HEADER TRANSCRIPTION 16-JUL-15 5CM3 TITLE CRYSTAL STRUCTURE OF KORA, A PLASMID-ENCODED, GLOBAL TRANSCRIPTION TITLE 2 REGULATOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRFB TRANSCRIPTIONAL REPRESSOR PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: KORA, UNP RESIODUES 1-97; COMPND 5 SYNONYM: REGULATORY PROTEIN KORA, A6H992 P03052 KORA REPRESSOR COMPND 6 PROTEIN; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-D(CP*CP*AP*AP*GP*TP*TP*TP*AP*GP*CP*TP*AP*AP*AP*CP*TP*TP* COMPND 10 GP*GP*)-3'; COMPND 11 CHAIN: C, D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: TRFB, KORA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A DERIVATIVE PGBT340; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 12 ORGANISM_TAXID: 562 KEYWDS HELIX-TURN-HELIX, DNA COMPLEX, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR S.A.WHITE,E.I.HYDE,K.V.RAJASEKAR REVDAT 3 10-JAN-24 5CM3 1 REMARK REVDAT 2 15-JUN-16 5CM3 1 JRNL REVDAT 1 06-APR-16 5CM3 0 JRNL AUTH K.V.RAJASEKAR,A.L.LOVERING,F.DANCEA,D.J.SCOTT,S.A.HARRIS, JRNL AUTH 2 L.E.BINGLE,M.ROESSLE,C.M.THOMAS,E.I.HYDE,S.A.WHITE JRNL TITL FLEXIBILITY OF KORA, A PLASMID-ENCODED, GLOBAL TRANSCRIPTION JRNL TITL 2 REGULATOR, IN THE PRESENCE AND THE ABSENCE OF ITS OPERATOR. JRNL REF NUCLEIC ACIDS RES. V. 44 4947 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27016739 JRNL DOI 10.1093/NAR/GKW191 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.E.BINGLE,K.V.RAJASEKAR,S.T.MUNTAHA,V.NADELLA,E.I.HYDE, REMARK 1 AUTH 2 C.M.THOMAS REMARK 1 TITL A SINGLE AROMATIC RESIDUE IN TRANSCRIPTIONAL REPRESSOR REMARK 1 TITL 2 PROTEIN KORA IS CRITICAL FOR COOPERATIVITY WITH ITS REMARK 1 TITL 3 CO-REGULATOR KORB. REMARK 1 REF MOL. MICROBIOL. V. 70 1502 2008 REMARK 1 REFN ESSN 1365-2958 REMARK 1 PMID 19019158 REMARK 1 DOI 10.1111/J.1365-2958.2008.06498.X REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2_1309 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.450 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 19882 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 995 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 23.4600 - 4.3958 0.95 2679 121 0.1586 0.1754 REMARK 3 2 4.3958 - 3.4928 0.99 2750 154 0.1657 0.2137 REMARK 3 3 3.4928 - 3.0524 0.99 2729 131 0.1962 0.2433 REMARK 3 4 3.0524 - 2.7738 0.99 2724 148 0.2342 0.2869 REMARK 3 5 2.7738 - 2.5752 0.99 2747 151 0.2450 0.2909 REMARK 3 6 2.5752 - 2.4236 0.98 2710 156 0.2594 0.2879 REMARK 3 7 2.4236 - 2.3023 0.93 2548 134 0.2776 0.3066 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) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.770 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.45 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 : 0.011 2413 REMARK 3 ANGLE : 1.482 3428 REMARK 3 CHIRALITY : 0.064 383 REMARK 3 PLANARITY : 0.006 309 REMARK 3 DIHEDRAL : 23.895 954 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 20 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:12) REMARK 3 ORIGIN FOR THE GROUP (A): -18.0293 11.6095 8.7061 REMARK 3 T TENSOR REMARK 3 T11: 0.4497 T22: 0.8859 REMARK 3 T33: 0.5796 T12: 0.1277 REMARK 3 T13: -0.0185 T23: 0.0432 REMARK 3 L