PDB Short entry for 4IPY HEADER VIRAL PROTEIN 10-JAN-13 4IPY TITLE HIV CAPSID C-TERMINAL DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN P24; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN, RESIDUES 278-363; COMPND 5 SYNONYM: CA; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1; SOURCE 3 ORGANISM_COMMON: HIV-1; SOURCE 4 ORGANISM_TAXID: 11698; SOURCE 5 STRAIN: NEW YORK-5 ISOLATE; SOURCE 6 GENE: GAG-POL; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PET11A; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: WISP97-7 KEYWDS VIRAL PROTEIN, CAPSID, CORE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.LAMPEL,O.YANIV,O.BERGER,E.BACHRACH,E.GAZIT,F.FROLOW REVDAT 3 20-SEP-23 4IPY 1 REMARK SEQADV REVDAT 2 15-NOV-17 4IPY 1 REMARK REVDAT 1 16-OCT-13 4IPY 0 JRNL AUTH A.LAMPEL,O.YANIV,O.BERGER,E.BACHARACH,E.GAZIT,F.FROLOW JRNL TITL A TRICLINIC CRYSTAL STRUCTURE OF THE CARBOXY-TERMINAL DOMAIN JRNL TITL 2 OF HIV-1 CAPSID PROTEIN WITH FOUR MOLECULES IN THE JRNL TITL 3 ASYMMETRIC UNIT REVEALS A NOVEL PACKING INTERFACE. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 69 602 2013 JRNL REFN ESSN 1744-3091 JRNL PMID 23722834 JRNL DOI 10.1107/S1744309113011871 REMARK 2 REMARK 2 RESOLUTION. 1.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_1261) 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) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 38622 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 1949 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 19.7000 - 3.9431 0.98 2697 143 0.1514 0.1720 REMARK 3 2 3.9431 - 3.1337 0.99 2719 145 0.1612 0.2017 REMARK 3 3 3.1337 - 2.7387 0.99 2680 160 0.1887 0.2313 REMARK 3 4 2.7387 - 2.4888 0.98 2696 139 0.1842 0.2414 REMARK 3 5 2.4888 - 2.3107 0.98 2714 135 0.1825 0.2317 REMARK 3 6 2.3107 - 2.1747 0.97 2650 147 0.1696 0.2078 REMARK 3 7 2.1747 - 2.0659 0.97 2691 137 0.1750 0.1937 REMARK 3 8 2.0659 - 1.9760 0.97 2700 121 0.1756 0.2412 REMARK 3 9 1.9760 - 1.9000 0.97 2632 148 0.1907 0.2526 REMARK 3 10 1.9000 - 1.8345 0.96 2684 119 0.1923 0.2436 REMARK 3 11 1.8345 - 1.7772 0.96 2622 153 0.1979 0.2395 REMARK 3 12 1.7772 - 1.7264 0.96 2610 146 0.1908 0.2468 REMARK 3 13 1.7264 - 1.6810 0.93 2529 144 0.1921 0.2363 REMARK 3 14 1.6810 - 1.6400 0.73 2049 112 0.1976 0.2559 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.430 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.58 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 : 0.006 2695 REMARK 3 ANGLE : 1.074 3642 REMARK 3 CHIRALITY : 0.064 404 REMARK 3 PLANARITY : 0.006 480 REMARK 3 DIHEDRAL : 12.993 1049 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 22 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 147 THROUGH 160 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.9725 -3.5761 -7.8276 REMARK 3 T TENSOR