HEADER HYDROLASE 17-JUN-19 6K9P TITLE STRUCTURE OF DEUBIQUITINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN THIOESTERASE; COMPND 3 CHAIN: B; COMPND 4 EC: 3.4.19.12; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UBIQUITIN; COMPND 8 CHAIN: G; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA SUBSP. JAPONICA; SOURCE 3 ORGANISM_COMMON: RICE; SOURCE 4 ORGANISM_TAXID: 39947; SOURCE 5 GENE: OSJ_28104; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: UBB; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IN COMPLEX WITH UBIQUITIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.N.LU,L.LIU,F.WANG REVDAT 3 29-NOV-23 6K9P 1 REMARK REVDAT 2 09-NOV-22 6K9P 1 JRNL REVDAT 1 24-JUN-20 6K9P 0 JRNL AUTH L.LU,X.ZHAI,X.LI,S.WANG,L.ZHANG,L.WANG,X.JIN,L.LIANG,Z.DENG, JRNL AUTH 2 Z.LI,Y.WANG,X.FU,H.HU,J.WANG,Z.MEI,Z.HE,F.WANG JRNL TITL MET1-SPECIFIC MOTIFS CONSERVED IN OTUB SUBFAMILY OF GREEN JRNL TITL 2 PLANTS ENABLE RICE OTUB1 TO HYDROLYSE MET1 UBIQUITIN CHAINS JRNL REF NAT COMMUN V. 13 4672 2022 JRNL REFN ESSN 2041-1723 JRNL DOI 10.1038/S41467-022-32364-3 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2828:V1.0) 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.93 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 23032 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.810 REMARK 3 FREE R VALUE TEST SET COUNT : 1107 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 41.9383 - 4.0931 1.00 2810 134 0.1446 0.1442 REMARK 3 2 4.0931 - 3.2492 1.00 2748 135 0.1625 0.2173 REMARK 3 3 3.2492 - 2.8386 1.00 2742 163 0.1878 0.2666 REMARK 3 4 2.8386 - 2.5791 1.00 2753 133 0.1954 0.2732 REMARK 3 5 2.5791 - 2.3942 1.00 2737 143 0.1996 0.2195 REMARK 3 6 2.3942 - 2.2531 1.00 2755 130 0.2027 0.2518 REMARK 3 7 2.2531 - 2.1403 1.00 2746 132 0.2018 0.2270 REMARK 3 8 2.1403 - 2.0471 0.96 2634 137 0.2320 0.2718 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.190 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 : 0.007 2591 REMARK 3 ANGLE : 0.893 3493 REMARK 3 CHIRALITY : 0.056 387 REMARK 3 PLANARITY : 0.005 454 REMARK 3 DIHEDRAL : 19.245 1572 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 20 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 73 THROUGH 95 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6107 20.1431 2.1862 REMARK 3 T TENSOR REMARK 3 T11: 0.5200 T22: 0.3693 REMARK 3 T33: 0.5764 T12: -0.0599 REMARK 3 T13: 0.0495 T23: 0.0401 REMARK 3 L TENSOR REMARK 3 L11: 0.2454 L22: 0.2292 REMARK 3 L33: 0.2146 L12: -0.3017 REMARK 3 L13: 0.1339 L23: -0.0917 REMARK 3 S TENSOR REMARK 3 S11: 0.1459 S12: 0.0876 S13: 0.3086 REMARK 3 S21: -0.6222 S22: -0.0446 S23: -0.2363 REMARK 3 S31: -0.4595 S32: -0.0564 S33: -0.0003 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 96 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.3914 18.7323 9.9607 REMARK 3 T TENSOR REMARK 3 T11: 0.4017 T22: 0.2531 REMARK 3 T33: 0.4123 T12: -0.0823 REMARK 3 T13: -0.0083 T23: -0.0328 REMARK 3 L TENSOR REMARK 3 L11: 1.2606 L22: 1.2042 REMARK 3 L33: 0.8146 L12: -0.6719 REMARK 3 L13: -0.6434 L23: -0.5455 REMARK 3 S TENSOR REMARK 3 S11: 0.2590 S12: -0.0266 S13: 0.2471 REMARK 3 S21: 0.0444 S22: 0.0064 S23: -0.6766 REMARK 3 S31: -0.5267 S32: 0.1378 S33: 0.0061 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 121 THROUGH 139 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.1696 2.0936 5.9385 REMARK 3 T TENSOR REMARK 3 T11: 0.2126 T22: 0.2930 REMARK 3 T33: 0.4060 T12: -0.0366 REMARK 3 T13: -0.0155 T23: 0.0127 REMARK 3 L TENSOR REMARK 3 L11: 0.2060 L22: 0.5192 REMARK 3 L33: 0.5846 L12: -0.1881 REMARK 3 L13: -0.2217 L23: 0.6830 REMARK 3 S TENSOR REMARK 3 S11: 0.0947 S12: -0.2453 S13: 0.3363 REMARK 3 S21: -0.0111 S22: -0.0115 S23: -0.3907 REMARK 3 S31: -0.1548 S32: 0.0063 S33: -0.0003 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 140 THROUGH 159 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.6563 -13.3539 9.4267 REMARK 3 T TENSOR REMARK 3 T11: 0.3216 T22: 0.3175 REMARK 3 T33: 0.4382 T12: 0.0763 REMARK 3 T13: -0.0414 T23: 0.0613 REMARK 3 L TENSOR REMARK 3 L11: 0.3406 L22: 0.1481 REMARK 3 L33: 0.2614 L12: -0.2301 REMARK 3 L13: -0.1402 L23: 0.2291 REMARK 3 S TENSOR REMARK 3 S11: 0.0847 S12: -0.2161 S13: -0.5560 REMARK 3 S21: 0.2055 S22: -0.0175 S23: -0.3779 REMARK 3 S31: 0.4971 S32: 0.0686 S33: 0.0013 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 160 THROUGH 181 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9964 -11.6154 -1.1089 REMARK 3 T TENSOR REMARK 3 T11: 0.3667 T22: 0.2668 REMARK 3 T33: 0.3947 T12: 0.0293 REMARK 3 T13: 0.0562 T23: -0.0112 REMARK 3 L TENSOR REMARK 3 L11: 0.2123 L22: 0.3393 REMARK 3 L33: 0.0955 L12: 0.1038 REMARK 3 L13: 0.2168 L23: 0.1223 REMARK 3 S TENSOR REMARK 3 S11: -0.1719 S12: 0.1553 S13: -0.3234 REMARK 3 S21: -0.2370 S22: 0.0937 S23: -0.4406 REMARK 3 S31: 0.2488 S32: 0.0144 S33: -0.0001 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 182 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.2911 0.1354 -3.8575 REMARK 3 T TENSOR REMARK 3 T11: 0.3870 T22: 0.5189 REMARK 3 T33: 0.5365 T12: 0.0140 REMARK 3 T13: 0.1278 T23: 0.0264 REMARK 3 L TENSOR REMARK 3 L11: 0.2919 L22: 0.3345 REMARK 3 L33: 0.4881 L12: -0.0719 REMARK 3 L13: -0.1646 L23: -0.2018 REMARK 3 S TENSOR REMARK 3 S11: 0.2928 S12: 0.0724 S13: 0.4219 REMARK 3 S21: -0.6595 S22: -0.2811 S23: -0.5980 REMARK 3 S31: 0.0715 S32: 0.6331 S33: 0.0006 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 201 THROUGH 221 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.6569 -5.4939 1.8632 REMARK 3 T TENSOR REMARK 3 T11: 0.2731 T22: 0.2685 REMARK 3 T33: 0.2817 T12: -0.0011 REMARK 3 T13: 0.0100 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 0.2792 L22: 0.7278 REMARK 3 L33: 0.4046 L12: 0.3012 REMARK 3 L13: -0.5905 L23: 0.2276 REMARK 3 S TENSOR REMARK 3 S11: -0.0614 S12: 0.0714 S13: -0.1527 REMARK 3 S21: -0.1533 S22: 0.0942 