TENSOR REMARK 3 L11: 4.7354 L22: 2.0538 REMARK 3 L33: 7.7965 L12: -3.0153 REMARK 3 L13: -0.0083 L23: -1.3846 REMARK 3 S TENSOR REMARK 3 S11: -0.2412 S12: 0.4697 S13: 0.7377 REMARK 3 S21: 0.2289 S22: 0.3129 S23: -0.4786 REMARK 3 S31: -0.4908 S32: -0.7211 S33: 0.2232 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 13:25) REMARK 3 ORIGIN FOR THE GROUP (A): -12.3113 0.1929 11.0630 REMARK 3 T TENSOR REMARK 3 T11: 0.5178 T22: 0.6685 REMARK 3 T33: 0.4412 T12: -0.0129 REMARK 3 T13: 0.0915 T23: 0.0902 REMARK 3 L TENSOR REMARK 3 L11: 9.4775 L22: 2.2699 REMARK 3 L33: 2.8890 L12: 0.7049 REMARK 3 L13: 2.8459 L23: -1.5450 REMARK 3 S TENSOR REMARK 3 S11: 0.2368 S12: -1.2204 S13: -0.8202 REMARK 3 S21: 0.7412 S22: -0.1025 S23: 0.2514 REMARK 3 S31: 0.2717 S32: -1.1355 S33: -0.0589 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 26:65) REMARK 3 ORIGIN FOR THE GROUP (A): -7.5733 9.7712 9.7958 REMARK 3 T TENSOR REMARK 3 T11: 0.4334 T22: 0.5699 REMARK 3 T33: 0.3410 T12: 0.0887 REMARK 3 T13: -0.0306 T23: -0.0388 REMARK 3 L TENSOR REMARK 3 L11: 1.8946 L22: 2.2137 REMARK 3 L33: 2.4002 L12: 0.9590 REMARK 3 L13: -0.0170 L23: -0.2682 REMARK 3 S TENSOR REMARK 3 S11: -0.0405 S12: -0.1653 S13: 0.1720 REMARK 3 S21: 0.0814 S22: -0.1786 S23: 0.0233 REMARK 3 S31: -0.2396 S32: -0.6300 S33: 0.1690 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 66:76) REMARK 3 ORIGIN FOR THE GROUP (A): -20.2679 4.6795 -10.2717 REMARK 3 T TENSOR REMARK 3 T11: 0.4037 T22: 1.1169 REMARK 3 T33: 0.3006 T12: 0.0053 REMARK 3 T13: -0.1323 T23: 0.0969 REMARK 3 L TENSOR REMARK 3 L11: 6.8831 L22: 6.1465 REMARK 3 L33: 1.6299 L12: -0.3935 REMARK 3 L13: -1.8673 L23: 2.8048 REMARK 3 S TENSOR REMARK 3 S11: 0.4409 S12: -0.5436 S13: 0.7553 REMARK 3 S21: 0.2031 S22: -0.5680 S23: 0.0278 REMARK 3 S31: 0.8741 S32: 1.0185 S33: -0.1395 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 77:97) REMARK 3 ORIGIN FOR THE GROUP (A): -14.1726 11.1021 -22.2903 REMARK 3 T TENSOR REMARK 3 T11: 0.6295 T22: 1.1521 REMARK 3 T33: 0.5230 T12: -0.1827 REMARK 3 T13: -0.1259 T23: 0.0557 REMARK 3 L TENSOR REMARK 3 L11: 2.7322 L22: 2.8956 REMARK 3 L33: 2.9354 L12: -0.0722 REMARK 3 L13: -0.5874 L23: 0.6050 REMARK 3 S TENSOR REMARK 3 S11: -0.0116 S12: 0.2156 S13: 0.8825 REMARK 3 S21: 0.3219 S22: -0.1996 S23: -0.7528 REMARK 3 S31: -0.8484 S32: 0.6228 S33: 0.3739 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 1:4) REMARK 3 ORIGIN FOR THE GROUP (A): 6.7808 -16.9429 -15.3340 REMARK 3 T TENSOR REMARK 3 T11: 1.1698 T22: 0.9559 REMARK 3 T33: 1.1446 T12: -0.2140 REMARK 3 T13: 0.2394 T23: -0.1156 REMARK 3 L TENSOR REMARK 3 L11: 0.1626 L22: 1.2432 REMARK 3 L33: 2.5024 L12: -0.2871 REMARK 3 L13: 0.4911 L23: -0.4999 REMARK 3 S TENSOR REMARK 3 S11: 0.5334 S12: 0.2177 S13: -0.4345 REMARK 3 S21: 1.5247 S22: 0.0765 S23: -0.1197 REMARK 3 S31: 0.8422 S32: -0.3229 S33: -0.1324 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN B AND RESID 5:39) REMARK 3 ORIGIN FOR THE GROUP (A): 14.1049 -6.4216 -13.6550 REMARK 3 T TENSOR REMARK 3 T11: 0.4185 T22: 0.6604 REMARK 3 T33: 0.5311 T12: 0.0262 REMARK 3 T13: 0.0493 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 4.1607 L22: 