HEADER HYDROLASE/DNA 16-SEP-16 5TD5 TITLE CRYSTAL STRUCTURE OF HUMAN APOBEC3B VARIANT COMPLEXED WITH SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA DC->DU-EDITING ENZYME APOBEC-3B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: A3B,PHORBOLIN-1-RELATED PROTEIN,PHORBOLIN-2/3; COMPND 5 EC: 3.5.4.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(P*TP*TP*CP*AP*T)-3'); COMPND 10 CHAIN: C; COMPND 11 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: APOBEC3B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS DEAMINASE, DNA SUBSTRATE COMPLEX, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.SHI,S.BANERJEE,K.KURAHASHI,H.AIHARA REVDAT 3 06-MAR-24 5TD5 1 REMARK REVDAT 2 22-FEB-17 5TD5 1 JRNL REVDAT 1 28-DEC-16 5TD5 0 JRNL AUTH K.SHI,M.A.CARPENTER,S.BANERJEE,N.M.SHABAN,K.KURAHASHI, JRNL AUTH 2 D.J.SALAMANGO,J.L.MCCANN,G.J.STARRETT,J.V.DUFFY,O.DEMIR, JRNL AUTH 3 R.E.AMARO,D.A.HARKI,R.S.HARRIS,H.AIHARA JRNL TITL STRUCTURAL BASIS FOR TARGETED DNA CYTOSINE DEAMINATION AND JRNL TITL 2 MUTAGENESIS BY APOBEC3A AND APOBEC3B. JRNL REF NAT. STRUCT. MOL. BIOL. V. 24 131 2017 JRNL REFN ESSN 1545-9985 JRNL PMID 27991903 JRNL DOI 10.1038/NSMB.3344 REMARK 2 REMARK 2 RESOLUTION. 1.72 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_2499 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) : 1.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 83.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 46913 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2373 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 83.5932 - 4.4182 1.00 2625 150 0.1726 0.1935 REMARK 3 2 4.4182 - 3.5068 1.00 2613 167 0.1447 0.1775 REMARK 3 3 3.5068 - 3.0635 1.00 2648 121 0.1727 0.2038 REMARK 3 4 3.0635 - 2.7834 1.00 2590 165 0.1865 0.2213 REMARK 3 5 2.7834 - 2.5839 1.00 2651 133 0.1822 0.2445 REMARK 3 6 2.5839 - 2.4315 1.00 2609 134 0.1830 0.2105 REMARK 3 7 2.4315 - 2.3097 1.00 2659 128 0.1804 0.2235 REMARK 3 8 2.3097 - 2.2092 1.00 2622 131 0.1766 0.1801 REMARK 3 9 2.2092 - 2.1241 1.00 2615 150 0.1852 0.2140 REMARK 3 10 2.1241 - 2.0508 1.00 2605 159 0.1932 0.2549 REMARK 3 11 2.0508 - 1.9867 1.00 2636 144 0.2059 0.2494 REMARK 3 12 1.9867 - 1.9299 1.00 2619 131 0.2172 0.2431 REMARK 3 13 1.9299 - 1.8791 1.00 2624 140 0.2298 0.2467 REMARK 3 14 1.8791 - 1.8333 1.00 2622 136 0.2392 0.2445 REMARK 3 15 1.8333 - 1.7916 1.00 2649 130 0.2784 0.2959 REMARK 3 16 1.7916 - 1.7534 1.00 2642 132 0.2983 0.3461 REMARK 3 17 1.7534 - 1.7184 0.95 2511 122 0.3210 0.3014 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.340 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 : 0.005 1643 REMARK 3 ANGLE : 0.750 2232 REMARK 3 CHIRALITY : 0.045 229 REMARK 3 PLANARITY : 0.004 276 REMARK 3 DIHEDRAL : 17.819 945 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 190 THROUGH 202 