: 3.7300 REMARK 3 S21: -1.7111 S22: 0.3026 S23: 0.1861 REMARK 3 S31: -1.4860 S32: 0.5989 S33: -0.0772 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 29 THROUGH 34 ) REMARK 3 ORIGIN FOR THE GROUP (A): 121.8276 132.9326 130.7780 REMARK 3 T TENSOR REMARK 3 T11: 0.3385 T22: 0.3913 REMARK 3 T33: 0.2525 T12: -0.1034 REMARK 3 T13: -0.0799 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 4.0248 L22: 2.0133 REMARK 3 L33: 9.0582 L12: 1.3523 REMARK 3 L13: -0.7850 L23: -6.0246 REMARK 3 S TENSOR REMARK 3 S11: 0.3337 S12: 0.2600 S13: -0.0841 REMARK 3 S21: -0.2604 S22: -0.5359 S23: -0.4593 REMARK 3 S31: 0.3142 S32: 1.2481 S33: 0.0738 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 10 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 139.6385 65.7945 124.9076 REMARK 3 T TENSOR REMARK 3 T11: 0.3961 T22: 0.2661 REMARK 3 T33: 0.3369 T12: -0.0878 REMARK 3 T13: 0.0042 T23: 0.0034 REMARK 3 L TENSOR REMARK 3 L11: 1.3481 L22: 1.6229 REMARK 3 L33: 5.5888 L12: -1.1450 REMARK 3 L13: -2.7213 L23: 2.6247 REMARK 3 S TENSOR REMARK 3 S11: 0.0664 S12: 0.0318 S13: 0.1406 REMARK 3 S21: 0.3714 S22: -0.0423 S23: -0.1571 REMARK 3 S31: 0.3958 S32: -0.0117 S33: -0.1420 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 18 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): 134.8004 52.5791 113.0012 REMARK 3 T TENSOR REMARK 3 T11: 0.3944 T22: 0.4767 REMARK 3 T33: 0.3612 T12: -0.0689 REMARK 3 T13: 0.0142 T23: -0.0036 REMARK 3 L TENSOR REMARK 3 L11: 2.5596 L22: 3.7811 REMARK 3 L33: 2.1788 L12: 1.9180 REMARK 3 L13: 0.4867 L23: 1.2424 REMARK 3 S TENSOR REMARK 3 S11: -0.3622 S12: 0.5721 S13: -0.4038 REMARK 3 S21: -0.4610 S22: -0.0332 S23: 0.1677 REMARK 3 S31: -0.1732 S32: -0.3389 S33: 0.0411 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 29 THROUGH 34 ) REMARK 3 ORIGIN FOR THE GROUP (A): 139.0574 61.3812 125.9984 REMARK 3 T TENSOR REMARK 3 T11: 0.3828 T22: 0.2816 REMARK 3 T33: 0.3632 T12: -0.0170 REMARK 3 T13: 0.0349 T23: -0.0306 REMARK 3 L TENSOR REMARK 3 L11: 4.1084 L22: 3.3962 REMARK 3 L33: 3.9855 L12: 2.3323 REMARK 3 L13: 1.7760 L23: 3.5665 REMARK 3 S TENSOR REMARK 3 S11: 0.4170 S12: 0.3504 S13: 0.6113 REMARK 3 S21: 0.8179 S22: 0.5214 S23: -0.3067 REMARK 3 S31: -0.0395 S32: -0.0497 S33: 0.4034 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 5XAD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1300003174. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-DEC-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23313 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 37.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 50.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 3VTU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 M AMMONIUM SULFATE, 100MM REMARK 280 CHES/NAOH PH 9.5, 200MM NACL., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.52100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.86750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.86750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 95.28150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.86750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.86750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.76050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.86750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.86750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 95.28150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.86750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.86750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 31.76050 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 63.52100 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 PHE A 119 REMARK 465 GLY A 120 REMARK 465 GLY C 10 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE1 GLU B 4 O HOH B 201 1.83 REMARK 500 OE1 GLU B 14 O HOH B 202 1.87 REMARK 500 O HOH C 107 O HOH C 108 1.88 REMARK 500 O HOH A 255 O HOH A 276 1.91 REMARK 500 O HOH A 269 O HOH A 275 1.93 REMARK 500 