REMARK 3 T11: 0.1679 T22: 0.0805 REMARK 3 T33: 0.0809 T12: 0.0205 REMARK 3 T13: 0.0124 T23: -0.0158 REMARK 3 L TENSOR REMARK 3 L11: 1.8027 L22: 4.9326 REMARK 3 L33: 1.5151 L12: -0.7553 REMARK 3 L13: 1.6457 L23: -0.4622 REMARK 3 S TENSOR REMARK 3 S11: 0.0017 S12: 0.1347 S13: -0.0955 REMARK 3 S21: -0.2669 S22: -0.0446 S23: -0.2430 REMARK 3 S31: 0.2014 S32: 0.1169 S33: 0.1278 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 161 THROUGH 174 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.0679 -0.0749 -1.1805 REMARK 3 T TENSOR REMARK 3 T11: 0.0740 T22: 0.1236 REMARK 3 T33: 0.0767 T12: 0.0097 REMARK 3 T13: -0.0180 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 4.2479 L22: 4.4939 REMARK 3 L33: 2.3935 L12: 1.8609 REMARK 3 L13: -0.5236 L23: 0.1113 REMARK 3 S TENSOR REMARK 3 S11: -0.1004 S12: -0.1257 S13: -0.0476 REMARK 3 S21: 0.1810 S22: 0.0046 S23: -0.3544 REMARK 3 S31: 0.1134 S32: 0.2638 S33: 0.0967 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 175 THROUGH 195 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.9146 7.4161 -2.5822 REMARK 3 T TENSOR REMARK 3 T11: 0.0840 T22: 0.1108 REMARK 3 T33: 0.0620 T12: -0.0081 REMARK 3 T13: 0.0033 T23: -0.0096 REMARK 3 L TENSOR REMARK 3 L11: 2.6681 L22: 5.0656 REMARK 3 L33: 2.7820 L12: 0.3604 REMARK 3 L13: 0.2489 L23: -0.7734 REMARK 3 S TENSOR REMARK 3 S11: 0.0187 S12: -0.1995 S13: 0.2117 REMARK 3 S21: 0.1587 S22: -0.0255 S23: -0.0392 REMARK 3 S31: -0.2304 S32: 0.1266 S33: 0.0031 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 196 THROUGH 210 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.7689 -3.5341 4.4962 REMARK 3 T TENSOR REMARK 3 T11: 0.1342 T22: 0.2860 REMARK 3 T33: 0.1423 T12: -0.0322 REMARK 3 T13: 0.0070 T23: 0.0349 REMARK 3 L TENSOR REMARK 3 L11: 2.3840 L22: 8.2690 REMARK 3 L33: 6.3538 L12: 1.0373 REMARK 3 L13: -0.6983 L23: 4.7283 REMARK 3 S TENSOR REMARK 3 S11: -0.0062 S12: -0.0375 S13: -0.0443 REMARK 3 S21: -0.1006 S22: 0.0213 S23: 0.4437 REMARK 3 S31: 0.1760 S32: -0.7774 S33: 0.0639 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 211 THROUGH 223 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0082 -6.2201 8.2239 REMARK 3 T TENSOR REMARK 3 T11: 0.1558 T22: 0.1751 REMARK 3 T33: 0.0990 T12: 0.0155 REMARK 3 T13: 0.0006 T23: 0.0411 REMARK 3 L TENSOR REMARK 3 L11: 2.7001 L22: 3.9987 REMARK 3 L33: 3.2455 L12: 0.9575 REMARK 3 L13: -0.0084 L23: 2.7706 REMARK 3 S TENSOR REMARK 3 S11: 0.0264 S12: -0.3363 S13: -0.1376 REMARK 3 S21: 0.2252 S22: 0.0590 S23: -0.4833 REMARK 3 S31: 0.3743 S32: 0.0707 S33: -0.0813 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 224 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.6961 -19.9826 7.2237 REMARK 3 T TENSOR REMARK 3 T11: 0.4018 T22: 0.3505 REMARK 3 T33: 0.5572 T12: 0.0037 REMARK 3 T13: -0.0210 T23: 0.1775 REMARK 3 L