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.9354 38.9520 -8.3520 REMARK 3 T TENSOR REMARK 3 T11: 0.2682 T22: 0.3522 REMARK 3 T33: 0.6595 T12: 0.0563 REMARK 3 T13: 0.0908 T23: -0.1905 REMARK 3 L TENSOR REMARK 3 L11: 0.0244 L22: -0.0433 REMARK 3 L33: 0.1159 L12: 0.0113 REMARK 3 L13: 0.0210 L23: -0.0204 REMARK 3 S TENSOR REMARK 3 S11: -0.0552 S12: -0.2048 S13: 0.4301 REMARK 3 S21: 0.3492 S22: -0.0734 S23: 0.5408 REMARK 3 S31: 0.2633 S32: -0.1270 S33: 0.0882 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 203 THROUGH 224 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.1289 33.0150 -13.6122 REMARK 3 T TENSOR REMARK 3 T11: 0.3240 T22: 0.3323 REMARK 3 T33: 0.3423 T12: 0.0372 REMARK 3 T13: 0.0462 T23: -0.0727 REMARK 3 L TENSOR REMARK 3 L11: 0.5904 L22: 0.4977 REMARK 3 L33: 0.0102 L12: -0.6655 REMARK 3 L13: 0.1922 L23: -0.2531 REMARK 3 S TENSOR REMARK 3 S11: 0.0606 S12: 0.1521 S13: 0.1939 REMARK 3 S21: 0.0335 S22: -0.0929 S23: 0.2464 REMARK 3 S31: -0.0773 S32: 0.0768 S33: -0.0058 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 225 THROUGH 235 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.1957 29.3605 -26.4111 REMARK 3 T TENSOR REMARK 3 T11: 0.4507 T22: 0.6784 REMARK 3 T33: 0.8339 T12: -0.0330 REMARK 3 T13: -0.0304 T23: -0.0745 REMARK 3 L TENSOR REMARK 3 L11: -0.0079 L22: -0.0088 REMARK 3 L33: 0.0648 L12: 0.0388 REMARK 3 L13: 0.0450 L23: 0.0167 REMARK 3 S TENSOR REMARK 3 S11: -0.4216 S12: 0.3478 S13: 0.0965 REMARK 3 S21: 0.3839 S22: -0.3324 S23: -0.0307 REMARK 3 S31: 0.0343 S32: -0.2478 S33: -0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 236 THROUGH 261 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.2022 24.0773 -7.4971 REMARK 3 T TENSOR REMARK 3 T11: 0.3606 T22: 0.3541 REMARK 3 T33: 0.3041 T12: 0.0167 REMARK 3 T13: 0.1293 T23: -0.0123 REMARK 3 L TENSOR REMARK 3 L11: 0.3501 L22: 0.1969 REMARK 3 L33: 0.1464 L12: -0.0628 REMARK 3 L13: 0.1122 L23: 0.0166 REMARK 3 S TENSOR REMARK 3 S11: -0.2154 S12: -0.3573 S13: -0.1305 REMARK 3 S21: 0.3627 S22: -0.0888 S23: 0.1171 REMARK 3 S31: 0.2189 S32: -0.0867 S33: -0.0426 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 262 THROUGH 272 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.6439 17.8628 -24.2153 REMARK 3 T TENSOR REMARK 3 T11: 0.4287 T22: 0.4508 REMARK 3 T33: 0.4809 T12: -0.0740 REMARK 3 T13: -0.0106 T23: -0.2179 REMARK 3 L TENSOR REMARK 3 L11: -0.0178 L22: 0.0436 REMARK 3 L33: 0.0477 L12: -0.0085 REMARK 3 L13: -0.0105 L23: -0.0376 REMARK 3 S TENSOR REMARK 3 S11: 0.0204 S12: 0.2139 S13: -0.3206 REMARK 3 S21: -0.6680 S22: -0.2177 S23: 0.4118 REMARK 3 S31: 0.3333 S32: 0.1794 S33: -0.0033 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 273 THROUGH 288 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.6214 27.0855 -13.1764 REMARK 3 T TENSOR REMARK 3 T11: 0.3070 T22: 0.2536 REMARK 3 T33: 