HEADER PROTEIN BINDING 10-MAY-23 8JCA TITLE CYRSTAL STRUCTURE OF SKIP RUN DOMAIN IN COMPLEX WITH GTP-BOUND TITLE 2 ARL8B(Q75L) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 8B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 10C,NOVEL SMALL G COMPND 5 PROTEIN INDISPENSABLE FOR EQUAL CHROMOSOME SEGREGATION 1; COMPND 6 EC: 3.6.5.2; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: PLECKSTRIN HOMOLOGY DOMAIN-CONTAINING FAMILY M MEMBER 2; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: PH DOMAIN-CONTAINING FAMILY M MEMBER 2,SALMONELLA-INDUCED COMPND 13 FILAMENTS A AND KINESIN-INTERACTING PROTEIN,SIFA AND KINESIN- COMPND 14 INTERACTING PROTEIN; COMPND 15 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: ARL8B, ARL10C, GIE1; 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: PLEKHM2, KIAA0842, SKIP; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SKIP, RUN, ARL8B, GTP-BOUND, GTPASE, ARF, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR X.H.QIU,L.F.PAN REVDAT 1 27-MAR-24 8JCA 0 JRNL AUTH X.QIU,Y.LI,Y.WANG,X.GONG,Y.WANG,L.PAN JRNL TITL MECHANISTIC INSIGHTS INTO THE INTERACTIONS OF ARL8B WITH THE JRNL TITL 2 RUN DOMAINS OF PLEKHM1 AND SKIP. JRNL REF J.MOL.BIOL. V. 435 68293 2023 JRNL REFN ESSN 1089-8638 JRNL PMID 37775038 JRNL DOI 10.1016/J.JMB.2023.168293 REMARK 2 REMARK 2 RESOLUTION. 1.65 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.8 REMARK 3 NUMBER OF REFLECTIONS : 41074 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 2010 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 32.0500 - 3.9700 0.94 3052 156 0.1566 0.1728 REMARK 3 2 3.9700 - 3.1500 0.97 3073 155 0.1451 0.1845 REMARK 3 3 3.1500 - 2.7500 0.98 3100 172 0.1712 0.1847 REMARK 3 4 2.7500 - 2.5000 0.49 1553 66 0.1720 0.1693 REMARK 3 5 2.5000 - 2.3200 0.99 3120 173 0.1756 0.2153 REMARK 3 6 2.3200 - 2.1800 0.98 3107 141 0.1831 0.2553 REMARK 3 7 2.1800 - 2.0800 0.99 3119 152 0.1766 0.2425 REMARK 3 8 2.0800 - 1.9900 0.98 3028 161 0.1916 0.2408 REMARK 3 9 1.9900 - 1.9100 0.60 1903 96 0.2139 0.2506 REMARK 3 10 1.9100 - 1.8400 0.55 1732 76 0.2230 0.2322 REMARK 3 11 1.8400 - 1.7900 0.99 3097 175 0.2251 0.2510 REMARK 3 12 1.7900 - 1.7300 0.98 3038 160 0.2311 0.2807 REMARK 3 13 1.7300 - 1.6900 0.99 3043 169 0.2457 0.2588 REMARK 3 14 1.6900 - 1.6500 0.98 3099 158 0.2603 0.2809 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.480 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 2749 REMARK 3 ANGLE : 1.034 3725 REMARK 3 CHIRALITY : 0.063 420 REMARK 3 PLANARITY : 0.005 468 REMARK 3 DIHEDRAL : 18.329 372 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 40 THROUGH 54 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.5584 2.2524 15.7746 REMARK 3 T TENSOR REMARK 3 T11: 0.1715 T22: 0.2321 REMARK 3 T33: 0.2502 T12: -0.0324 REMARK 3 T13: 0.0405 T23: 0.0409 REMARK 3 L TENSOR REMARK 3 L11: 5.2477 L22: 7.0904 REMARK 3 L33: 7.4204 L12: -3.6860 REMARK 3 L13: -3.0768 L23: 6.2277 REMARK 3 S TENSOR REMARK 3 S11: -0.1400 S12: -0.0496 S13: -0.4271 REMARK 3 S21: 0.1893 S22: -0.2127 S23: 0.5616 REMARK 3 S31: 0.3598 S32: -0.5072 S33: 0.4059 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 55 THROUGH 73 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7223 18.5626 17.8717 REMARK 3 T TENSOR REMARK 3 T11: 0.1090 T22: 0.2146 REMARK 3 T33: 0.1878 T12: -0.0051 REMARK 3 T13: -0.0266 T23: -0.0090 REMARK 3 L TENSOR REMARK 3 L11: 3.5596 L22: 1.9089 REMARK 3 L33: 4.1598 L12: 1.1999 REMARK 3 L13: -2.8671 L23: -1.2625 REMARK 3 S TENSOR REMARK 3 S11: 0.0700 S12: -0.1771 S13: 0.2017 REMARK 3 S21: 0.0439 S22: -0.0532 S23: 0.2245 REMARK 3 S31: -0.0633 S32: -0.1079 S33: -0.0191 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 74 THROUGH 88 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.9369 19.4918 3.4493 REMARK 3 T TENSOR REMARK 3 T11: 0.2085 T22: 0.2811 REMARK 3 T33: 0.2397 T12: -0.0033 REMARK 3 T13: -0.0772 T23: 0.0407 REMARK 3 L TENSOR REMARK 3 L11: 4.7666 L22: 7.8617 REMARK 3 L33: 8.7037 L12: 2.4960 REMARK 3 L13: 2.3830 L23: 2.4312 REMARK 3 S TENSOR REMARK 3 S11: -0.5606 S12: 0.9145 S13: 0.7507 REMARK 3 S21: -0.6534 S22: 0.1820 S23: 0.3903 REMARK 3 S31: -0.6026 S32: -0.1015 S33: 0.2740 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 89 THROUGH 114 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.4074 12.7877 13.9262 REMARK 3 T TENSOR REMARK 3 T11: 0.1169 T22: 0.1539 REMARK 3 T33: 0.1627 T12: -0.0202 REMARK 3 T13: 0.0201 T23: 0.0420 REMARK 3 L TENSOR REMARK 3 L11: 2.2269 L22: 3.2928 REMARK 3 L33: 5.7452 L12: 0.4386 REMARK 3 L13: 0.6864 L23: 1.6261 REMARK 3 S TENSOR REMARK 3 S11: 0.0017 S12: -0.0297 S13: -0.0767 REMARK 3 S21: -0.0092 S22: 0.0088 S23: -0.0815 REMARK 3 S31: 0.0053 S32: 0.1736 S33: -0.0318 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 115 THROUGH 123 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.5203 21.9785 25.9067 REMARK 3 T TENSOR REMARK 3 T11: 0.2887 T22: 0.2620 REMARK 3 T33: 0.2030 T12: -0.0113 REMARK 3 T13: 0.0052 T23: -0.0396 REMARK 3 L TENSOR REMARK 3 L11: 3.9862 L22: 6.8910 REMARK 3 L33: 3.9514 L12: 0.4805 REMARK 3 L13: 3.9062 L23: 1.3371 REMARK 3 S TENSOR REMARK 3 S11: 0.1448 S12: -0.6220 S13: 0.6243 REMARK 3 S21: 0.2320 S22: -0.1388 S23: -0.1977 REMARK 3 S31: -0.1166 S32: -0.0242 S33: 0.1003 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 124 THROUGH 146 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2679 9.3845 27.0156 REMARK 3 T TENSOR REMARK 3 T11: 0.2133 T22: 0.2951 REMARK 3 T33: 0.1849 T12: -0.0513 REMARK 3 T13: -0.0013 T23: 0.0647 REMARK 3 L TENSOR REMARK 3 L11: 7.3246 L22: 