TENSOR REMARK 3 L11: 3.0425 L22: 5.3275 REMARK 3 L33: 8.8624 L12: 3.9362 REMARK 3 L13: 0.6819 L23: 1.5198 REMARK 3 S TENSOR REMARK 3 S11: 0.0859 S12: 0.0821 S13: 0.2791 REMARK 3 S21: -0.3829 S22: 0.1682 S23: 1.6206 REMARK 3 S31: -0.1514 S32: -1.1294 S33: -0.2717 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 147 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.6031 -8.5542 -30.5092 REMARK 3 T TENSOR REMARK 3 T11: 0.2347 T22: 0.1856 REMARK 3 T33: 0.1690 T12: 0.0894 REMARK 3 T13: 0.0302 T23: 0.0232 REMARK 3 L TENSOR REMARK 3 L11: 1.5256 L22: 5.6148 REMARK 3 L33: 3.6132 L12: 2.8421 REMARK 3 L13: 0.4305 L23: -0.2545 REMARK 3 S TENSOR REMARK 3 S11: 0.0997 S12: 0.1479 S13: 0.4994 REMARK 3 S21: -0.4359 S22: 0.0549 S23: 0.6606 REMARK 3 S31: -0.6168 S32: -0.8255 S33: 0.0852 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 153 THROUGH 160 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.0478 -8.2097 -16.9813 REMARK 3 T TENSOR REMARK 3 T11: 0.1776 T22: 0.0540 REMARK 3 T33: 0.1180 T12: 0.0608 REMARK 3 T13: -0.0235 T23: -0.0568 REMARK 3 L TENSOR REMARK 3 L11: 0.8946 L22: 1.7772 REMARK 3 L33: 0.7777 L12: 0.4085 REMARK 3 L13: -0.2255 L23: 0.7092 REMARK 3 S TENSOR REMARK 3 S11: 0.0026 S12: -0.1092 S13: 0.1424 REMARK 3 S21: 0.1400 S22: 0.0293 S23: 0.0469 REMARK 3 S31: -0.1044 S32: 0.0083 S33: -0.1365 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 161 THROUGH 174 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.5858 -16.5588 -21.8392 REMARK 3 T TENSOR REMARK 3 T11: 0.0592 T22: 0.1208 REMARK 3 T33: 0.1332 T12: -0.0200 REMARK 3 T13: 0.0000 T23: 0.0016 REMARK 3 L TENSOR REMARK 3 L11: 1.4417 L22: 1.6050 REMARK 3 L33: 1.2219 L12: -0.3354 REMARK 3 L13: 0.3571 L23: 0.3670 REMARK 3 S TENSOR REMARK 3 S11: 0.0335 S12: 0.0002 S13: 0.0167 REMARK 3 S21: 0.0133 S22: 0.0018 S23: 0.3299 REMARK 3 S31: 0.1415 S32: -0.4257 S33: -0.0033 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 175 THROUGH 195 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.6787 -17.8378 -28.9794 REMARK 3 T TENSOR REMARK 3 T11: 0.1121 T22: 0.0792 REMARK 3 T33: 0.1276 T12: 0.0166 REMARK 3 T13: -0.0045 T23: -0.0183 REMARK 3 L TENSOR REMARK 3 L11: 1.7576 L22: 3.8506 REMARK 3 L33: 4.2920 L12: -0.0812 REMARK 3 L13: -0.6526 L23: 1.4085 REMARK 3 S TENSOR REMARK 3 S11: 0.0785 S12: 0.2112 S13: -0.1520 REMARK 3 S21: -0.2190 S22: 0.0290 S23: -0.0905 REMARK 3 S31: 0.2412 S32: 0.0048 S33: -0.0625 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 196 THROUGH 210 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.1611 -17.0422 -15.6217 REMARK 3 T TENSOR REMARK 3 T11: 0.0891 T22: 0.0793 REMARK 3 T33: 0.1483 T12: -0.0021 REMARK 3 T13: -0.0192 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 1.3510 L22: 6.1026 REMARK 3 L33: 1.9449 L12: -0.8830 REMARK 3 L13: -0.5697 L23: 0.6602 