HEADER TRANSPORT PROTEIN 11-JAN-11 3QAP TITLE CRYSTAL STRUCTURE OF NATRONOMONAS PHARAONIS SENSORY RHODOPSIN II IN TITLE 2 THE GROUND STATE CAVEAT 3QAP THR A 218 HAS WRONG CHIRALITY AT ATOM CB COMPND MOL_ID: 1; COMPND 2 MOLECULE: SENSORY RHODOPSIN-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SENSORY RHODOPSIN II, SR-II; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NATRONOMONAS PHARAONIS; SOURCE 3 ORGANISM_COMMON: NATRONOBACTERIUM PHARAONIS; SOURCE 4 ORGANISM_TAXID: 2257; SOURCE 5 GENE: SOP2, SOPII; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PHOTOTAXIS, NPHTRII, MEMBRANE, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR I.GUSHCHIN,A.RESHETNYAK,V.BORSHCHEVSKIY,A.ISHCHENKO,E.ROUND, AUTHOR 2 S.GRUDININ,M.ENGELHARD,G.BULDT,V.GORDELIY REVDAT 4 21-FEB-24 3QAP 1 REMARK HETSYN REVDAT 3 29-JUL-20 3QAP 1 CAVEAT COMPND REMARK HETNAM REVDAT 3 2 1 SITE REVDAT 2 28-SEP-11 3QAP 1 JRNL REVDAT 1 14-SEP-11 3QAP 0 JRNL AUTH I.GUSHCHIN,A.RESHETNYAK,V.BORSHCHEVSKIY,A.ISHCHENKO,E.ROUND, JRNL AUTH 2 S.GRUDININ,M.ENGELHARD,G.BULDT,V.GORDELIY JRNL TITL ACTIVE STATE OF SENSORY RHODOPSIN II: STRUCTURAL JRNL TITL 2 DETERMINANTS FOR SIGNAL TRANSFER AND PROTON PUMPING. JRNL REF J.MOL.BIOL. V. 412 591 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21840321 JRNL DOI 10.1016/J.JMB.2011.07.022 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 20672 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1107 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1464 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2010 REMARK 3 BIN FREE R VALUE SET COUNT : 103 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1633 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 375 REMARK 3 SOLVENT ATOMS : 73 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.61000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : -0.44000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.109 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.589 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2090 ; 0.013 ; 0.023 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2750 ; 1.248 ; 2.081 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 240 ; 4.049 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 50 ;32.410 ;20.200 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 258 ;12.940 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;22.041 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 319 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1299 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1113 ; 0.628 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1798 ; 0.997 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 977 ; 1.331 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 942 ; 1.974 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 12 REMARK 3 ORIGIN FOR THE GROUP (A): 3.9460 40.0820 -6.9220 REMARK 3 T TENSOR REMARK 3 T11: 0.0573 T22: 0.1740 REMARK 3 T33: 0.0842 T12: 0.0390 REMARK 3 T13: -0.0440 T23: 0.0033 REMARK 3 L TENSOR REMARK 3 L11: 6.8731 L22: 6.4697 REMARK 3 L33: 6.6613 L12: 4.1925 REMARK 3 L13: -0.5368 L23: 1.4686 REMARK 3 S TENSOR REMARK 3 S11: -0.1885 S12: 0.0443 S13: 0.5141 REMARK 3 S21: -0.1677 