8.9492 REMARK 3 L33: 2.6550 L12: -5.7537 REMARK 3 L13: -0.2782 L23: 1.7906 REMARK 3 S TENSOR REMARK 3 S11: -0.3830 S12: -0.6779 S13: -0.1018 REMARK 3 S21: 0.6603 S22: 0.2578 S23: -0.1654 REMARK 3 S31: 0.0687 S32: 0.0830 S33: 0.0792 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 147 THROUGH 157 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.6628 5.1901 5.6588 REMARK 3 T TENSOR REMARK 3 T11: 0.2648 T22: 0.2366 REMARK 3 T33: 0.2660 T12: -0.0377 REMARK 3 T13: -0.0265 T23: -0.0071 REMARK 3 L TENSOR REMARK 3 L11: 5.6329 L22: 6.8746 REMARK 3 L33: 4.2573 L12: -5.9146 REMARK 3 L13: 4.6564 L23: -5.3291 REMARK 3 S TENSOR REMARK 3 S11: -0.3434 S12: 0.3050 S13: 0.4162 REMARK 3 S21: -0.1532 S22: 0.0743 S23: -0.2911 REMARK 3 S31: -0.0040 S32: -0.0074 S33: 0.1131 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 158 THROUGH 165 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.0658 8.5869 10.2280 REMARK 3 T TENSOR REMARK 3 T11: 0.2209 T22: 0.3928 REMARK 3 T33: 0.2471 T12: -0.0656 REMARK 3 T13: -0.0412 T23: -0.0144 REMARK 3 L TENSOR REMARK 3 L11: 7.8494 L22: 8.8723 REMARK 3 L33: 9.2866 L12: 4.6006 REMARK 3 L13: -7.6849 L23: -3.0203 REMARK 3 S TENSOR REMARK 3 S11: -0.3879 S12: 1.3505 S13: -0.1446 REMARK 3 S21: -0.2606 S22: 0.4233 S23: 0.0794 REMARK 3 S31: 0.2767 S32: -1.1644 S33: -0.0570 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 27 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.3841 30.7315 11.8457 REMARK 3 T TENSOR REMARK 3 T11: 0.2251 T22: 0.1762 REMARK 3 T33: 0.2967 T12: 0.0128 REMARK 3 T13: 0.0118 T23: 0.0354 REMARK 3 L TENSOR REMARK 3 L11: 9.1955 L22: 5.4904 REMARK 3 L33: 7.1909 L12: -6.4136 REMARK 3 L13: -4.6368 L23: 5.2244 REMARK 3 S TENSOR REMARK 3 S11: 0.0943 S12: -0.0313 S13: 0.4959 REMARK 3 S21: -0.3708 S22: -0.0187 S23: 0.2049 REMARK 3 S31: -0.7059 S32: -0.3412 S33: 0.0590 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 28 THROUGH 54 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.7059 21.4330 22.4143 REMARK 3 T TENSOR REMARK 3 T11: 0.1417 T22: 0.1305 REMARK 3 T33: 0.0941 T12: -0.0142 REMARK 3 T13: -0.0103 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 5.1832 L22: 5.0958 REMARK 3 L33: 4.4230 L12: -0.8464 REMARK 3 L13: -0.4976 L23: 0.7278 REMARK 3 S TENSOR REMARK 3 S11: 0.0615 S12: -0.4323 S13: 0.1476 REMARK 3 S21: 0.5653 S22: 0.0117 S23: -0.1362 REMARK 3 S31: 0.0891 S32: 0.0024 S33: -0.0930 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 55 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.0095 27.0348 18.7654 REMARK 3 T TENSOR REMARK 3 T11: 0.2906 T22: 0.2147 REMARK 3 T33: 0.1959 T12: -0.0016 REMARK 3 T13: 0.0393 T23: 0.0001 REMARK 3 L TENSOR REMARK 3 L11: 5.5415 L22: 3.5519 REMARK 3 L33: 7.4191 L12: -0.2243 REMARK 3 L13: 0.3738 L23: 4.9909 REMARK 3 S TENSOR