REMARK 3 S TENSOR REMARK 3 S11: -0.1315 S12: -0.0891 S13: 0.1745 REMARK 3 S21: -0.1928 S22: 0.2420 S23: -0.2080 REMARK 3 S31: -0.1901 S32: 0.2480 S33: -0.0866 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 211 THROUGH 217 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.4338 -22.9043 -14.2124 REMARK 3 T TENSOR REMARK 3 T11: 0.1118 T22: 0.1557 REMARK 3 T33: 0.2687 T12: -0.0342 REMARK 3 T13: -0.0111 T23: 0.1012 REMARK 3 L TENSOR REMARK 3 L11: 2.1694 L22: 5.6286 REMARK 3 L33: 3.7883 L12: 2.7885 REMARK 3 L13: 1.5396 L23: 4.3262 REMARK 3 S TENSOR REMARK 3 S11: 0.0322 S12: -0.0787 S13: -0.1918 REMARK 3 S21: 0.2385 S22: 0.0012 S23: 0.2384 REMARK 3 S31: 0.4163 S32: -0.2795 S33: 0.2089 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 218 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.6612 -19.3047 -11.0249 REMARK 3 T TENSOR REMARK 3 T11: 0.1913 T22: 0.1356 REMARK 3 T33: 0.1833 T12: -0.0073 REMARK 3 T13: 0.0787 T23: 0.0203 REMARK 3 L TENSOR REMARK 3 L11: 5.8926 L22: 5.0001 REMARK 3 L33: 1.5939 L12: 4.7438 REMARK 3 L13: 1.6324 L23: 2.4739 REMARK 3 S TENSOR REMARK 3 S11: 0.1404 S12: -0.3424 S13: 0.3240 REMARK 3 S21: 0.1700 S22: -0.2370 S23: 0.2996 REMARK 3 S31: 0.2191 S32: -0.1858 S33: 0.0794 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 147 THROUGH 174 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.9012 6.3382 -17.9839 REMARK 3 T TENSOR REMARK 3 T11: 0.0593 T22: 0.0418 REMARK 3 T33: 0.1700 T12: -0.0063 REMARK 3 T13: -0.0123 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 1.9523 L22: 2.7591 REMARK 3 L33: 2.8025 L12: -0.3058 REMARK 3 L13: 0.8778 L23: 1.2065 REMARK 3 S TENSOR REMARK 3 S11: 0.0298 S12: 0.0606 S13: -0.1524 REMARK 3 S21: -0.1673 S22: 0.0187 S23: 0.2979 REMARK 3 S31: 0.0905 S32: -0.0813 S33: -0.0231 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 175 THROUGH 217 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.4978 12.3483 -18.6491 REMARK 3 T TENSOR REMARK 3 T11: 0.0644 T22: 0.1193 REMARK 3 T33: 0.1544 T12: -0.0306 REMARK 3 T13: -0.0074 T23: 0.0232 REMARK 3 L TENSOR REMARK 3 L11: 2.3517 L22: 2.6177 REMARK 3 L33: 1.7999 L12: 1.0485 REMARK 3 L13: 0.0121 L23: -0.1239 REMARK 3 S TENSOR REMARK 3 S11: -0.1687 S12: 0.2042 S13: 0.0816 REMARK 3 S21: -0.1505 S22: 0.2477 S23: 0.1063 REMARK 3 S31: -0.0185 S32: 0.0034 S33: -0.0485 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 218 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.3866 12.8502 -29.2312 REMARK 3 T TENSOR REMARK 3 T11: 0.5420 T22: 0.4060 REMARK 3 T33: 0.3095 T12: 0.1099 REMARK 3 T13: -0.0294 T23: -0.0356 REMARK 3 L TENSOR REMARK 3 L11: 4.6250 L22: 4.7273 REMARK 3 L33: 0.0511 L12: -4.5891 REMARK 3 L13: -0.4134 L23: 0.4481 REMARK 3 S TENSOR REMARK 3 S11: 0.3226 S12: 0.9644 S13: -0.3764 REMARK 3 S21: -0.7183 S22: -0.5769 S23: 0.0840 REMARK 