0.2079 T12: 0.0334 REMARK 3 T13: 0.0327 T23: -0.0186 REMARK 3 L TENSOR REMARK 3 L11: 0.2468 L22: 0.2569 REMARK 3 L33: -0.0038 L12: 0.0524 REMARK 3 L13: 0.1400 L23: 0.1901 REMARK 3 S TENSOR REMARK 3 S11: -0.0350 S12: -0.0019 S13: 0.1863 REMARK 3 S21: 0.0571 S22: -0.1360 S23: 0.1487 REMARK 3 S31: -0.0005 S32: 0.0516 S33: -0.0362 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 289 THROUGH 299 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.8676 16.2306 -15.7999 REMARK 3 T TENSOR REMARK 3 T11: 0.4102 T22: 0.3019 REMARK 3 T33: 0.2696 T12: 0.0155 REMARK 3 T13: 0.0978 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 0.0468 L22: -0.0321 REMARK 3 L33: 0.0163 L12: 0.0317 REMARK 3 L13: 0.0223 L23: 0.0216 REMARK 3 S TENSOR REMARK 3 S11: -0.0689 S12: -0.1619 S13: 0.1604 REMARK 3 S21: -0.1008 S22: -0.0096 S23: 0.1219 REMARK 3 S31: 0.4986 S32: 0.1874 S33: 0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 300 THROUGH 309 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.6674 23.8702 -22.4029 REMARK 3 T TENSOR REMARK 3 T11: 0.3579 T22: 0.3211 REMARK 3 T33: 0.2511 T12: 0.0013 REMARK 3 T13: 0.0311 T23: -0.0331 REMARK 3 L TENSOR REMARK 3 L11: 0.1184 L22: -0.0047 REMARK 3 L33: 0.0667 L12: -0.0275 REMARK 3 L13: 0.0472 L23: 0.0566 REMARK 3 S TENSOR REMARK 3 S11: -0.0497 S12: -0.1328 S13: 0.0536 REMARK 3 S21: -0.1195 S22: 0.0145 S23: 0.0142 REMARK 3 S31: 0.0383 S32: -0.1576 S33: -0.0001 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 310 THROUGH 348 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.7373 32.9717 -14.5298 REMARK 3 T TENSOR REMARK 3 T11: 0.2926 T22: 0.2892 REMARK 3 T33: 0.2865 T12: 0.0352 REMARK 3 T13: 0.0167 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 0.6431 L22: 0.9219 REMARK 3 L33: 0.2007 L12: 0.8703 REMARK 3 L13: -0.0958 L23: 0.5356 REMARK 3 S TENSOR REMARK 3 S11: -0.1192 S12: 0.0407 S13: 0.2615 REMARK 3 S21: -0.1424 S22: 0.0035 S23: -0.0114 REMARK 3 S31: 0.0047 S32: 0.0782 S33: -0.0001 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 349 THROUGH 361 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.5744 47.7735 -12.4073 REMARK 3 T TENSOR REMARK 3 T11: 0.3020 T22: 0.3400 REMARK 3 T33: 0.7239 T12: 0.0873 REMARK 3 T13: 0.0283 T23: -0.1084 REMARK 3 L TENSOR REMARK 3 L11: 0.1738 L22: 0.0751 REMARK 3 L33: 0.5095 L12: 0.1195 REMARK 3 L13: -0.1020 L23: -0.0723 REMARK 3 S TENSOR REMARK 3 S11: 0.0567 S12: 0.0977 S13: -0.3765 REMARK 3 S21: 0.2762 S22: 0.0160 S23: 0.4270 REMARK 3 S31: -0.1936 S32: -0.2096 S33: -0.0280 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 362 THROUGH 379 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.3230 39.1421 -16.4593 REMARK 3 T TENSOR REMARK 3 T11: 0.3291 T22: 0.3313 REMARK 3 T33: 0.4362 T12: -0.0265 REMARK 3 T13: 0.0185 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 0.0085 L22: 0.0780 