3.4608 REMARK 3 L33: 5.7744 L12: 0.7104 REMARK 3 L13: -0.0656 L23: 1.1271 REMARK 3 S TENSOR REMARK 3 S11: -0.2370 S12: 0.5713 S13: -0.3631 REMARK 3 S21: -0.2490 S22: 0.3093 S23: -0.2502 REMARK 3 S31: 0.1769 S32: 0.6719 S33: -0.0628 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN B AND RESID 40:65) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7132 -7.9337 -7.7320 REMARK 3 T TENSOR REMARK 3 T11: 0.4078 T22: 0.4305 REMARK 3 T33: 0.5408 T12: -0.0091 REMARK 3 T13: 0.0692 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 4.4971 L22: 4.2622 REMARK 3 L33: 4.4548 L12: -0.7441 REMARK 3 L13: 0.2973 L23: 0.3717 REMARK 3 S TENSOR REMARK 3 S11: 0.0273 S12: 0.4971 S13: -0.5798 REMARK 3 S21: 0.3041 S22: -0.2123 S23: 0.0157 REMARK 3 S31: 0.3651 S32: 0.2369 S33: 0.1518 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN B AND RESID 66:87) REMARK 3 ORIGIN FOR THE GROUP (A): -13.6159 1.6180 -20.8983 REMARK 3 T TENSOR REMARK 3 T11: 0.3184 T22: 1.0455 REMARK 3 T33: 0.3988 T12: -0.0205 REMARK 3 T13: -0.0838 T23: 0.1429 REMARK 3 L TENSOR REMARK 3 L11: 1.0770 L22: 1.0490 REMARK 3 L33: 2.2165 L12: 1.1302 REMARK 3 L13: -0.2544 L23: 0.5529 REMARK 3 S TENSOR REMARK 3 S11: -0.7064 S12: -1.1293 S13: -0.6821 REMARK 3 S21: -0.2050 S22: 0.1030 S23: 0.0948 REMARK 3 S31: 0.4105 S32: 0.8471 S33: 0.0602 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN B AND RESID 88:93) REMARK 3 ORIGIN FOR THE GROUP (A): -14.9476 -4.0400 -25.8572 REMARK 3 T TENSOR REMARK 3 T11: 0.6094 T22: 0.8170 REMARK 3 T33: 0.6676 T12: 0.0975 REMARK 3 T13: 0.0046 T23: 0.0037 REMARK 3 L TENSOR REMARK 3 L11: 2.9373 L22: 2.1204 REMARK 3 L33: 9.5733 L12: 1.2293 REMARK 3 L13: -0.7770 L23: 3.5604 REMARK 3 S TENSOR REMARK 3 S11: -0.0355 S12: 0.0152 S13: -1.7885 REMARK 3 S21: 0.0454 S22: -0.2635 S23: -0.2497 REMARK 3 S31: 1.6863 S32: 1.3700 S33: -0.6050 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN C AND RESID 1:4) REMARK 3 ORIGIN FOR THE GROUP (A): 4.1606 25.9712 7.8996 REMARK 3 T TENSOR REMARK 3 T11: 1.0728 T22: 0.4861 REMARK 3 T33: 1.0495 T12: -0.0194 REMARK 3 T13: -0.0673 T23: 0.0519 REMARK 3 L TENSOR REMARK 3 L11: 1.7359 L22: 5.0573 REMARK 3 L33: 3.9437 L12: 2.9322 REMARK 3 L13: -1.5479 L23: -2.0809 REMARK 3 S TENSOR REMARK 3 S11: 0.6117 S12: -0.4805 S13: 0.6818 REMARK 3 S21: 0.3001 S22: -1.0900 S23: -1.2885 REMARK 3 S31: -0.2927 S32: 0.6786 S33: 0.0060 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN C AND RESID 5:8) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0375 12.7781 1.3420 REMARK 3 T TENSOR REMARK 3 T11: 0.6007 T22: 0.3958 REMARK 3 T33: 0.4977 T12: 0.1021 REMARK 3 T13: -0.0013 T23: 0.0533 REMARK 3 L TENSOR REMARK 3 L11: 2.4407 L22: 1.5833 REMARK 3 L33: 0.4299 L12: -0.0828 REMARK 3 L13: 0.1586 L23: -0.7092 REMARK 3 S TENSOR REMARK 3 S11: 0.2069 S12: 0.1225 S13: 0.6323 REMARK 3 S21: 0.1321 S22: -0.1535 S23: -0.3636 REMARK 3 S31: -0.6399 S32: 0.0146 S33: 0.3164 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN C AND RESID 9:12) REMARK 3 ORIGIN FOR THE GROUP (A): 7.8935 -1.2184 0.4898 REMARK 3 T TENSOR REMARK 3 T11: 0.6760 T22: 0.4022 REMARK 3 T33: 0.6264 T12: -0.0045 REMARK 3 T13: 0.0457 