3 S31: 0.0756 S32: -0.2016 S33: 0.3477 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 148 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.1509 -7.6305 -28.3191 REMARK 3 T TENSOR REMARK 3 T11: 0.2198 T22: 0.3827 REMARK 3 T33: 0.1040 T12: -0.1330 REMARK 3 T13: 0.0062 T23: 0.1270 REMARK 3 L TENSOR REMARK 3 L11: 1.0733 L22: 2.8416 REMARK 3 L33: 4.5552 L12: 0.8255 REMARK 3 L13: -2.2007 L23: -2.0006 REMARK 3 S TENSOR REMARK 3 S11: 0.0556 S12: -0.3028 S13: -0.0287 REMARK 3 S21: 0.1654 S22: -0.1951 S23: -0.2009 REMARK 3 S31: -0.1490 S32: 0.5451 S33: 0.1293 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 153 THROUGH 160 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.9601 4.3282 -34.2163 REMARK 3 T TENSOR REMARK 3 T11: 0.1600 T22: 0.2515 REMARK 3 T33: 0.1019 T12: -0.0902 REMARK 3 T13: 0.0448 T23: -0.0493 REMARK 3 L TENSOR REMARK 3 L11: 3.9059 L22: 6.3211 REMARK 3 L33: 6.0834 L12: -1.5627 REMARK 3 L13: -1.8897 L23: -1.3550 REMARK 3 S TENSOR REMARK 3 S11: 0.1294 S12: -0.3576 S13: 0.1869 REMARK 3 S21: 0.4011 S22: 0.1298 S23: 0.3015 REMARK 3 S31: -0.4438 S32: -0.0143 S33: -0.2916 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 161 THROUGH 174 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.5612 -3.7419 -38.2405 REMARK 3 T TENSOR REMARK 3 T11: 0.0848 T22: 0.2990 REMARK 3 T33: 0.1012 T12: -0.0399 REMARK 3 T13: -0.0054 T23: 0.0495 REMARK 3 L TENSOR REMARK 3 L11: 2.2734 L22: 1.5995 REMARK 3 L33: 0.3334 L12: -1.1130 REMARK 3 L13: -0.1071 L23: 0.3893 REMARK 3 S TENSOR REMARK 3 S11: -0.0067 S12: -0.1874 S13: 0.1400 REMARK 3 S21: -0.0332 S22: 0.0435 S23: -0.1637 REMARK 3 S31: -0.0285 S32: 0.2158 S33: 0.1167 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 175 THROUGH 195 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.3990 -11.6576 -36.9664 REMARK 3 T TENSOR REMARK 3 T11: 0.1040 T22: 0.2929 REMARK 3 T33: 0.1355 T12: -0.0103 REMARK 3 T13: 0.0170 T23: 0.0793 REMARK 3 L TENSOR REMARK 3 L11: 1.6494 L22: 7.4600 REMARK 3 L33: 1.5668 L12: -1.5469 REMARK 3 L13: -0.1418 L23: 1.9662 REMARK 3 S TENSOR REMARK 3 S11: -0.0108 S12: -0.1799 S13: -0.1825 REMARK 3 S21: 0.0496 S22: -0.0580 S23: -0.1782 REMARK 3 S31: 0.0050 S32: 0.3285 S33: 0.0890 REMARK 3 TLS GROUP : 21 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 196 THROUGH 205 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.9584 1.1872 -41.5521 REMARK 3 T TENSOR REMARK 3 T11: 0.1222 T22: 0.2038 REMARK 3 T33: 0.1346 T12: -0.0196 REMARK 3 T13: 0.0453 T23: -0.0172 REMARK 3 L TENSOR REMARK 3 L11: 4.4248 L22: 6.8963 REMARK 3 L33: 8.3714 L12: -0.4326 REMARK 3 L13: 2.8797 L23: 3.7993 REMARK 3 S TENSOR REMARK 3 S11: 0.0204 S12: -0.3786 S13: 0.0593 REMARK 3 S21: 0.4360 S22: 0.0272 S23: 0.4478 REMARK 3 S31: -0.0298 S32: -0.2108 S33: -0.0704 REMARK 3 TLS GROUP : 22 