REMARK 3 S11: -0.1157 S12: -0.2631 S13: 0.4011 REMARK 3 S21: 0.5069 S22: 0.0695 S23: 0.1875 REMARK 3 S31: -0.5359 S32: 0.0023 S33: 0.1255 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 63 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.2704 21.7965 10.4967 REMARK 3 T TENSOR REMARK 3 T11: 0.1192 T22: 0.1148 REMARK 3 T33: 0.0903 T12: -0.0202 REMARK 3 T13: 0.0101 T23: 0.0050 REMARK 3 L TENSOR REMARK 3 L11: 4.1457 L22: 4.8137 REMARK 3 L33: 1.1163 L12: -2.2071 REMARK 3 L13: 0.8297 L23: -0.5885 REMARK 3 S TENSOR REMARK 3 S11: -0.0059 S12: 0.0770 S13: 0.0492 REMARK 3 S21: -0.0237 S22: 0.0525 S23: 0.1698 REMARK 3 S31: 0.0698 S32: 0.0015 S33: -0.0432 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 101 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): 45.0634 17.5823 5.1298 REMARK 3 T TENSOR REMARK 3 T11: 0.2374 T22: 0.2494 REMARK 3 T33: 0.2092 T12: 0.0328 REMARK 3 T13: 0.0225 T23: -0.0247 REMARK 3 L TENSOR REMARK 3 L11: 3.6467 L22: 2.5638 REMARK 3 L33: 8.4574 L12: -1.9956 REMARK 3 L13: 5.4140 L23: -2.2540 REMARK 3 S TENSOR REMARK 3 S11: 0.0419 S12: 0.4951 S13: 0.1330 REMARK 3 S21: -0.2129 S22: -0.0313 S23: -0.5661 REMARK 3 S31: 0.3670 S32: 0.5378 S33: -0.0488 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 116 THROUGH 130 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.6082 25.8652 2.3243 REMARK 3 T TENSOR REMARK 3 T11: 0.1901 T22: 0.1973 REMARK 3 T33: 0.0844 T12: -0.0263 REMARK 3 T13: 0.0252 T23: 0.0276 REMARK 3 L TENSOR REMARK 3 L11: 9.1211 L22: 2.9475 REMARK 3 L33: 3.0612 L12: 1.5830 REMARK 3 L13: 5.1524 L23: 1.4612 REMARK 3 S TENSOR REMARK 3 S11: -0.1675 S12: 0.5761 S13: 0.2159 REMARK 3 S21: -0.3996 S22: 0.0490 S23: 0.0891 REMARK 3 S31: -0.0423 S32: 0.1860 S33: 0.0525 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 131 THROUGH 146 ) REMARK 3 ORIGIN FOR THE GROUP (A): 52.3402 26.6517 12.8996 REMARK 3 T TENSOR REMARK 3 T11: 0.1887 T22: 0.2428 REMARK 3 T33: 0.2720 T12: -0.0074 REMARK 3 T13: 0.0055 T23: 0.0210 REMARK 3 L TENSOR REMARK 3 L11: 4.7453 L22: 3.3022 REMARK 3 L33: 2.0981 L12: 1.3441 REMARK 3 L13: -0.3836 L23: -0.7152 REMARK 3 S TENSOR REMARK 3 S11: -0.1638 S12: 0.4093 S13: 0.0950 REMARK 3 S21: -0.0950 S22: 0.0240 S23: -0.3880 REMARK 3 S31: -0.1722 S32: 0.5353 S33: 0.1039 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 147 THROUGH 156 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.0580 28.4657 -1.6686 REMARK 3 T TENSOR REMARK 3 T11: 0.3451 T22: 0.4112 REMARK 3 T33: 0.2382 T12: -0.0125 REMARK 3 T13: -0.0322 T23: -0.0504 REMARK 3 L TENSOR REMARK 3 L11: 6.5442 L22: 5.1323 REMARK 3 L33: 4.3196 L12: -5.7888 REMARK 3 L13: 5.3269 L23: -4.7139 REMARK 3 S TENSOR REMARK 3 S11: 0.4622 S12: 1.1815 S13: -0.4076 REMARK 3 S21: -0.2896 S22: -0.5290 S23: 0.1588 REMARK 3 S31: -0.2008 