S23: -0.1683 REMARK 3 S31: 0.1067 S32: -0.1058 S33: -0.0002 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 222 THROUGH 234 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.3936 -4.7641 16.2466 REMARK 3 T TENSOR REMARK 3 T11: 0.3753 T22: 0.4613 REMARK 3 T33: 0.3581 T12: 0.0365 REMARK 3 T13: 0.0007 T23: 0.0711 REMARK 3 L TENSOR REMARK 3 L11: 0.2081 L22: 0.5523 REMARK 3 L33: 0.3451 L12: 0.2825 REMARK 3 L13: 0.3236 L23: 0.4346 REMARK 3 S TENSOR REMARK 3 S11: -0.1801 S12: -0.7713 S13: 0.2472 REMARK 3 S21: 0.4482 S22: -0.0895 S23: -0.2496 REMARK 3 S31: -0.0507 S32: -0.4430 S33: 0.0013 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 235 THROUGH 245 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.0194 -5.2481 6.7912 REMARK 3 T TENSOR REMARK 3 T11: 0.3085 T22: 0.4052 REMARK 3 T33: 0.3956 T12: -0.0383 REMARK 3 T13: -0.0503 T23: 0.0127 REMARK 3 L TENSOR REMARK 3 L11: 0.2115 L22: 0.1493 REMARK 3 L33: 0.2078 L12: 0.1400 REMARK 3 L13: 0.1818 L23: 0.0685 REMARK 3 S TENSOR REMARK 3 S11: 0.1364 S12: 0.1471 S13: 0.0079 REMARK 3 S21: -0.0624 S22: -0.0830 S23: 0.5775 REMARK 3 S31: 0.1012 S32: -0.0721 S33: -0.0005 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 246 THROUGH 265 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1684 -0.6992 8.3221 REMARK 3 T TENSOR REMARK 3 T11: 0.3130 T22: 0.2861 REMARK 3 T33: 0.2634 T12: 0.0034 REMARK 3 T13: -0.0284 T23: 0.0225 REMARK 3 L TENSOR REMARK 3 L11: 0.8400 L22: 0.5973 REMARK 3 L33: 0.2951 L12: 0.4795 REMARK 3 L13: -0.2427 L23: 0.1011 REMARK 3 S TENSOR REMARK 3 S11: 0.0014 S12: -0.0775 S13: 0.0695 REMARK 3 S21: 0.1717 S22: 0.0063 S23: 0.0677 REMARK 3 S31: -0.0719 S32: -0.0545 S33: 0.0002 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 266 THROUGH 286 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.2035 16.2811 19.2215 REMARK 3 T TENSOR REMARK 3 T11: 0.5430 T22: 0.4116 REMARK 3 T33: 0.3556 T12: -0.0620 REMARK 3 T13: -0.0428 T23: -0.0827 REMARK 3 L TENSOR REMARK 3 L11: 0.9441 L22: 0.4876 REMARK 3 L33: 1.1691 L12: 0.5486 REMARK 3 L13: -0.6735 L23: -0.3589 REMARK 3 S TENSOR REMARK 3 S11: 0.2473 S12: -0.2488 S13: 0.3932 REMARK 3 S21: 0.6922 S22: -0.0635 S23: -0.0688 REMARK 3 S31: -0.3314 S32: 0.0809 S33: 0.0006 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 287 THROUGH 308 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.7395 5.2232 19.7347 REMARK 3 T TENSOR REMARK 3 T11: 0.5262 T22: 0.5328 REMARK 3 T33: 0.3737 T12: 0.0205 REMARK 3 T13: -0.1533 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 0.1208 L22: -0.0085 REMARK 3 L33: 0.0992 L12: 0.0678 REMARK 3 L13: -0.1873 L23: -0.0344 REMARK 3 S TENSOR REMARK 3 S11: 0.0028 S12: -0.2362 S13: 0.0781 REMARK 3 S21: 0.8617 S22: 0.1686 S23: -0.8983 REMARK 3 S31: 0.1798 S32: 0.2488 S33: -0.0010 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 309 THROUGH 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7062 12.2810 9.6644 REMARK 3 T TENSOR