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 206 THROUGH 221 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.7465 -0.4086 -48.2035 REMARK 3 T TENSOR REMARK 3 T11: 0.1080 T22: 0.2634 REMARK 3 T33: 0.1156 T12: -0.0418 REMARK 3 T13: 0.0019 T23: 0.0412 REMARK 3 L TENSOR REMARK 3 L11: 3.8002 L22: 5.9311 REMARK 3 L33: 2.1532 L12: -0.0105 REMARK 3 L13: 0.0995 L23: 1.5948 REMARK 3 S TENSOR REMARK 3 S11: 0.1011 S12: 0.3016 S13: 0.0990 REMARK 3 S21: -0.2583 S22: 0.0538 S23: -0.4206 REMARK 3 S31: -0.2478 S32: 0.3619 S33: -0.1004 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 4IPY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000077061. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9725 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40722 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 19.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : 0.04600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1A8O REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RESERVOIR CONTAINED 0.2 M MAGNESIUM REMARK 280 FORMATE DIHYDRATE (PH 7.0) AND 20% (W/V) POLYETHYLENE GLYCOL REMARK 280 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 145 REMARK 465 SER A 146 REMARK 465 MET B 145 REMARK 465 SER B 146 REMARK 465 MET C 145 REMARK 465 SER C 146 REMARK 465 MET D 145 REMARK 465 SER D 146 REMARK 465 GLY D 222 REMARK 465 GLY D 223 REMARK 465 PRO D 224 REMARK 465 GLY D 225 REMARK 465 HIS D 226 REMARK 465 LYS D 227 REMARK 465 ALA D 228 REMARK 465 ARG D 229 REMARK 465 VAL D 230 REMARK 465 LEU D 231 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 VAL A 230 113.65 -164.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A8O RELATED DB: PDB REMARK 900 HIV CAPSID C-TERMINAL DOMAIN CRYSTALLISED WITH ONE MOLECULE IN REMARK 900 ASYMMETRIC UNIT DBREF 4IPY A 146 231 UNP P12497 POL_HV1N5 278 363 DBREF 4IPY B 146 231 UNP P12497 POL_HV1N5 278 363 DBREF 4IPY C 146 231 UNP P12497 POL_HV1N5 278 363 DBREF 4IPY D 146 231 UNP P12497 POL_HV1N5 278 363 SEQADV 4IPY MET A 145 UNP P12497 EXPRESSION TAG SEQADV 4IPY MET B 145 UNP P12497 EXPRESSION TAG SEQADV 4IPY MET C 145 UNP P12497 EXPRESSION TAG SEQADV 4IPY MET D 145 UNP P12497 EXPRESSION TAG SEQRES 1 A 87 MET SER PRO THR SER ILE LEU ASP ILE ARG GLN GLY PRO SEQRES 2 A 87 LYS GLU PRO PHE ARG ASP TYR VAL ASP ARG PHE TYR LYS SEQRES 3 A 87 THR LEU ARG ALA GLU GLN ALA SER GLN GLU VAL LYS ASN SEQRES 4 A 87 TRP MET THR GLU THR LEU LEU VAL GLN ASN ALA ASN PRO SEQRES 5 A 87 ASP CYS LYS THR ILE LEU LYS ALA LEU GLY PRO GLY ALA SEQRES 6 A 87 THR LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL GLY SEQRES 7 A 87 GLY PRO GLY HIS LYS ALA ARG VAL LEU SEQRES 1 B 87 MET SER PRO THR SER ILE LEU ASP ILE ARG GLN GLY PRO SEQRES 2 B 87 LYS GLU PRO PHE ARG ASP TYR VAL ASP ARG PHE TYR LYS SEQRES 3 B 87 THR LEU ARG ALA GLU GLN ALA SER