HEADER DE NOVO PROTEIN 25-MAY-22 7ZYU TITLE HDAC6 ZNF DOMAIN INHIBITOR - DARPIN (DESIGNED ANKYRIN REPEAT PROTEIN) TITLE 2 F10 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE DEACETYLASE 6; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HD6,TUBULIN-LYSINE DEACETYLASE HDAC6; COMPND 5 EC: 3.5.1.98,3.5.1.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DESIGNED ANKYRIN REPEAT PROTEIN F10; COMPND 9 CHAIN: B; COMPND 10 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: HDAC6, KIAA0901, JM21; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DARPIN, ZINC FINGER, DE NOVO PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.WANG,G.KEMPF REVDAT 3 27-MAR-24 7ZYU 1 JRNL REVDAT 2 31-JAN-24 7ZYU 1 REMARK REVDAT 1 01-JUN-22 7ZYU 0 SPRSDE 01-JUN-22 7ZYU 7ATT JRNL AUTH L.WANG,E.A.MOREIRA,G.KEMPF,Y.MIYAKE,B.I.OLIVEIRA ESTEVES, JRNL AUTH 2 A.FAHMI,J.V.SCHAEFER,B.DREIER,Y.YAMAUCHI,M.P.ALVES, JRNL AUTH 3 A.PLUCKTHUN,P.MATTHIAS JRNL TITL DISRUPTING THE HDAC6-UBIQUITIN INTERACTION IMPAIRS INFECTION JRNL TITL 2 BY INFLUENZA AND ZIKA VIRUS AND CELLULAR STRESS PATHWAYS. JRNL REF CELL REP V. 39 10736 2022 JRNL REFN ESSN 2211-1247 JRNL PMID 35476995 JRNL DOI 10.1016/J.CELREP.2022.110736 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.V.AFONINE,R.W.GROSSE-KUNSTLEVE,N.ECHOLS,J.J.HEADD, REMARK 1 AUTH 2 N.W.MORIARTY,M.MUSTYAKIMOV,T.C.TERWILLIGER,A.URZHUMTSEV, REMARK 1 AUTH 3 P.H.ZWART,P.D.ADAMS REMARK 1 TITL TOWARDS AUTOMATED CRYSTALLOGRAPHIC STRUCTURE REFINEMENT WITH REMARK 1 TITL 2 PHENIX.REFINE. REMARK 1 REF ACTA CRYSTALLOGR D BIOL V. 68 352 2012 REMARK 1 REF 2 CRYSTALLOGR REMARK 1 REFN ESSN 1399-0047 REMARK 1 PMID 22505256 REMARK 1 DOI 10.1107/S0907444912001308 REMARK 2 REMARK 2 RESOLUTION. 2.43 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.920 REMARK 3 COMPLETENESS FOR RANGE (%) : 73.3 REMARK 3 NUMBER OF REFLECTIONS : 11396 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1071 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 58.2900 - 4.8600 1.00 3410 201 0.1701 0.2158 REMARK 3 2 4.8600 - 3.8600 1.00 3435 175 0.1774 0.2031 REMARK 3 3 3.8600 - 3.3700 1.00 3400 202 0.2282 0.2619 REMARK 3 4 3.3700 - 3.0600 1.00 3447 159 0.3068 0.2959 REMARK 3 5 3.0600 - 2.8400 0.94 3237 182 0.3101 0.4111 REMARK 3 6 2.8400 - 2.6800 0.52 1822 94 0.3449 0.3751 REMARK 3 7 2.6800 - 2.5400 0.29 986 48 0.3678 0.4514 REMARK 3 8 2.5400 - 2.4300 0.11 371 10 0.4158 0.3420 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) : 0.243 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.005 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 64.61 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 