REMARK 3 L33: -0.0453 L12: 0.1026 REMARK 3 L13: -0.0167 L23: 0.0366 REMARK 3 S TENSOR REMARK 3 S11: -0.1209 S12: 0.0636 S13: 0.3755 REMARK 3 S21: -0.2518 S22: 0.0665 S23: -0.2811 REMARK 3 S31: 0.0071 S32: -0.0026 S33: 0.0000 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND RESNAME CL AND NAME 'CL ' AND ALTLOC ' REMARK 3 ' AND RESID 2 REMARK 3 ORIGIN FOR THE GROUP (A): 12.2337 33.7244 1.9042 REMARK 3 T TENSOR REMARK 3 T11: 0.3922 T22: 0.3216 REMARK 3 T33: 0.2383 T12: 0.0767 REMARK 3 T13: 0.0751 T23: -0.0595 REMARK 3 L TENSOR REMARK 3 L11: 0.6910 L22: 0.4238 REMARK 3 L33: 0.1958 L12: -0.3089 REMARK 3 L13: 0.3144 L23: -0.1513 REMARK 3 S TENSOR REMARK 3 S11: 0.1042 S12: 0.0514 S13: 0.1643 REMARK 3 S21: 0.4161 S22: 0.3110 S23: -0.4909 REMARK 3 S31: 0.1498 S32: -0.0599 S33: 0.1038 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 5TD5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000224052. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-16 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 : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50564 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.718 REMARK 200 RESOLUTION RANGE LOW (A) : 83.494 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 35.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 11.80 REMARK 200 R MERGE FOR SHELL (I) : 1.27500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NAI, PEG3350, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 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 28.29167 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 56.58333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 28.29167 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 56.58333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 28.29167 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 56.58333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 28.29167 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 56.58333 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: 3800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL 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 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 A 584 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 MET A 186 REMARK 465 GLU A 187 REMARK 465 ILE A 188 REMARK 465 LEU A 189 REMARK 465 GLU A 380 REMARK 465 HIS A 381 REMARK 465 HIS A 382 REMARK 465 HIS A 383 REMARK 465 HIS A 384 REMARK 465 HIS A 385 REMARK 465 HIS A 386 REMARK 465 DT C -4 REMARK 465 DT C -3 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 DT C 2 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DT C 2 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT C 2 C7 C6 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 ASN A 225 CG OD1 ND2 REMARK 480 ARG A 306 NE 