S32: 0.9529 S33: -0.0858 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 157 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 44.3869 31.6444 17.0329 REMARK 3 T TENSOR REMARK 3 T11: 0.1361 T22: 0.1312 REMARK 3 T33: 0.1921 T12: -0.0072 REMARK 3 T13: -0.0017 T23: -0.0117 REMARK 3 L TENSOR REMARK 3 L11: 2.8241 L22: 4.3242 REMARK 3 L33: 8.3353 L12: 1.5474 REMARK 3 L13: 0.5623 L23: -0.5329 REMARK 3 S TENSOR REMARK 3 S11: 0.0630 S12: 0.1242 S13: -0.0191 REMARK 3 S21: 0.0855 S22: 0.1076 S23: -0.1637 REMARK 3 S31: -0.3293 S32: 0.2202 S33: -0.0691 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 170 THROUGH 181 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.6618 37.4375 12.3951 REMARK 3 T TENSOR REMARK 3 T11: 0.2437 T22: 0.1588 REMARK 3 T33: 0.2368 T12: 0.0011 REMARK 3 T13: -0.0257 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 9.0458 L22: 6.0531 REMARK 3 L33: 3.4172 L12: -1.1756 REMARK 3 L13: 5.5379 L23: -0.4024 REMARK 3 S TENSOR REMARK 3 S11: 0.1137 S12: 0.1174 S13: 0.2173 REMARK 3 S21: -0.2755 S22: -0.1814 S23: 0.4315 REMARK 3 S31: -0.1755 S32: -0.0749 S33: 0.1242 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 27 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.7296 -2.1779 22.4540 REMARK 3 T TENSOR REMARK 3 T11: 0.2425 T22: 0.2313 REMARK 3 T33: 0.2702 T12: -0.0076 REMARK 3 T13: 0.0234 T23: 0.0925 REMARK 3 L TENSOR REMARK 3 L11: 8.2951 L22: 6.4152 REMARK 3 L33: 4.1343 L12: -4.5814 REMARK 3 L13: -5.3537 L23: 4.3543 REMARK 3 S TENSOR REMARK 3 S11: -0.3877 S12: -0.5753 S13: -0.5651 REMARK 3 S21: 0.6895 S22: 0.1195 S23: 0.3388 REMARK 3 S31: 0.8689 S32: 0.1758 S33: 0.2866 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 28 THROUGH 39 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.8621 -4.0862 1.6868 REMARK 3 T TENSOR REMARK 3 T11: 0.4029 T22: 0.2683 REMARK 3 T33: 0.3880 T12: 0.0397 REMARK 3 T13: 0.0691 T23: -0.0479 REMARK 3 L TENSOR REMARK 3 L11: 5.9933 L22: 2.3683 REMARK 3 L33: 7.4024 L12: -3.4359 REMARK 3 L13: 0.0836 L23: 1.6528 REMARK 3 S TENSOR REMARK 3 S11: 0.4616 S12: 0.5977 S13: -0.5681 REMARK 3 S21: -0.6817 S22: -0.3902 S23: -0.0608 REMARK 3 S31: 0.9910 S32: 0.2591 S33: -0.0830 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 8JCA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 17-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1300037623. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-22 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 : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41074 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.647 REMARK 200 RESOLUTION RANGE LOW (A) : 51.504 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.1 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 0.0730 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.77500 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 (1.17.1_3660: ???) REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 800MM POTASSIAM PHOSPHATE DIBASIC 1.2 REMARK 280 M SODIUM PHOSPHATE MONOBASIC 0.1M CAPS/SODIUM HYDROXIDE 0.2M REMARK 280 LITHIUM SULFATE PH10.