78.11 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 : 0.003 2085 REMARK 3 ANGLE : 0.589 2835 REMARK 3 CHIRALITY : 0.043 318 REMARK 3 PLANARITY : 0.004 373 REMARK 3 DIHEDRAL : 9.465 739 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 18 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1106:1112) REMARK 3 ORIGIN FOR THE GROUP (A): 7.1413 53.9602 18.5553 REMARK 3 T TENSOR REMARK 3 T11: 0.2390 T22: -0.9322 REMARK 3 T33: -0.1583 T12: 0.5063 REMARK 3 T13: -0.6717 T23: 0.8690 REMARK 3 L TENSOR REMARK 3 L11: 3.0031 L22: 3.5434 REMARK 3 L33: 4.3289 L12: -2.0481 REMARK 3 L13: 2.6149 L23: -1.9132 REMARK 3 S TENSOR REMARK 3 S11: -0.6883 S12: 0.2372 S13: 1.0799 REMARK 3 S21: -0.3353 S22: -0.0352 S23: -0.2897 REMARK 3 S31: -0.4330 S32: 0.6194 S33: 0.3906 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 1113:1119) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1285 64.8635 17.4631 REMARK 3 T TENSOR REMARK 3 T11: 0.6071 T22: 0.4336 REMARK 3 T33: 0.5263 T12: 0.1223 REMARK 3 T13: -0.0974 T23: 0.0004 REMARK 3 L TENSOR REMARK 3 L11: 2.3736 L22: 0.3237 REMARK 3 L33: 9.5231 L12: 0.8336 REMARK 3 L13: 2.6854 L23: 0.6760 REMARK 3 S TENSOR REMARK 3 S11: 0.5226 S12: -0.4492 S13: 0.6754 REMARK 3 S21: -0.2081 S22: -0.5013 S23: -0.8860 REMARK 3 S31: -0.8993 S32: -0.8408 S33: 0.1579 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 1120:1135) REMARK 3 ORIGIN FOR THE GROUP (A): 29.7014 62.5491 24.8877 REMARK 3 T TENSOR REMARK 3 T11: 0.5168 T22: 0.9163 REMARK 3 T33: 0.9441 T12: 0.0542 REMARK 3 T13: -0.1848 T23: 0.2994 REMARK 3 L TENSOR REMARK 3 L11: 0.5471 L22: 1.3725 REMARK 3 L33: 0.3655 L12: 0.6047 REMARK 3 L13: 0.0732 L23: 0.1090 REMARK 3 S TENSOR REMARK 3 S11: -0.2111 S12: -0.1422 S13: 0.6035 REMARK 3 S21: -0.5129 S22: -0.2367 S23: -2.2862 REMARK 3 S31: -0.1492 S32: 0.7094 S33: -0.2371 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 1136:1144) REMARK 3 ORIGIN FOR THE GROUP (A): 25.7963 57.5085 34.1696 REMARK 3 T TENSOR REMARK 3 T11: 0.8041 T22: 0.6353 REMARK 3 T33: 0.9268 T12: -0.0769 REMARK 3 T13: -0.4294 T23: 0.2183 REMARK 3 L TENSOR REMARK 3 L11: 0.2079 L22: 0.7186 REMARK 3 L33: 0.4006 L12: -0.2969 REMARK 3 L13: -0.1813 L23: 0.0291 REMARK 3 S TENSOR REMARK 3 S11: 1.3085 S12: 0.5649 S13: 0.3046 REMARK 3 S21: 0.8244 S22: -0.8108 S23: -0.7113 REMARK 3 S31: 0.4596 S32: 0.7833 S33: 0.0091 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 1145:1173) REMARK 3 ORIGIN FOR THE GROUP (A): 19.7652 64.6488 30.9877 REMARK 3 T TENSOR REMARK 3 T11: 0.4914 T22: 0.5101 REMARK 3 T33: 0.5943 T12: -0.1365 REMARK 3 T13: -0.2297 T23: 0.1993 REMARK 3 L TENSOR REMARK 3 L11: 0.3501 