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 A 586 O HOH A 587 2.01 REMARK 500 O HOH A 554 O HOH A 563 2.04 REMARK 500 N7 DA C 1 O HOH C 201 2.16 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 A 560 O HOH A 586 7554 2.13 REMARK 500 OE1 GLU A 363 NE2 GLN A 378 4665 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 HIS A 212 43.61 -78.26 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 A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 253 ND1 REMARK 620 2 CYS A 284 SG 113.2 REMARK 620 3 CYS A 289 SG 110.1 109.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD C 101 DBREF 5TD5 A 187 378 UNP Q9UH17 ABC3B_HUMAN 187 378 DBREF 5TD5 C -4 2 PDB 5TD5 5TD5 -4 2 SEQADV 5TD5 MET A 186 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 SER A 200 UNP Q9UH17 PHE 200 ENGINEERED MUTATION SEQADV 5TD5 A UNP Q9UH17 ASP 205 DELETION SEQADV 5TD5 A UNP Q9UH17 PRO 206 DELETION SEQADV 5TD5 A UNP Q9UH17 LEU 207 DELETION SEQADV 5TD5 GLY A 205 UNP Q9UH17 VAL 208 ENGINEERED MUTATION SEQADV 5TD5 ILE A 209 UNP Q9UH17 LEU 209 ENGINEERED MUTATION SEQADV 5TD5 GLY A 210 UNP Q9UH17 ARG 210 ENGINEERED MUTATION SEQADV 5TD5 HIS A 212 UNP Q9UH17 ARG 212 ENGINEERED MUTATION SEQADV 5TD5 LYS A 213 UNP Q9UH17 GLN 213 ENGINEERED MUTATION SEQADV 5TD5 SER A 228 UNP Q9UH17 TRP 228 ENGINEERED MUTATION SEQADV 5TD5 LYS A 230 UNP Q9UH17 LEU 230 ENGINEERED MUTATION SEQADV 5TD5 A UNP Q9UH17 ALA 242 DELETION SEQADV 5TD5 A UNP Q9UH17 LYS 243 DELETION SEQADV 5TD5 A UNP Q9UH17 ASN 244 DELETION SEQADV 5TD5 A UNP Q9UH17 LEU 245 DELETION SEQADV 5TD5 A UNP Q9UH17 LEU 246 DELETION SEQADV 5TD5 A UNP Q9UH17 CYS 247 DELETION SEQADV 5TD5 A UNP Q9UH17 GLY 248 DELETION SEQADV 5TD5 A UNP Q9UH17 PHE 249 DELETION SEQADV 5TD5 SER A 250 UNP Q9UH17 TYR 250 ENGINEERED MUTATION SEQADV 5TD5 ALA A 255 UNP Q9UH17 GLU 255 ENGINEERED MUTATION SEQADV 5TD5 LYS A 308 UNP Q9UH17 PHE 308 ENGINEERED MUTATION SEQADV 5TD5 LEU A 379 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 GLU A 380 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 HIS A 381 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 HIS A 382 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 HIS A 383 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 HIS A 384 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 HIS A 385 UNP Q9UH17 EXPRESSION TAG SEQADV 5TD5 HIS A 386 UNP Q9UH17 EXPRESSION TAG SEQRES 1 A 190 MET GLU ILE LEU ARG TYR LEU MET ASP PRO ASP THR PHE SEQRES 2 A 190 THR SER ASN PHE ASN ASN GLY ILE GLY ARG HIS LYS THR SEQRES 3 A 190 TYR LEU CYS TYR GLU VAL GLU ARG LEU ASP ASN GLY THR SEQRES 4 A 190 SER VAL LYS MET ASP GLN HIS MET GLY PHE LEU CYS ASN SEQRES 5 A 190 GLU SER GLY ARG HIS ALA ALA LEU ARG PHE LEU ASP LEU SEQRES 6 A 190 VAL PRO SER LEU GLN LEU ASP PRO ALA GLN ILE TYR ARG SEQRES 7 A 190 VAL THR TRP PHE ILE SER TRP SER PRO CYS PHE SER TRP SEQRES 