S22: 0.2129 S23: 0.3757 REMARK 3 S31: -0.4246 S32: -0.2688 S33: -0.0244 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 13 A 35 REMARK 3 ORIGIN FOR THE GROUP (A): -0.4620 19.4190 -3.1490 REMARK 3 T TENSOR REMARK 3 T11: 0.0610 T22: 0.2183 REMARK 3 T33: 0.1210 T12: -0.0854 REMARK 3 T13: -0.0285 T23: 0.0075 REMARK 3 L TENSOR REMARK 3 L11: 3.1178 L22: 9.0898 REMARK 3 L33: 4.5816 L12: 1.6088 REMARK 3 L13: 0.6199 L23: -3.7169 REMARK 3 S TENSOR REMARK 3 S11: 0.1224 S12: -0.1766 S13: -0.2836 REMARK 3 S21: -0.3665 S22: 0.1190 S23: 0.5617 REMARK 3 S31: 0.4930 S32: -0.4731 S33: -0.2415 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 36 A 55 REMARK 3 ORIGIN FOR THE GROUP (A): 2.6160 26.7640 1.1160 REMARK 3 T TENSOR REMARK 3 T11: 0.0202 T22: 0.2079 REMARK 3 T33: 0.0284 T12: -0.0210 REMARK 3 T13: 0.0091 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 2.0395 L22: 8.9014 REMARK 3 L33: 2.4648 L12: -1.6566 REMARK 3 L13: 0.6347 L23: -1.0128 REMARK 3 S TENSOR REMARK 3 S11: 0.0811 S12: 0.0016 S13: -0.1148 REMARK 3 S21: 0.1351 S22: -0.0629 S23: 0.4426 REMARK 3 S31: 0.1674 S32: -0.3966 S33: -0.0181 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 56 A 66 REMARK 3 ORIGIN FOR THE GROUP (A): 8.4990 47.3260 4.9850 REMARK 3 T TENSOR REMARK 3 T11: 0.3816 T22: 0.1775 REMARK 3 T33: 0.3409 T12: 0.0981 REMARK 3 T13: -0.1509 T23: 0.0098 REMARK 3 L TENSOR REMARK 3 L11: 6.2126 L22: 3.5241 REMARK 3 L33: 8.7658 L12: 4.4237 REMARK 3 L13: 3.7615 L23: 4.1825 REMARK 3 S TENSOR REMARK 3 S11: 0.0221 S12: -0.1979 S13: 0.4368 REMARK 3 S21: -0.0070 S22: -0.2026 S23: 0.2600 REMARK 3 S31: -0.3619 S32: -0.2597 S33: 0.1806 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 67 A 73 REMARK 3 ORIGIN FOR THE GROUP (A): 10.3180 40.6030 4.7060 REMARK 3 T TENSOR REMARK 3 T11: 0.1539 T22: 0.2097 REMARK 3 T33: 0.0995 T12: 0.0310 REMARK 3 T13: -0.0069 T23: -0.0293 REMARK 3 L TENSOR REMARK 3 L11: 7.3298 L22: 0.8355 REMARK 3 L33: 6.9996 L12: -1.4420 REMARK 3 L13: 6.8083 L23: -0.7362 REMARK 3 S TENSOR REMARK 3 S11: -0.3394 S12: 0.0853 S13: 0.4314 REMARK 3 S21: -0.0739 S22: -0.1108 S23: -0.0223 REMARK 3 S31: -0.4485 S32: 0.0103 S33: 0.4502 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 74 A 92 REMARK 3 ORIGIN FOR THE GROUP (A): 10.7420 21.8060 6.1570 REMARK 3 T TENSOR REMARK 3 T11: 0.0815 T22: 0.1089 REMARK 3 T33: 0.0273 T12: -0.0333 REMARK 3 T13: -0.0007 T23: 0.0161 REMARK 3 L TENSOR REMARK 3 L11: 0.8975 L22: 9.7800 REMARK 3 L33: 2.2620 L12: -1.6091 REMARK 3 L13: 0.1104 L23: 1.0095 REMARK 3 S TENSOR REMARK 3 S11: 0.0150 S12: -0.1807 S13: -0.0700 REMARK 3 S21: 0.2910 S22: 0.0206 S23: 0.1632 REMARK 3 S31: 0.3286 S32: -0.2358 S33: -0.0357 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 93 A 98 REMARK 3 ORIGIN FOR THE GROUP (A): 17.3820 12.4480 14.4850 REMARK 3 T TENSOR REMARK 3 T11: 0.5197 T22: 0.0756 REMARK 3 T33: 0.0653 T12: 0.0298 REMARK 3 T13: -0.0231 T23: -0.0174 REMARK 3 L TENSOR REMARK 3 L11: 3.6810 L22: 10.3004 REMARK 3 L33: 13.1848 L12: 3.1523 REMARK 3 L13: 1.3372 L23: 10.9683 REMARK 3 S TENSOR REMARK 3 S11: 0.1868 S12: -0.2831 S13: -0.3264 REMARK 3 S21: 0.9979 S22: -0.2875 S23: -0.1069 REMARK 3 S31: 1.1901 S32: -0.1550 S33: 0.1008 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 