L22: 0.3601 REMARK 3 L33: 0.2572 L12: -0.2933 REMARK 3 L13: -0.3654 L23: 0.3714 REMARK 3 S TENSOR REMARK 3 S11: -0.0694 S12: -0.2833 S13: -0.0155 REMARK 3 S21: 0.4746 S22: -0.2646 S23: -0.7418 REMARK 3 S31: -0.3689 S32: -0.1002 S33: -0.0065 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 1174:1181) REMARK 3 ORIGIN FOR THE GROUP (A): 22.1975 53.8028 25.6269 REMARK 3 T TENSOR REMARK 3 T11: 0.4335 T22: 0.3629 REMARK 3 T33: 0.8835 T12: 0.1303 REMARK 3 T13: -0.2711 T23: 0.0911 REMARK 3 L TENSOR REMARK 3 L11: 0.2941 L22: 0.0143 REMARK 3 L33: 4.6653 L12: 0.0649 REMARK 3 L13: -0.7167 L23: -0.3369 REMARK 3 S TENSOR REMARK 3 S11: 0.0996 S12: 0.1867 S13: -0.1428 REMARK 3 S21: 0.3006 S22: 0.5484 S23: -1.1794 REMARK 3 S31: 0.5130 S32: -0.6428 S33: -0.0820 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 1182:1188) REMARK 3 ORIGIN FOR THE GROUP (A): 10.1794 61.0024 26.8892 REMARK 3 T TENSOR REMARK 3 T11: 0.4616 T22: 0.3271 REMARK 3 T33: 0.6031 T12: 0.0380 REMARK 3 T13: -0.1425 T23: 0.1389 REMARK 3 L TENSOR REMARK 3 L11: 0.7003 L22: 0.3398 REMARK 3 L33: 5.5939 L12: -0.3322 REMARK 3 L13: -1.6924 L23: 1.3335 REMARK 3 S TENSOR REMARK 3 S11: -0.4093 S12: -0.7720 S13: 0.3145 REMARK 3 S21: -0.3502 S22: 0.6031 S23: 0.6758 REMARK 3 S31: 1.2067 S32: -0.4111 S33: -0.1007 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 1189:1203) REMARK 3 ORIGIN FOR THE GROUP (A): 20.2179 55.1364 16.2891 REMARK 3 T TENSOR REMARK 3 T11: 0.6674 T22: 0.5134 REMARK 3 T33: 0.6723 T12: 0.1763 REMARK 3 T13: -0.0743 T23: 0.0508 REMARK 3 L TENSOR REMARK 3 L11: 0.1527 L22: 0.3783 REMARK 3 L33: 0.1711 L12: 0.1277 REMARK 3 L13: -0.0748 L23: -0.2774 REMARK 3 S TENSOR REMARK 3 S11: -0.2416 S12: 0.2092 S13: -0.9315 REMARK 3 S21: -0.3380 S22: 0.0982 S23: -0.7619 REMARK 3 S31: 0.6273 S32: -0.1257 S33: -0.0001 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 1204:1212) REMARK 3 ORIGIN FOR THE GROUP (A): 29.6652 48.5362 17.5762 REMARK 3 T TENSOR REMARK 3 T11: 0.7985 T22: 0.9366 REMARK 3 T33: 1.2647 T12: 0.5166 REMARK 3 T13: -0.0250 T23: 0.3162 REMARK 3 L TENSOR REMARK 3 L11: 0.0713 L22: 0.0763 REMARK 3 L33: 0.0291 L12: 0.0069 REMARK 3 L13: 0.0520 L23: 0.0242 REMARK 3 S TENSOR REMARK 3 S11: -0.2215 S12: -0.8822 S13: -0.3834 REMARK 3 S21: -0.2265 S22: -0.6991 S23: -0.7475 REMARK 3 S31: 0.1956 S32: 0.1545 S33: 0.0001 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN B AND RESID 3:21) REMARK 3 ORIGIN FOR THE GROUP (A): 13.2215 71.5736 52.7385 REMARK 3 T TENSOR REMARK 3 T11: 1.6066 T22: 0.8568 REMARK 3 T33: 0.8813 T12: 0.0188 REMARK 3 T13: -0.2704 T23: -0.2079 REMARK 3 L TENSOR REMARK 3 L11: 0.1615 L22: 0.2662 REMARK 3 