8 A 190 GLY CYS ALA GLY GLU VAL ARG ALA PHE LEU GLN GLU ASN SEQRES 9 A 190 THR HIS VAL ARG LEU ARG ILE LYS ALA ALA ARG ILE TYR SEQRES 10 A 190 ASP TYR ASP PRO LEU TYR LYS GLU ALA LEU GLN MET LEU SEQRES 11 A 190 ARG ASP ALA GLY ALA GLN VAL SER ILE MET THR TYR ASP SEQRES 12 A 190 GLU PHE GLU TYR CYS TRP ASP THR PHE VAL TYR ARG GLN SEQRES 13 A 190 GLY CYS PRO PHE GLN PRO TRP ASP GLY LEU GLU GLU HIS SEQRES 14 A 190 SER GLN ALA LEU SER GLY ARG LEU ARG ALA ILE LEU GLN SEQRES 15 A 190 LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 7 DT DT DT DT DC DA DT HET ZN A 401 1 HET IOD A 402 1 HET IOD A 403 1 HET IOD A 404 1 HET IOD A 405 1 HET IOD A 406 1 HET IOD A 407 1 HET IOD A 408 1 HET IOD A 409 1 HET EDO A 410 10 HET EDO A 411 10 HET EDO A 412 10 HET EDO A 413 10 HET EDO A 414 10 HET EDO A 415 10 HET CL A 416 1 HET CL A 417 1 HET IOD C 101 1 HETNAM ZN ZINC ION HETNAM IOD IODIDE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZN ZN 2+ FORMUL 4 IOD 9(I 1-) FORMUL 12 EDO 6(C2 H6 O2) FORMUL 18 CL 2(CL 1-) FORMUL 21 HOH *98(H2 O) HELIX 1 AA1 ASP A 194 ASN A 203 1 10 HELIX 2 AA2 ASP A 232 MET A 235 5 4 HELIX 3 AA3 HIS A 253 GLN A 266 1 14 HELIX 4 AA4 GLY A 288 ASN A 300 1 13 HELIX 5 AA5 LEU A 318 ALA A 329 1 12 HELIX 6 AA6 THR A 337 VAL A 349 1 13 HELIX 7 AA7 GLY A 361 GLN A 378 1 18 SHEET 1 AA1 3 SER A 228 LYS A 230 0 SHEET 2 AA1 3 TYR A 215 LEU A 223 -1 N ARG A 222 O VAL A 229 SHEET 3 AA1 3 GLY A 236 CYS A 239 -1 O GLY A 236 N TYR A 218 SHEET 1 AA2 5 SER A 228 LYS A 230 0 SHEET 2 AA2 5 TYR A 215 LEU A 223 -1 N ARG A 222 O VAL A 229 SHEET 3 AA2 5 TYR A 273 ILE A 279 -1 O PHE A 278 N CYS A 217 SHEET 4 AA2 5 VAL A 303 ALA A 309 1 O ARG A 304 N VAL A 275 SHEET 5 AA2 5 GLN A 332 ILE A 335 1 O SER A 334 N ILE A 307 LINK ND1 HIS A 253 ZN ZN A 401 1555 1555 2.07 LINK SG CYS A 284 ZN ZN A 401 1555 1555 2.31 LINK SG CYS A 289 ZN ZN A 401 1555 1555 2.08 SITE 1 AC1 4 HIS A 253 CYS A 284 CYS A 289 CL A 417 SITE 1 AC2 1 HOH A 569 SITE 1 AC3 2 ASP A 194 DA C 1 SITE 1 AC4 3 ARG A 211 HIS A 212 DT C -2 SITE 1 AC5 4 ARG A 211 HIS A 212 DT C -2 DA C 1 SITE 1 AC6 1 HOH A 527 SITE 1 AC7 8 GLY A 251 ARG A 252 HIS A 253 LEU A 256 SITE 2 AC7 8 TRP A 287 CYS A 289 EDO A 412 HOH A 502 SITE 1 AC8 6 HIS A 253 TRP A 287 TYR A 313 EDO A 411 SITE 2 AC8 6 DC C 0 DA C 1 SITE 1 AC9 3 ARG A 374 LEU A 377 HOH A 508 SITE 1 AD1 6 ARG A 190 TYR A 191 TYR A 218 GLY A 236 SITE 2 AD1 6 PHE A 237 HOH A 550 SITE 1 AD2 3 GLY A 205 TRP A 281 DT C -1 SITE 1 AD3 1 HIS A 365 SITE 1 AD4 6 HIS A 253 PRO A 283 CYS A 284 CYS A 289 SITE 2 AD4 6 ZN A 401 DC C 0 SITE 1 AD5 2 ASP A 194 DA C 1 CRYST1 96.411 96.411 84.875 90.00 90.00 120.00 P 64 2 2 12 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 0.010372 0.005988 0.000000 0.00000 SCALE2 0.000000 0.011977 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011782 0.00000