99 A 126 REMARK 3 ORIGIN FOR THE GROUP (A): 19.2850 35.3160 12.5130 REMARK 3 T TENSOR REMARK 3 T11: 0.0909 T22: 0.1185 REMARK 3 T33: 0.0072 T12: 0.0294 REMARK 3 T13: -0.0007 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 1.0037 L22: 4.8650 REMARK 3 L33: 1.8886 L12: 0.8410 REMARK 3 L13: 0.2320 L23: 0.0241 REMARK 3 S TENSOR REMARK 3 S11: 0.0066 S12: 0.0001 S13: 0.0636 REMARK 3 S21: 0.2078 S22: -0.0588 S23: 0.1465 REMARK 3 S31: -0.1196 S32: 0.0218 S33: 0.0523 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 127 A 149 REMARK 3 ORIGIN FOR THE GROUP (A): 24.2490 20.9930 7.7050 REMARK 3 T TENSOR REMARK 3 T11: 0.1672 T22: 0.1574 REMARK 3 T33: 0.0795 T12: 0.0502 REMARK 3 T13: -0.0384 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 0.0864 L22: 7.6254 REMARK 3 L33: 2.2274 L12: 0.6726 REMARK 3 L13: 0.3406 L23: 2.8551 REMARK 3 S TENSOR REMARK 3 S11: 0.0730 S12: 0.0124 S13: -0.0344 REMARK 3 S21: 0.0662 S22: -0.0369 S23: -0.1980 REMARK 3 S31: 0.2787 S32: 0.2104 S33: -0.0362 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 150 A 157 REMARK 3 ORIGIN FOR THE GROUP (A): 17.3370 4.4590 0.0640 REMARK 3 T TENSOR REMARK 3 T11: 0.2249 T22: 0.0312 REMARK 3 T33: 0.1001 T12: 0.0255 REMARK 3 T13: 0.0002 T23: -0.0511 REMARK 3 L TENSOR REMARK 3 L11: 10.4021 L22: 17.9186 REMARK 3 L33: 16.5429 L12: 1.5907 REMARK 3 L13: 1.3204 L23: -2.8160 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: 0.0314 S13: -0.0936 REMARK 3 S21: 0.0052 S22: -0.0466 S23: -0.0563 REMARK 3 S31: 0.4465 S32: 0.1977 S33: 0.0579 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 158 A 175 REMARK 3 ORIGIN FOR THE GROUP (A): 19.2200 21.1550 -2.2130 REMARK 3 T TENSOR REMARK 3 T11: 0.1138 T22: 0.1428 REMARK 3 T33: 0.0363 T12: 0.0457 REMARK 3 T13: -0.0095 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 0.7797 L22: 7.5638 REMARK 3 L33: 1.8896 L12: 1.0038 REMARK 3 L13: 0.3333 L23: 0.6630 REMARK 3 S TENSOR REMARK 3 S11: 0.0920 S12: 0.0843 S13: -0.0353 REMARK 3 S21: -0.2232 S22: -0.0945 S23: -0.0381 REMARK 3 S31: 0.3124 S32: 0.1233 S33: 0.0025 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 176 A 191 REMARK 3 ORIGIN FOR THE GROUP (A): 21.0000 42.6190 -0.5430 REMARK 3 T TENSOR REMARK 3 T11: 0.1807 T22: 0.2058 REMARK 3 T33: 0.0792 T12: -0.0230 REMARK 3 T13: -0.0266 T23: 0.0211 REMARK 3 L TENSOR REMARK 3 L11: 1.6839 L22: 3.6428 REMARK 3 L33: 0.9553 L12: -0.0226 REMARK 3 L13: -1.0018 L23: -0.0733 REMARK 3 S TENSOR REMARK 3 S11: 0.0443 S12: 0.0210 S13: 0.0396 REMARK 3 S21: 0.1214 S22: -0.1033 S23: -0.1483 REMARK 3 S31: -0.1994 S32: 0.1904 S33: 0.0590 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 192 A 212 REMARK 3 ORIGIN FOR THE GROUP (A): 11.7560 28.9530 -5.9960 REMARK 3 T TENSOR REMARK 3 T11: 0.0277 T22: 0.1238 REMARK 3 T33: 0.0172 T12: 0.0141 REMARK 3 T13: -0.0023 T23: -0.0083 REMARK 3 L TENSOR REMARK 3 L11: 1.1359 L22: 3.6939 REMARK 3 L33: 2.6782 L12: 0.7173 REMARK 3 L13: 0.9431 L23: 0.7717 REMARK 3 S TENSOR REMARK 3 S11: 0.0973 S12: 0.0629 S13: 0.0186 REMARK 3 S21: -0.1366 S22: -0.0881 S23: 0.1594 REMARK 3 S31: 0.1380 S32: -0.0595 S33: -0.0091 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 213 A 219 REMARK 3 ORIGIN FOR THE GROUP (A): 7.3820 9.5410 -8.8730 REMARK 3 T TENSOR REMARK 3 T11: 0.5729 T22: 0.2254 REMARK 3 T33: 0.3411 T12: 0.0163 REMARK 3 T13: -0.2471 T23: -0.1358 REMARK 3 L TENSOR REMARK 3 L11: 8.5085 L22: 48.0854 REMARK 3 L33: 9.8817 L12: -7.2591 REMARK 3 L13: -0.5897 L23: 8.0047 REMARK 3 S TENSOR REMARK 3 S11: 0.3968 S12: 0.5244 S13: -1.4646 REMARK 3 S21: -0.4106 S22: -0.0308 S23: 0.7233 REMARK 3 S31: 1.3325 S32: -0.3011 S33: -0.3661 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3QAP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063406. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20672 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 22.110 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1M NA/KPI, 0.3M TREHALOSE, PH 5.1, REMARK 280 LIPIDIC CUBIC PHASE, TEMPERATURE 295.5K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 25.31500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 25.31500 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 1.000000 0.000000 0.000000 43.49500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.04500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.49500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.04500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 25.31500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.49500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.04500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 25.31500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.49500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.04500 REMARK 290 SMTRY3 8 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: MONOMERIC 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 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 ARG A 220 REMARK 465 ALA A 221 REMARK 465 GLU A 222 REMARK 465 HIS A 223 REMARK 465 GLY A 224 REMARK 465 GLU A 225 REMARK 465 SER A 226 REMARK 465 LEU A 227 REMARK 465 ALA A 228 REMARK 465 GLY A 229 REMARK 465 VAL A 230 REMARK 465 ASP A 231 REMARK 465 THR A 232 REMARK 465 ASP A 233 REMARK 465 ALA A 234 REMARK 465 PRO A 235 REMARK 465 ALA A 236 REMARK 465 VAL A 237 REMARK 465 ALA A 238 REMARK 465 ASP A 239 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 MET A 1 CG SD CE REMARK 470 VAL A 2 CG1 CG2 REMARK 470 ARG A 34 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 94 CG OD1 OD2 REMARK 470 GLU A 97 CG CD OE1 OE2 REMARK 470 GLU A 147 CD OE1 OE2 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 218 OG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NZ LYS A 205 C15 RET A 240 1.65 REMARK 500 O HOH A 330 O HOH A 335 2.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 THR A 218 CB THR A 218 OG1 -0.272 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 THR A 218 OG1 - CB - CG2 ANGL. DEV. = 32.3 DEGREES 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 ALA A 64 -118.57 51.