OD2 ASP B 48 O HOH B 203 2.00 REMARK 500 O HOH A 215 O HOH A 279 2.00 REMARK 500 O HOH B 203 O HOH B 205 2.02 REMARK 500 O HOH B 270 O HOH B 272 2.10 REMARK 500 O HOH B 242 O HOH B 274 2.12 REMARK 500 N SER C 11 O GLY C 34 2.15 REMARK 500 OD1 ASN A 74 O HOH A 201 2.16 REMARK 500 O HOH A 224 O HOH A 283 2.17 REMARK 500 O GLY B 120 O HOH B 204 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 240 O HOH B 259 6577 1.81 REMARK 500 REMARK 500 REMARK: NULL 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 86 142.56 132.17 REMARK 500 ASN B 84 -129.60 39.32 REMARK 500 PHE B 119 -164.82 -106.02 REMARK 500 SER C 24 -82.28 -137.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5XAC RELATED DB: PDB REMARK 900 RELATED ID: 5XAE RELATED DB: PDB DBREF 5XAD A 2 120 UNP Q9GZQ8 MLP3B_HUMAN 2 120 DBREF 5XAD B 2 120 UNP Q9GZQ8 MLP3B_HUMAN 2 120 DBREF1 5XAD C 12 34 UNP A0A129J378_LEGPN DBREF2 5XAD C A0A129J378 12 34 DBREF1 5XAD D 12 34 UNP A0A129J378_LEGPN DBREF2 5XAD D A0A129J378 12 34 SEQADV 5XAD GLY C 10 UNP A0A129J37 EXPRESSION TAG SEQADV 5XAD SER C 11 UNP A0A129J37 EXPRESSION TAG SEQADV 5XAD GLY D 10 UNP A0A129J37 EXPRESSION TAG SEQADV 5XAD SER D 11 UNP A0A129J37 EXPRESSION TAG SEQRES 1 A 119 PRO SER GLU LYS THR PHE LYS GLN ARG ARG THR PHE GLU SEQRES 2 A 119 GLN ARG VAL GLU ASP VAL ARG LEU ILE ARG GLU GLN HIS SEQRES 3 A 119 PRO THR LYS ILE PRO VAL ILE ILE GLU ARG TYR LYS GLY SEQRES 4 A 119 GLU LYS GLN LEU PRO VAL LEU ASP LYS THR LYS PHE LEU SEQRES 5 A 119 VAL PRO ASP HIS VAL ASN MET SER GLU LEU ILE LYS ILE SEQRES 6 A 119 ILE ARG ARG ARG LEU GLN LEU ASN ALA ASN GLN ALA PHE SEQRES 7 A 119 PHE LEU LEU VAL ASN GLY HIS SER MET VAL SER VAL SER SEQRES 8 A 119 THR PRO ILE SER GLU VAL TYR GLU SER GLU LYS ASP GLU SEQRES 9 A 119 ASP GLY PHE LEU TYR MET VAL TYR ALA SER GLN GLU THR SEQRES 10 A 119 PHE GLY SEQRES 1 B 119 PRO SER GLU LYS THR PHE LYS GLN ARG ARG THR PHE GLU SEQRES 2 B 119 GLN ARG VAL GLU ASP VAL ARG LEU ILE ARG GLU GLN HIS SEQRES 3 B 119 PRO THR LYS ILE PRO VAL ILE ILE GLU ARG TYR LYS GLY SEQRES 4 B 119 GLU LYS GLN LEU PRO VAL LEU ASP LYS THR LYS PHE LEU SEQRES 5 B 119 VAL PRO ASP HIS VAL ASN MET SER GLU LEU ILE LYS ILE SEQRES 6 B 119 ILE ARG ARG ARG LEU GLN LEU ASN ALA ASN GLN ALA PHE SEQRES 7 B 119 PHE LEU LEU VAL ASN GLY HIS SER MET VAL SER VAL SER SEQRES 8 B 119 THR PRO ILE SER GLU VAL TYR GLU SER GLU LYS ASP GLU SEQRES 9 B 119 ASP GLY PHE LEU TYR MET VAL TYR ALA SER GLN GLU THR SEQRES 10 B 119 PHE GLY SEQRES 1 C 25 GLY SER ILE VAL ASP GLU PHE GLU GLU LEU GLY GLU GLN SEQRES 2 C 25 GLU SER ASP ILE ASP GLU PHE ASP LEU LEU GLU GLY SEQRES 1 D 25 GLY SER ILE VAL ASP GLU PHE GLU GLU LEU GLY GLU GLN SEQRES 2 D 25 GLU SER ASP ILE ASP GLU PHE ASP LEU LEU GLU GLY FORMUL 5 HOH *199(H2 O) HELIX 1 AA1 THR A 6 ARG A 11 1 6 HELIX 2 AA2 THR A 12 HIS A 27 1 16 HELIX 3 AA3 ASN A 59 LEU A 71 1 13 HELIX 4 AA4 PRO A 94 LYS A 103 1 10 HELIX 5 AA5 THR B 6 ARG B 11 1 6 HELIX 6 AA6 THR B 12 HIS B 27 1 16 HELIX 7 AA7 ASN B 59 LEU B 71 1 13 HELIX 8 AA8 PRO B 94 LYS B 103 1 10 HELIX 9 AA9 GLU B 117 PHE B 119 5 3 SHEET 1 AA1 4 LYS A 51 PRO A 55 0 SHEET 2 AA1 4 LYS A 30 ARG A 37 -1 N ILE A 31 O VAL A 54 SHEET 3 AA1 4 LEU A 109 ALA A 114 1 O MET A 111 N ILE A 34 SHEET 4 AA1 4 PHE A 80 VAL A 83 -1 N LEU A 82 O VAL A 112 SHEET 1 AA2 4 LYS B 51 PRO B 55 0 SHEET 2 AA2 4 LYS B 30 ARG B 37 -1 N ILE B 31 O VAL B 54 SHEET 3 AA2 4 LEU B 109 SER B 115 1 O MET B 111 N ILE B 34 SHEET 4 AA2 4 PHE B 79 VAL B 83 -1 N PHE B 80 O ALA B 114 SHEET 1 AA3 2 ILE C 12 GLU C 17 0 SHEET 2 AA3 2 PHE C 29 GLY C 34 -1 O GLY C 34 N ILE C 12 SHEET 1 AA4 2 ILE D 12 GLU D 17 0 SHEET 2 AA4 2 PHE D 29 GLY D 34 -1 O GLY D 34 N ILE D 12 CISPEP 1 GLN C 22 GLU C 23 0 2.89 CISPEP 2 GLU C 23 SER C 24 0 -0.02 CRYST1 65.735 65.735 127.042 90.00 90.00 90.00 P 43 21 2 16 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 0.015213 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015213 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007871 0.00000