REMARK 3 T11: 0.2953 T22: 0.2686 REMARK 3 T33: 0.3185 T12: -0.0363 REMARK 3 T13: -0.0144 T23: -0.0128 REMARK 3 L TENSOR REMARK 3 L11: 0.1698 L22: 0.8106 REMARK 3 L33: 0.2999 L12: 0.0430 REMARK 3 L13: 0.0951 L23: 0.1124 REMARK 3 S TENSOR REMARK 3 S11: 0.1502 S12: -0.0920 S13: 0.1052 REMARK 3 S21: 0.3961 S22: -0.0930 S23: -0.1059 REMARK 3 S31: 0.0429 S32: -0.0323 S33: 0.0001 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.6047 1.9372 30.7811 REMARK 3 T TENSOR REMARK 3 T11: 0.9909 T22: 0.6965 REMARK 3 T33: 0.2791 T12: -0.0401 REMARK 3 T13: 0.2448 T23: 0.0305 REMARK 3 L TENSOR REMARK 3 L11: 0.4359 L22: 0.4202 REMARK 3 L33: 0.9559 L12: 0.0984 REMARK 3 L13: 0.1768 L23: 0.6057 REMARK 3 S TENSOR REMARK 3 S11: 0.0642 S12: -1.1357 S13: -0.3072 REMARK 3 S21: 1.7230 S22: 0.1429 S23: 0.2602 REMARK 3 S31: 0.1548 S32: 0.6226 S33: 0.5049 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 17 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.0850 12.0010 33.5145 REMARK 3 T TENSOR REMARK 3 T11: 0.8702 T22: 1.1276 REMARK 3 T33: 1.3227 T12: 0.2872 REMARK 3 T13: 0.4149 T23: 0.1519 REMARK 3 L TENSOR REMARK 3 L11: 0.0174 L22: 0.0357 REMARK 3 L33: 0.0193 L12: -0.0316 REMARK 3 L13: 0.0094 L23: -0.0178 REMARK 3 S TENSOR REMARK 3 S11: 0.3174 S12: -0.2144 S13: -0.3158 REMARK 3 S21: 0.1843 S22: -0.1754 S23: 0.0415 REMARK 3 S31: -0.0914 S32: 0.1022 S33: 0.0000 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 23 THROUGH 34 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.2487 12.6401 29.1966 REMARK 3 T TENSOR REMARK 3 T11: 0.7908 T22: 0.6948 REMARK 3 T33: 0.3918 T12: -0.0913 REMARK 3 T13: 0.1025 T23: -0.1421 REMARK 3 L TENSOR REMARK 3 L11: 0.3262 L22: 0.2150 REMARK 3 L33: 0.0688 L12: 0.1523 REMARK 3 L13: -0.1364 L23: -0.0594 REMARK 3 S TENSOR REMARK 3 S11: -0.4343 S12: -0.7759 S13: 0.3709 REMARK 3 S21: 1.1424 S22: -0.0105 S23: 0.2460 REMARK 3 S31: -0.8961 S32: 0.1679 S33: -0.0046 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 35 THROUGH 49 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.6094 8.6123 20.5951 REMARK 3 T TENSOR REMARK 3 T11: 0.5280 T22: 0.4955 REMARK 3 T33: 0.3573 T12: 0.0350 REMARK 3 T13: 0.0529 T23: -0.0888 REMARK 3 L TENSOR REMARK 3 L11: 0.1654 L22: 0.2538 REMARK 3 L33: 0.3294 L12: 0.0199 REMARK 3 L13: -0.2836 L23: -0.0615 REMARK 3 S TENSOR REMARK 3 S11: -0.0783 S12: -0.1601 S13: 0.1373 REMARK 3 S21: 0.4163 S22: 0.0097 S23: 0.6458 REMARK 3 S31: -0.3899 S32: -0.3524 S33: 0.0007 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 50 THROUGH 54 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.2991 13.2234 21.1998 REMARK 3 T TENSOR REMARK 3 T11: 0.6706 T22: 0.8664 REMARK 3 T33: 0.9713 T12: 0.0626 REMARK 3 T13: 0.1170 T23: -0.0905 REMARK 3 L TENSOR REMARK 3 L11: 0.0164 L22: 0.2121 REMARK 3 L33: 0.0217 L12: -0.0157 REMARK 3 L13: 0.0023 L23: -0.0478 REMARK 3 S TENSOR REMARK 3 S11: 0.2824 S12: 0.4561 S13: 1.4048 REMARK 3 S21: -1.1518 S22: 0.8895 S23: 