L33: 0.1175 L12: -0.0692 REMARK 3 L13: 0.1312 L23: -0.1471 REMARK 3 S TENSOR REMARK 3 S11: -0.6901 S12: 0.4092 S13: 0.5057 REMARK 3 S21: 0.7394 S22: 0.1354 S23: -1.0454 REMARK 3 S31: -0.9922 S32: 0.9250 S33: -0.0013 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN B AND RESID 22:30) REMARK 3 ORIGIN FOR THE GROUP (A): 5.4021 73.2877 55.2534 REMARK 3 T TENSOR REMARK 3 T11: 1.6803 T22: 0.7738 REMARK 3 T33: 1.2133 T12: 0.3478 REMARK 3 T13: -0.0407 T23: 0.0398 REMARK 3 L TENSOR REMARK 3 L11: 0.1153 L22: 0.1786 REMARK 3 L33: 0.8230 L12: 0.1364 REMARK 3 L13: 0.2409 L23: 0.3578 REMARK 3 S TENSOR REMARK 3 S11: 0.2438 S12: 0.1551 S13: 0.9454 REMARK 3 S21: 0.6473 S22: -0.9780 S23: 0.2197 REMARK 3 S31: 0.3578 S32: -0.7154 S33: -0.0037 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN B AND RESID 31:80) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2369 60.6434 47.2058 REMARK 3 T TENSOR REMARK 3 T11: 0.7697 T22: 0.3934 REMARK 3 T33: 0.5290 T12: 0.1169 REMARK 3 T13: -0.2097 T23: 0.0330 REMARK 3 L TENSOR REMARK 3 L11: 0.1872 L22: 0.6846 REMARK 3 L33: 1.0709 L12: -0.0686 REMARK 3 L13: 0.0212 L23: -0.2304 REMARK 3 S TENSOR REMARK 3 S11: -0.4620 S12: 0.0866 S13: 0.3932 REMARK 3 S21: 0.5890 S22: 0.2579 S23: -0.0430 REMARK 3 S31: -0.4654 S32: 0.2773 S33: -0.0041 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN B AND RESID 81:94) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6660 50.9200 53.3171 REMARK 3 T TENSOR REMARK 3 T11: 0.7193 T22: 0.5114 REMARK 3 T33: 0.5116 T12: 0.2895 REMARK 3 T13: 0.0354 T23: 0.0541 REMARK 3 L TENSOR REMARK 3 L11: 9.0514 L22: 0.6922 REMARK 3 L33: 1.3238 L12: 2.5431 REMARK 3 L13: 0.0689 L23: 0.0966 REMARK 3 S TENSOR REMARK 3 S11: -0.7785 S12: 1.2306 S13: 0.1365 REMARK 3 S21: 1.2672 S22: 0.7663 S23: 0.2088 REMARK 3 S31: -0.8834 S32: -0.2392 S33: -0.1514 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN B AND RESID 95:102) REMARK 3 ORIGIN FOR THE GROUP (A): 6.1265 50.3191 37.6756 REMARK 3 T TENSOR REMARK 3 T11: 0.2327 T22: 0.5648 REMARK 3 T33: 0.4109 T12: 0.1271 REMARK 3 T13: -0.3143 T23: 0.2619 REMARK 3 L TENSOR REMARK 3 L11: 1.1376 L22: 4.9479 REMARK 3 L33: 0.3680 L12: 1.6941 REMARK 3 L13: -0.5829 L23: -0.5578 REMARK 3 S TENSOR REMARK 3 S11: -0.3505 S12: 0.3697 S13: 0.0223 REMARK 3 S21: -1.4908 S22: 0.5764 S23: -0.5853 REMARK 3 S31: 0.2262 S32: -0.6451 S33: 0.2577 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN B AND RESID 103:124) REMARK 3 ORIGIN FOR THE GROUP (A): 14.4534 44.1317 44.1440 REMARK 3 T TENSOR REMARK 3 T11: 0.4908 T22: 0.4877 REMARK 3 T33: 0.3666 T12: 0.0474 REMARK 3 T13: -0.0417 T23: 0.0814 REMARK 3 L TENSOR REMARK 3 L11: 