GLN GLU VAL LYS ASN SEQRES 4 B 87 TRP MET THR GLU THR LEU LEU VAL GLN ASN ALA ASN PRO SEQRES 5 B 87 ASP CYS LYS THR ILE LEU LYS ALA LEU GLY PRO GLY ALA SEQRES 6 B 87 THR LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL GLY SEQRES 7 B 87 GLY PRO GLY HIS LYS ALA ARG VAL LEU SEQRES 1 C 87 MET SER PRO THR SER ILE LEU ASP ILE ARG GLN GLY PRO SEQRES 2 C 87 LYS GLU PRO PHE ARG ASP TYR VAL ASP ARG PHE TYR LYS SEQRES 3 C 87 THR LEU ARG ALA GLU GLN ALA SER GLN GLU VAL LYS ASN SEQRES 4 C 87 TRP MET THR GLU THR LEU LEU VAL GLN ASN ALA ASN PRO SEQRES 5 C 87 ASP CYS LYS THR ILE LEU LYS ALA LEU GLY PRO GLY ALA SEQRES 6 C 87 THR LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL GLY SEQRES 7 C 87 GLY PRO GLY HIS LYS ALA ARG VAL LEU SEQRES 1 D 87 MET SER PRO THR SER ILE LEU ASP ILE ARG GLN GLY PRO SEQRES 2 D 87 LYS GLU PRO PHE ARG ASP TYR VAL ASP ARG PHE TYR LYS SEQRES 3 D 87 THR LEU ARG ALA GLU GLN ALA SER GLN GLU VAL LYS ASN SEQRES 4 D 87 TRP MET THR GLU THR LEU LEU VAL GLN ASN ALA ASN PRO SEQRES 5 D 87 ASP CYS LYS THR ILE LEU LYS ALA LEU GLY PRO GLY ALA SEQRES 6 D 87 THR LEU GLU GLU MET MET THR ALA CYS GLN GLY VAL GLY SEQRES 7 D 87 GLY PRO GLY HIS LYS ALA ARG VAL LEU HET EDO A 301 8 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 EDO C2 H6 O2 FORMUL 6 HOH *346(H2 O) HELIX 1 1 SER A 149 ILE A 153 5 5 HELIX 2 2 PRO A 160 GLU A 175 1 16 HELIX 3 3 SER A 178 THR A 188 1 11 HELIX 4 4 THR A 188 ASN A 193 1 6 HELIX 5 5 ASN A 195 GLY A 206 1 12 HELIX 6 6 THR A 210 GLN A 219 1 10 HELIX 7 7 GLY A 223 VAL A 230 1 8 HELIX 8 8 SER B 149 ILE B 153 5 5 HELIX 9 9 PRO B 160 GLU B 175 1 16 HELIX 10 10 SER B 178 THR B 188 1 11 HELIX 11 11 THR B 188 ASN B 193 1 6 HELIX 12 12 ASN B 195 LEU B 205 1 11 HELIX 13 13 THR B 210 CYS B 218 1 9 HELIX 14 14 SER C 149 ILE C 153 5 5 HELIX 15 15 PRO C 160 GLU C 175 1 16 HELIX 16 16 SER C 178 THR C 188 1 11 HELIX 17 17 THR C 188 ASN C 193 1 6 HELIX 18 18 ASN C 195 LEU C 205 1 11 HELIX 19 19 THR C 210 GLN C 219 1 10 HELIX 20 20 SER D 149 ILE D 153 5 5 HELIX 21 21 PRO D 160 GLU D 175 1 16 HELIX 22 22 SER D 178 THR D 188 1 11 HELIX 23 23 THR D 188 ASN D 193 1 6 HELIX 24 24 ASN D 195 GLY D 206 1 12 HELIX 25 25 THR D 210 GLN D 219 1 10 SSBOND 1 CYS A 198 CYS A 218 1555 1555 2.03 SSBOND 2 CYS B 198 CYS B 218 1555 1555 2.04 SSBOND 3 CYS C 198 CYS C 218 1555 1555 2.03 SSBOND 4 CYS D 198 CYS D 218 1555 1555 2.03 CISPEP 1 VAL A 230 LEU A 231 0 -3.96 CISPEP 2 GLY B 222 GLY B 223 0 8.28 CISPEP 3 GLY C 222 GLY C 223 0 -1.01 SITE 1 AC1 8 LEU A 202 LYS A 203 GLY A 206 ALA A 209 SITE 2 AC1 8 MET A 214 HOH A 410 HOH A 425 HOH A 453 CRYST1 40.141 43.578 55.189 74.02 74.21 69.77 P 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 0.024912 -0.009183 -0.005312 0.00000 SCALE2 0.000000 0.024457 -0.005008 0.00000 SCALE3 0.000000 0.000000 0.019221 0.00000