1.2538 REMARK 3 S31: -0.8024 S32: 0.0146 S33: 0.0000 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 55 THROUGH 65 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.6384 5.0746 29.5765 REMARK 3 T TENSOR REMARK 3 T11: 0.9752 T22: 0.9995 REMARK 3 T33: 1.0419 T12: -0.0162 REMARK 3 T13: 0.3694 T23: 0.1081 REMARK 3 L TENSOR REMARK 3 L11: 0.0695 L22: 0.1832 REMARK 3 L33: 0.1140 L12: 0.1335 REMARK 3 L13: -0.0672 L23: -0.1208 REMARK 3 S TENSOR REMARK 3 S11: 0.4720 S12: -0.7033 S13: 0.4306 REMARK 3 S21: 1.1309 S22: -0.6227 S23: 1.5781 REMARK 3 S31: 0.6557 S32: -0.4712 S33: -0.0097 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: CHAIN 'G' AND (RESID 66 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.1631 5.8140 17.1385 REMARK 3 T TENSOR REMARK 3 T11: 0.4253 T22: 0.4125 REMARK 3 T33: 0.3149 T12: -0.0075 REMARK 3 T13: 0.0626 T23: 0.0305 REMARK 3 L TENSOR REMARK 3 L11: 0.3938 L22: 0.6657 REMARK 3 L33: 0.3036 L12: 0.0128 REMARK 3 L13: 0.2849 L23: 0.3530 REMARK 3 S TENSOR REMARK 3 S11: -0.4265 S12: 0.3129 S13: 0.2172 REMARK 3 S21: 0.2766 S22: 0.3113 S23: 0.3491 REMARK 3 S31: 0.2853 S32: -0.5345 S33: -0.0006 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 6K9P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1300012568. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9873 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44853 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.1300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.65 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: HKL-3000 REMARK 200 STARTING MODEL: 2ZFY, 1UBQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM CHLORIDE, 0.1 M HEPES PH REMARK 280 7.5, 25% W/V POLYETHYLENE GLYCOL 3,350, EVAPORATION, TEMPERATURE REMARK 280 291K 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 37.67100 REMARK 290 SMTRY3 2 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: 2290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, G 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 GLY B 72 REMARK 465 GLU B 294 REMARK 465 ALA B 295 REMARK 465 ASN B 296 REMARK 465 SER B 297 REMARK 465 SER B 298 REMARK 465 ASP B 299 REMARK 465 GLY B 300 REMARK 465 ALA B 301 REMARK 465 ALA B 302 REMARK 465 ALA B 303 REMARK 465 ALA B 304 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 SER B 73 OG REMARK 470 LYS B 74 CG CD CE NZ REMARK 470 THR B 137 OG1 CG2 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 SG CYS B 121 C GLY G 76 1.81 REMARK 500 O HOH B 477 O HOH B 514 2.07 REMARK 500 OE2 GLU B 179 O HOH B 401 2.19 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 ASN B 283 35.52 -147.03 REMARK 500 REMARK 500 REMARK: NULL DBREF 6K9P B 74 324 UNP B9G207 B9G207_ORYSJ 74 324 DBREF 6K9P G 1 76 UNP P0CG47 UBB_HUMAN 1 76 SEQADV 6K9P GLY B 72 UNP B9G207 EXPRESSION TAG SEQADV 6K9P SER B 73 UNP B9G207 EXPRESSION TAG SEQRES 1 B 253 GLY SER LYS LEU PRO TYR VAL GLY ASP LYS GLU PRO LEU SEQRES 2 B 