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 89.34350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.91800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 89.34350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.91800 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 APPLY THE FOLLOWING TO CHAINS: A, B 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 B 225 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 LYS A 182 REMARK 465 SER A 183 REMARK 465 ARG A 184 REMARK 465 ARG A 185 REMARK 465 SER A 186 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 O HOH B 317 O HOH B 331 1.93 REMARK 500 O HOH A 426 O HOH B 341 1.98 REMARK 500 O HOH B 300 O HOH B 312 2.01 REMARK 500 OE1 GLU B 107 O HOH B 201 2.04 REMARK 500 OD1 ASP B 8 O HOH B 202 2.06 REMARK 500 O LYS A 167 O HOH A 301 2.07 REMARK 500 NH2 ARG B 9 O HOH B 203 2.14 REMARK 500 O HOH A 385 O HOH A 437 2.16 REMARK 500 OE2 GLU A 22 O HOH A 302 2.19 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 300 O HOH B 315 2556 2.03 REMARK 500 O HOH B 286 O HOH B 312 2556 2.03 REMARK 500 O HOH A 443 O HOH B 329 4556 2.06 REMARK 500 O HOH B 218 O HOH B 272 2556 2.06 REMARK 500 O HOH A 401 O HOH B 261 4556 2.14 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 LYS A 131 35.34 71.09 REMARK 500 LYS A 167 1.42 83.28 REMARK 500 ASP B 156 50.94 -91.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 34 OG1 REMARK 620 2 THR A 52 OG1 86.4 REMARK 620 3 GTP A 201 O1G 175.0 88.6 REMARK 620 4 GTP A 201 O2B 91.9 178.0 93.1 REMARK 620 5 HOH A 320 O 87.4 87.2 92.0 93.8 REMARK 620 6 HOH A 345 O 88.1 88.3 92.2 90.6 173.8 REMARK 620 N 1 2 3 4 5 DBREF 8JCA A 18 186 UNP Q9NVJ2 ARL8B_HUMAN 18 186 DBREF 8JCA B 1 165 UNP Q8IWE5 PKHM2_HUMAN 1 165 SEQADV 8JCA LEU A 75 UNP Q9NVJ2 GLN 75 ENGINEERED MUTATION SEQRES 1 A 169 LYS GLU GLU MET GLU LEU THR LEU VAL GLY LEU GLN TYR SEQRES 2 A 169 SER GLY LYS THR THR PHE VAL ASN VAL ILE ALA SER GLY SEQRES 3 A 169 GLN PHE SER GLU ASP MET ILE PRO THR VAL GLY PHE ASN SEQRES 4 A 169 MET ARG LYS VAL THR LYS GLY ASN VAL THR ILE LYS ILE SEQRES 5 A 169 TRP ASP ILE GLY GLY LEU PRO ARG PHE ARG SER MET TRP SEQRES 6 A 169 GLU ARG TYR CYS ARG GLY VAL ASN ALA ILE VAL TYR MET SEQRES 7 A 169 ILE ASP ALA ALA ASP ARG GLU LYS ILE GLU ALA SER ARG SEQRES 8 A 169 ASN GLU LEU HIS ASN LEU LEU ASP LYS PRO GLN LEU GLN SEQRES 9 A 169 GLY ILE PRO VAL LEU VAL LEU GLY ASN LYS ARG ASP LEU SEQRES 10 A 169 PRO ASN ALA LEU ASP GLU LYS GLN LEU ILE GLU LYS MET SEQRES 11 