0.2497 L22: 0.8785 REMARK 3 L33: 0.5339 L12: -0.4260 REMARK 3 L13: 0.0277 L23: 0.6271 REMARK 3 S TENSOR REMARK 3 S11: -0.1777 S12: 0.1363 S13: -0.0158 REMARK 3 S21: 0.6260 S22: 0.2283 S23: -0.0485 REMARK 3 S31: -0.0482 S32: 0.0036 S33: 0.0000 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: (CHAIN B AND RESID 125:144) REMARK 3 ORIGIN FOR THE GROUP (A): 11.6155 40.9984 35.4219 REMARK 3 T TENSOR REMARK 3 T11: 0.5066 T22: 0.6265 REMARK 3 T33: 0.4290 T12: 0.0295 REMARK 3 T13: -0.0414 T23: 0.0942 REMARK 3 L TENSOR REMARK 3 L11: 0.7219 L22: 0.6730 REMARK 3 L33: 0.3864 L12: 0.8080 REMARK 3 L13: 0.6397 L23: 0.5369 REMARK 3 S TENSOR REMARK 3 S11: -0.0165 S12: 0.1088 S13: -0.1986 REMARK 3 S21: -0.2708 S22: 0.1829 S23: 0.2654 REMARK 3 S31: 0.3291 S32: 0.4699 S33: 0.0000 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: (CHAIN B AND RESID 145:154) REMARK 3 ORIGIN FOR THE GROUP (A): 21.7809 37.0176 41.1131 REMARK 3 T TENSOR REMARK 3 T11: 0.4596 T22: 0.5612 REMARK 3 T33: 0.4361 T12: 0.1920 REMARK 3 T13: 0.0254 T23: 0.0458 REMARK 3 L TENSOR REMARK 3 L11: 1.0666 L22: 1.3148 REMARK 3 L33: 0.2748 L12: 1.1030 REMARK 3 L13: 0.1485 L23: 0.2463 REMARK 3 S TENSOR REMARK 3 S11: 0.8264 S12: -0.0242 S13: -0.3407 REMARK 3 S21: -0.0776 S22: -0.4908 S23: 0.2470 REMARK 3 S31: 0.4462 S32: 0.8353 S33: 0.0362 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: (CHAIN B AND RESID 155:162) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4534 29.1888 41.8000 REMARK 3 T TENSOR REMARK 3 T11: 0.6487 T22: 0.5770 REMARK 3 T33: 0.5561 T12: -0.0476 REMARK 3 T13: 0.0441 T23: -0.1125 REMARK 3 L TENSOR REMARK 3 L11: 0.0769 L22: 0.0154 REMARK 3 L33: 0.1078 L12: 0.0186 REMARK 3 L13: -0.0731 L23: -0.0034 REMARK 3 S TENSOR REMARK 3 S11: 0.4417 S12: 0.3128 S13: 0.6243 REMARK 3 S21: 0.2571 S22: -0.5272 S23: -0.0234 REMARK 3 S31: 0.8917 S32: -0.2514 S33: 0.0000 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 7ZYU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1292123325. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-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 : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : STARANISO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11398 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.430 REMARK 200 RESOLUTION RANGE LOW (A) : 58.