253 SER THR LEU ALA ALA GLU PHE GLN SER GLY SER PRO ILE SEQRES 3 B 253 LEU GLN GLU LYS ILE LYS LEU LEU GLY GLU GLN TYR ASP SEQRES 4 B 253 ALA LEU ARG ARG THR ARG GLY ASP GLY ASN CYS PHE TYR SEQRES 5 B 253 ARG SER PHE MET PHE SER TYR LEU GLU HIS ILE LEU GLU SEQRES 6 B 253 THR GLN ASP LYS ALA GLU VAL GLU ARG ILE LEU LYS LYS SEQRES 7 B 253 ILE GLU GLN CYS LYS LYS THR LEU ALA ASP LEU GLY TYR SEQRES 8 B 253 ILE GLU PHE THR PHE GLU ASP PHE PHE SER ILE PHE ILE SEQRES 9 B 253 ASP GLN LEU GLU SER VAL LEU GLN GLY HIS GLU SER SER SEQRES 10 B 253 ILE GLY ALA GLU GLU LEU LEU GLU ARG THR ARG ASP GLN SEQRES 11 B 253 MET VAL SER ASP TYR VAL VAL MET PHE PHE ARG PHE VAL SEQRES 12 B 253 THR SER GLY GLU ILE GLN ARG ARG ALA GLU PHE PHE GLU SEQRES 13 B 253 PRO PHE ILE SER GLY LEU THR ASN SER THR VAL VAL GLN SEQRES 14 B 253 PHE CYS LYS ALA SER VAL GLU PRO MET GLY GLU GLU SER SEQRES 15 B 253 ASP HIS VAL HIS ILE ILE ALA LEU SER ASP ALA LEU GLY SEQRES 16 B 253 VAL PRO ILE ARG VAL MET TYR LEU ASP ARG SER SER CYS SEQRES 17 B 253 ASP ALA GLY ASN ILE SER VAL ASN HIS HIS ASP PHE SER SEQRES 18 B 253 PRO GLU ALA ASN SER SER ASP GLY ALA ALA ALA ALA GLU SEQRES 19 B 253 LYS PRO TYR ILE THR LEU LEU TYR ARG PRO GLY HIS TYR SEQRES 20 B 253 ASP ILE LEU TYR PRO LYS SEQRES 1 G 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 G 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 G 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 G 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 G 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 G 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY FORMUL 3 HOH *138(H2 O) HELIX 1 AA1 LEU B 84 PHE B 91 1 8 HELIX 2 AA2 SER B 95 GLN B 108 1 14 HELIX 3 AA3 ASN B 120 GLN B 138 1 19 HELIX 4 AA4 ASP B 139 LEU B 160 1 22 HELIX 5 AA5 ILE B 163 THR B 166 5 4 HELIX 6 AA6 PHE B 167 VAL B 181 1 15 HELIX 7 AA7 GLY B 190 ASP B 200 1 11 HELIX 8 AA8 ASP B 200 ARG B 222 1 23 HELIX 9 AA9 ARG B 222 ASN B 235 1 14 HELIX 10 AB1 THR B 237 VAL B 246 1 10 HELIX 11 AB2 ASP B 254 GLY B 266 1 13 HELIX 12 AB3 THR G 22 GLY G 35 1 14 HELIX 13 AB4 PRO G 37 ASP G 39 5 3 SHEET 1 AA1 6 VAL B 78 PRO B 83 0 SHEET 2 AA1 6 TYR B 109 THR B 115 -1 O ARG B 114 N GLY B 79 SHEET 3 AA1 6 HIS B 317 PRO B 323 -1 O ILE B 320 N ARG B 113 SHEET 4 AA1 6 THR B 310 ARG B 314 -1 N ARG B 314 O HIS B 317 SHEET 5 AA1 6 ILE B 269 TYR B 273 1 N ARG B 270 O LEU B 311 SHEET 6 AA1 6 ASN B 287 PHE B 291 -1 O ASN B 287 N TYR B 273 SHEET 1 AA2 5 THR G 12 GLU G 16 0 SHEET 2 AA2 5 GLN G 2 LYS G 6 -1 N VAL G 5 O ILE G 13 SHEET 3 AA2 5 THR G 66 LEU G 71 1 O LEU G 67 N PHE G 4 SHEET 4 AA2 5 GLN G 41 PHE G 45 -1 N ILE G 44 O HIS G 68 SHEET 5 AA2 5 LYS G 48 GLN G 49 -1 O LYS G 48 N PHE G 45 CRYST1 48.897 75.342 50.520 90.00 92.63 90.00 P 1 21 1 2 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 0.020451 0.000000 0.000939 0.00000 SCALE2 0.000000 0.013273 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019815 0.00000