A 169 ASN LEU SER ALA ILE GLN ASP ARG GLU ILE CYS CYS TYR SEQRES 12 A 169 SER ILE SER CYS LYS GLU LYS ASP ASN ILE ASP ILE THR SEQRES 13 A 169 LEU GLN TRP LEU ILE GLN HIS SER LYS SER ARG ARG SER SEQRES 1 B 165 MET GLU PRO GLY GLU VAL LYS ASP ARG ILE LEU GLU ASN SEQRES 2 B 165 ILE SER LEU SER VAL LYS LYS LEU GLN SER TYR PHE ALA SEQRES 3 B 165 ALA CYS GLU ASP GLU ILE PRO ALA ILE ARG ASN HIS ASP SEQRES 4 B 165 LYS VAL LEU GLN ARG LEU CYS GLU HIS LEU ASP HIS ALA SEQRES 5 B 165 LEU LEU TYR GLY LEU GLN ASP LEU SER SER GLY TYR TRP SEQRES 6 B 165 VAL LEU VAL VAL HIS PHE THR ARG ARG GLU ALA ILE LYS SEQRES 7 B 165 GLN ILE GLU VAL LEU GLN HIS VAL ALA THR ASN LEU GLY SEQRES 8 B 165 ARG SER ARG ALA TRP LEU TYR LEU ALA LEU ASN GLU ASN SEQRES 9 B 165 SER LEU GLU SER TYR LEU ARG LEU PHE GLN GLU ASN LEU SEQRES 10 B 165 GLY LEU LEU HIS LYS TYR TYR VAL LYS ASN ALA LEU VAL SEQRES 11 B 165 CYS SER HIS ASP HIS LEU THR LEU PHE LEU THR LEU VAL SEQRES 12 B 165 SER GLY LEU GLU PHE ILE ARG PHE GLU LEU ASP LEU ASP SEQRES 13 B 165 ALA PRO TYR LEU ASP LEU ALA PRO TYR HET GTP A 201 37 HET MG A 202 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 GTP C10 H16 N5 O14 P3 FORMUL 4 MG MG 2+ FORMUL 5 HOH *296(H2 O) HELIX 1 AA1 GLY A 32 GLY A 43 1 12 HELIX 2 AA2 LEU A 75 SER A 80 5 6 HELIX 3 AA3 MET A 81 ARG A 87 1 7 HELIX 4 AA4 ASP A 100 GLU A 102 5 3 HELIX 5 AA5 LYS A 103 ASP A 116 1 14 HELIX 6 AA6 LYS A 117 GLN A 121 5 5 HELIX 7 AA7 ASP A 139 MET A 147 1 9 HELIX 8 AA8 ASN A 148 ILE A 152 5 5 HELIX 9 AA9 ASN A 169 HIS A 180 1 12 HELIX 10 AB1 GLU B 2 CYS B 28 1 27 HELIX 11 AB2 ASP B 39 TYR B 55 1 17 HELIX 12 AB3 ASP B 59 GLY B 63 5 5 HELIX 13 AB4 TYR B 64 VAL B 69 1 6 HELIX 14 AB5 HIS B 70 THR B 72 5 3 HELIX 15 AB6 ARG B 73 VAL B 82 1 10 HELIX 16 AB7 THR B 88 GLU B 103 1 16 HELIX 17 AB8 SER B 105 ASN B 116 1 12 HELIX 18 AB9 ASN B 116 TYR B 124 1 9 HELIX 19 AC1 SER B 132 SER B 144 1 13 HELIX 20 AC2 GLY B 145 GLU B 147 5 3 HELIX 21 AC3 ALA B 157 LEU B 162 5 6 SHEET 1 AA1 6 PHE A 55 LYS A 62 0 SHEET 2 AA1 6 VAL A 65 ILE A 72 -1 O ILE A 67 N VAL A 60 SHEET 3 AA1 6 GLU A 19 GLY A 27 1 N GLU A 19 O THR A 66 SHEET 4 AA1 6 ALA A 91 ASP A 97 1 O MET A 95 N VAL A 26 SHEET 5 AA1 6 VAL A 125 ASN A 130 1 O LEU A 126 N TYR A 94 SHEET 6 AA1 6 ILE A 157 SER A 161 1 O CYS A 158 N VAL A 127 LINK OG1 THR A 34 MG MG A 202 1555 1555 2.05 LINK OG1 THR A 52 MG MG A 202 1555 1555 2.17 LINK O1G GTP A 201 MG MG A 202 1555 1555 2.03 LINK O2B GTP A 201 MG MG A 202 1555 1555 2.05 LINK MG MG A 202 O HOH A 320 1555 1555 2.12 LINK MG MG A 202 O HOH A 345 1555 1555 2.14 CRYST1 178.687 53.836 40.512 90.00 98.13 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 0.005596 0.000000 0.000799 0.00000 SCALE2 0.000000 0.018575 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024935 0.00000