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.63 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: 3GV4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.6 M SODIUM FORMATE, BIS-TRIS 0.1M REMARK 280 PH=6.7, 10% W/V GLYCEROL, 30% W/V 1,8-DIAMINOOCTANE(ADDITIVE)., REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.09600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.54800 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 34.54800 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 69.09600 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: 2440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 2.0 KCAL/MOL 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 306 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 HIS A 1213 REMARK 465 PRO A 1214 REMARK 465 HIS A 1215 REMARK 465 GLY B 1 REMARK 465 SER B 2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 THR A 1108 CB OG1 CG2 REMARK 480 ASP A 1197 CG OD1 OD2 REMARK 480 GLU A 1209 CB CG CD OE1 OE2 REMARK 480 ASP A 1210 CB CG OD1 OD2 REMARK 480 ASP B 3 CB CG OD1 OD2 REMARK 480 LYS B 6 CB CG CD CE NZ REMARK 480 LYS B 7 CB CG CD CE NZ REMARK 480 ILE B 22 CB CG1 CG2 CD1 REMARK 480 LEU B 23 CB CG CD1 CD2 REMARK 480 ARG B 35 CG CD NE CZ NH1 NH2 REMARK 480 LYS B 58 CB CG CD CE NZ REMARK 480 GLU B 84 CD OE1 OE2 REMARK 480 LYS B 91 CE NZ REMARK 480 LYS B 137 NZ 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 ILE A1157 -66.89 -101.63 REMARK 500 ASN B 31 32.13 -97.94 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 ZN A2000 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1113 SG REMARK 620 2 HIS A1115 ND1 111.5 REMARK 620 3 CYS A1183 SG 106.2 100.7 REMARK 620 4 CYS A1186 SG 106.1 112.9 119.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A2001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1133 SG REMARK 620 2 CYS A1153 SG 112.6 REMARK 620 3 HIS A1160 ND1 103.8 106.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A2002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1145 SG REMARK 620 2 CYS A1148 SG 98.2 REMARK 620 3 HIS A1164 NE2 121.6 96.0 REMARK 620 4 HIS A1170 ND1 90.1 113.7 133.3 REMARK 620 N 1 2 3 DBREF 7ZYU A 1108 1215 UNP Q9UBN7 HDAC6_HUMAN 1108 1215 DBREF 7ZYU B 1 162 PDB 7ZYU 7ZYU 1 162 SEQADV 7ZYU GLY A 1106 UNP Q9UBN7 EXPRESSION TAG SEQADV 7ZYU PRO A 1107 UNP Q9UBN7 EXPRESSION TAG SEQRES 1 A 110 GLY PRO THR PRO LEU PRO TRP CYS PRO HIS LEU VAL ALA SEQRES 2 A 110 VAL CYS PRO ILE PRO ALA ALA GLY LEU ASP VAL THR GLN SEQRES 3 A 110 PRO CYS GLY ASP CYS GLY THR ILE GLN GLU ASN TRP VAL SEQRES 4 A 110 CYS LEU SER CYS TYR GLN VAL TYR CYS GLY ARG TYR ILE SEQRES 5 A 110 ASN GLY HIS MET LEU GLN HIS HIS GLY ASN SER GLY HIS SEQRES 6 A 110 PRO LEU VAL LEU SER TYR ILE ASP LEU SER ALA TRP CYS SEQRES 7 A 110 TYR TYR CYS GLN ALA TYR VAL HIS HIS GLN ALA LEU LEU SEQRES 8 A 110 ASP VAL LYS ASN ILE ALA HIS GLN ASN LYS PHE GLY GLU SEQRES 9 A 110 ASP MET PRO HIS PRO HIS SEQRES 1 B 162 GLY SER ASP