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 RET A 240 REMARK 610 LFA A 242 REMARK 610 LFA A 243 REMARK 610 LFA A 244 REMARK 610 LFA A 245 REMARK 610 LFA A 246 REMARK 610 LFA A 247 REMARK 610 LFA A 248 REMARK 610 LFA A 249 REMARK 610 LFA A 250 REMARK 610 LFA A 251 REMARK 610 LFA A 252 REMARK 610 LFA A 253 REMARK 610 LFA A 254 REMARK 610 LFA A 255 REMARK 610 LFA A 256 REMARK 610 LFA A 258 REMARK 610 LFA A 259 REMARK 610 L2P A 260 REMARK 610 LFA A 261 REMARK 610 LFA A 262 REMARK 610 LFA A 263 REMARK 610 LFA A 264 REMARK 610 LFA A 265 REMARK 610 LFA A 266 REMARK 610 LFA A 268 REMARK 610 LFA A 269 REMARK 610 LFA A 270 REMARK 610 LFA A 272 DBREF 3QAP A 1 239 UNP P42196 BACS2_NATPH 1 239 SEQRES 1 A 239 MET VAL GLY LEU THR THR LEU PHE TRP LEU GLY ALA ILE SEQRES 2 A 239 GLY MET LEU VAL GLY THR LEU ALA PHE ALA TRP ALA GLY SEQRES 3 A 239 ARG ASP ALA GLY SER GLY GLU ARG ARG TYR TYR VAL THR SEQRES 4 A 239 LEU VAL GLY ILE SER GLY ILE ALA ALA VAL ALA TYR VAL SEQRES 5 A 239 VAL MET ALA LEU GLY VAL GLY TRP VAL PRO VAL ALA GLU SEQRES 6 A 239 ARG THR VAL PHE ALA PRO ARG TYR ILE ASP TRP ILE LEU SEQRES 7 A 239 THR THR PRO LEU ILE VAL TYR PHE LEU GLY LEU LEU ALA SEQRES 8 A 239 GLY LEU ASP SER ARG GLU PHE GLY ILE VAL ILE THR LEU SEQRES 9 A 239 ASN THR VAL VAL MET LEU ALA GLY PHE ALA GLY ALA MET SEQRES 10 A 239 VAL PRO GLY ILE GLU ARG TYR ALA LEU PHE GLY MET GLY SEQRES 11 A 239 ALA VAL ALA PHE LEU GLY LEU VAL TYR TYR LEU VAL GLY SEQRES 12 A 239 PRO MET THR GLU SER ALA SER GLN ARG SER SER GLY ILE SEQRES 13 A 239 LYS SER LEU TYR VAL ARG LEU ARG ASN LEU THR VAL ILE SEQRES 14 A 239 LEU TRP ALA ILE TYR PRO PHE ILE TRP LEU LEU GLY PRO SEQRES 15 A 239 PRO GLY VAL ALA LEU LEU THR PRO THR VAL ASP VAL ALA SEQRES 16 A 239 LEU ILE VAL TYR LEU ASP LEU VAL THR LYS VAL GLY PHE SEQRES 17 A 239 GLY PHE ILE ALA LEU ASP ALA ALA ALA THR LEU ARG ALA SEQRES 18 A 239 GLU HIS GLY GLU SER LEU ALA GLY VAL ASP THR ASP ALA SEQRES 19 A 239 PRO ALA VAL ALA ASP HET RET A 240 20 HET BOG A 241 20 HET LFA A 242 10 HET LFA A 243 6 HET LFA A 244 10 HET LFA A 245 6 HET LFA A 246 8 HET LFA A 247 5 HET LFA A 248 7 HET LFA A 249 5 HET LFA A 250 9 HET LFA A 251 16 HET LFA A 252 12 HET LFA A 253 6 HET LFA A 254 16 HET LFA A 255 14 HET LFA A 256 5 HET L2P A 257 46 HET LFA A 258 6 HET LFA A 259 4 HET L2P A 260 20 HET LFA A 261 14 HET LFA A 262 6 HET LFA A 263 10 HET LFA A 264 9 HET LFA A 265 8 HET LFA A 266 10 HET LFA A 267 20 HET LFA A 268 7 HET LFA A 269 4 HET LFA A 270 4 HET LFA A 271 20 HET LFA A 272 12 HETNAM RET RETINAL HETNAM BOG OCTYL BETA-D-GLUCOPYRANOSIDE HETNAM LFA EICOSANE HETNAM L2P 2,3-DI-PHYTANYL-GLYCEROL HETSYN BOG BETA-OCTYLGLUCOSIDE; OCTYL BETA-D-GLUCOSIDE; OCTYL D- HETSYN 2 BOG GLUCOSIDE; OCTYL GLUCOSIDE HETSYN LFA LIPID FRAGMENT HETSYN L2P 1,2-DI-1-(3,7,11,15-TETRAMETHYL-HEXADECANE)-SN-GLYCEROL FORMUL 2 RET C20 H28 O FORMUL 3 BOG C14 H28 O6 FORMUL 4 LFA 29(C20 H42) FORMUL 19 L2P 2(C43 H88 O3) FORMUL 35 HOH *73(H2 O) HELIX 1 1 MET A 1 ARG A 27 1 27 HELIX 2 2 GLU A 33 LEU A 56 1 24 HELIX 3 3 ALA A 70 GLY A 92 1 23 HELIX 4 4 ASP A 94 VAL A 118 1 25 HELIX 5 5 GLU A 122 GLY A 143 1 22 HELIX 6 6 GLY A 143 SER A 150 1 8 HELIX 7 7 SER A 153 ALA A 172 1 20 HELIX 8 8 ALA A 172 GLY A 181 1 10 HELIX 9 9 THR A 189 LEU A 219 1 31 SHEET 1 A 2 TRP A 60 VAL A 63 0 SHEET 2 A 2 ARG A 66 PHE A 69 -1 O VAL A 68 N VAL A 61 CRYST1 86.990 128.090 50.630 90.00 90.00 90.00 C 2 2 21 8 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 0.011496 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007807 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019751 0.00000