LEU GLY LYS LYS LEU LEU GLU ALA ALA ARG SEQRES 2 B 162 ALA GLY GLN ASP ASP GLU VAL ARG ILE LEU MET ALA ASN SEQRES 3 B 162 GLY ALA ASP VAL ASN ALA ASN ASP ARG ASN GLY VAL THR SEQRES 4 B 162 PRO LEU HIS LEU ALA ALA ASP LYS GLY HIS LEU GLU ILE SEQRES 5 B 162 VAL GLU VAL LEU LEU LYS THR GLY ALA ASP VAL ASN ALA SEQRES 6 B 162 ILE ASP ILE MET GLY ALA THR PRO LEU HIS LEU ALA ALA SEQRES 7 B 162 ALA HIS GLY HIS LEU GLU ILE VAL GLU VAL LEU LEU LYS SEQRES 8 B 162 ALA GLY ALA ASP VAL ASN ALA MET ASP HIS LYS GLY PHE SEQRES 9 B 162 THR PRO LEU HIS LEU ALA ALA TRP ARG GLY HIS LEU GLU SEQRES 10 B 162 ILE VAL GLU VAL LEU LEU LYS HIS GLY ALA ASP VAL ASN SEQRES 11 B 162 ALA GLN ASP LYS PHE GLY LYS THR PRO PHE ASP LEU ALA SEQRES 12 B 162 ILE ASP ASN GLY ASN GLU ASP ILE ALA GLU VAL LEU GLN SEQRES 13 B 162 LYS ALA ALA LYS LEU ASN HET ZN A2000 1 HET ZN A2001 1 HET ZN A2002 1 HET EDO A2003 10 HET EDO B 201 10 HET EDO B 202 10 HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZN 3(ZN 2+) FORMUL 6 EDO 3(C2 H6 O2) FORMUL 9 HOH *10(H2 O) HELIX 1 AA1 HIS A 1115 VAL A 1119 5 5 HELIX 2 AA2 GLY A 1159 GLY A 1169 1 11 HELIX 3 AA3 ASP A 1197 GLY A 1208 1 12 HELIX 4 AA4 LEU B 4 ALA B 14 1 11 HELIX 5 AA5 GLN B 16 MET B 24 1 9 HELIX 6 AA6 THR B 39 GLY B 48 1 10 HELIX 7 AA7 HIS B 49 THR B 59 1 11 HELIX 8 AA8 THR B 72 HIS B 80 1 9 HELIX 9 AA9 HIS B 82 ALA B 92 1 11 HELIX 10 AB1 THR B 105 ARG B 113 1 9 HELIX 11 AB2 HIS B 115 HIS B 125 1 11 HELIX 12 AB3 THR B 138 ASN B 146 1 9 HELIX 13 AB4 ASN B 148 LEU B 161 1 14 SHEET 1 AA1 6 PRO A1109 LEU A1110 0 SHEET 2 AA1 6 ALA A1188 VAL A1190 1 O TYR A1189 N LEU A1110 SHEET 3 AA1 6 ALA A1181 CYS A1183 -1 N ALA A1181 O VAL A1190 SHEET 4 AA1 6 LEU A1172 SER A1175 -1 N VAL A1173 O TRP A1182 SHEET 5 AA1 6 ASN A1142 CYS A1145 -1 N VAL A1144 O LEU A1174 SHEET 6 AA1 6 VAL A1151 CYS A1153 -1 O TYR A1152 N TRP A1143 SSBOND 1 CYS A 1120 CYS A 1120 1555 5675 2.03 LINK SG CYS A1113 ZN ZN A2000 1555 1555 2.03 LINK ND1 HIS A1115 ZN ZN A2000 1555 1555 2.05 LINK SG CYS A1133 ZN ZN A2001 1555 1555 2.39 LINK SG CYS A1145 ZN ZN A2002 1555 1555 2.21 LINK SG CYS A1148 ZN ZN A2002 1555 1555 2.30 LINK SG CYS A1153 ZN ZN A2001 1555 1555 2.48 LINK ND1 HIS A1160 ZN ZN A2001 1555 1555 2.03 LINK NE2 HIS A1164 ZN ZN A2002 1555 1555 2.01 LINK ND1 HIS A1170 ZN ZN A2002 1555 1555 2.02 LINK SG CYS A1183 ZN ZN A2000 1555 1555 2.35 LINK SG CYS A1186 ZN ZN A2000 1555 1555 2.34 CRYST1 81.391 81.391 103.644 90.00 90.00 120.00 P 32 2 1 6 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 0.012286 0.007094 0.000000 0.00000 SCALE2 0.000000 0.014187 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009648 0.00000