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 4.5677 L22: 4.1713 REMARK 3 L33: 1.0255 L12: -0.3225 REMARK 3 L13: -0.6740 L23: -0.2808 REMARK 3 S TENSOR REMARK 3 S11: 0.2916 S12: -0.2257 S13: 0.0384 REMARK 3 S21: -0.0595 S22: -0.4390 S23: -1.2971 REMARK 3 S31: -0.1011 S32: 0.0820 S33: 0.2379 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN C AND RESID 13:16) REMARK 3 ORIGIN FOR THE GROUP (A): 0.1199 -13.4275 7.2017 REMARK 3 T TENSOR REMARK 3 T11: 0.9256 T22: 0.5285 REMARK 3 T33: 0.5798 T12: -0.1866 REMARK 3 T13: 0.1388 T23: 0.1110 REMARK 3 L TENSOR REMARK 3 L11: 2.4296 L22: 5.9652 REMARK 3 L33: 5.5089 L12: -0.2430 REMARK 3 L13: -0.7162 L23: 4.9253 REMARK 3 S TENSOR REMARK 3 S11: 0.0473 S12: -0.9361 S13: -1.5304 REMARK 3 S21: 0.9676 S22: -1.8510 S23: 0.0817 REMARK 3 S31: 1.4806 S32: 0.0225 S33: 0.8116 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN C AND RESID 17:20) REMARK 3 ORIGIN FOR THE GROUP (A): -1.3074 -23.1307 -4.8616 REMARK 3 T TENSOR REMARK 3 T11: 0.8278 T22: 0.4663 REMARK 3 T33: 1.0560 T12: 0.0563 REMARK 3 T13: 0.1202 T23: -0.1243 REMARK 3 L TENSOR REMARK 3 L11: 4.6760 L22: 5.3605 REMARK 3 L33: 2.6333 L12: -0.4614 REMARK 3 L13: 2.7131 L23: -2.0575 REMARK 3 S TENSOR REMARK 3 S11: 0.4803 S12: 1.0855 S13: -0.8208 REMARK 3 S21: 0.1981 S22: -1.1120 S23: 0.0364 REMARK 3 S31: 0.8128 S32: -0.0606 S33: 0.1487 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: (CHAIN D AND RESID 1:4) REMARK 3 ORIGIN FOR THE GROUP (A): 5.9265 -26.2165 1.6185 REMARK 3 T TENSOR REMARK 3 T11: 0.9818 T22: 0.4884 REMARK 3 T33: 1.4187 T12: -0.0874 REMARK 3 T13: 0.1235 T23: 0.1242 REMARK 3 L TENSOR REMARK 3 L11: 1.0344 L22: 1.1986 REMARK 3 L33: 3.1456 L12: 0.8247 REMARK 3 L13: -0.5171 L23: -1.6701 REMARK 3 S TENSOR REMARK 3 S11: 0.8865 S12: -0.7804 S13: -0.4030 REMARK 3 S21: 0.8124 S22: -1.4004 S23: -0.3041 REMARK 3 S31: -0.0228 S32: 0.6257 S33: 0.5433 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: (CHAIN D AND RESID 5:8) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9824 -12.4122 -2.3151 REMARK 3 T TENSOR REMARK 3 T11: 0.6896 T22: 0.3134 REMARK 3 T33: 0.7097 T12: -0.0536 REMARK 3 T13: 0.1715 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 3.1375 L22: 4.5824 REMARK 3 L33: 5.7281 L12: -2.1953 REMARK 3 L13: 0.3505 L23: 2.2247 REMARK 3 S TENSOR REMARK 3 S11: 0.0635 S12: -0.3026 S13: -1.0528 REMARK 3 S21: -0.4869 S22: -0.2388 S23: -0.1274 REMARK 3 S31: 0.2925 S32: -0.0889 S33: 0.3246 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: (CHAIN D AND RESID 9:12) REMARK 3 ORIGIN FOR THE GROUP (A): 1.0215 0.5236 7.0836 REMARK 3 T TENSOR REMARK 3 T11: 0.5569 T22: 0.3248 REMARK 3 T33: 0.5573 T12: 0.0251 REMARK 3 T13: 0.0593 T23: 0.0390 REMARK 3 L TENSOR REMARK 3 L11: 1.4921 L22: 2.3872 REMARK 3 L33: 2.2004 L12: 0.4312 REMARK 3 L13: -0.3446 L23: 0.3983 REMARK 3 S TENSOR REMARK 3 S11: -0.0418 S12: -0.1311 S13: 0.1887 REMARK 3 S21: 0.0956 S22: -0.2827 S23: -0.4937 REMARK 3 S31: 0.5004 S32: -0.0015 S33: 0.2321 REMARK 3 TLS GROUP : 19 REMARK 3 SELECTION: (CHAIN D AND RESID 13:16) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4889 12.9734 1.6805 REMARK 3 T TENSOR REMARK 3 T11: 0.3362 T22: 0.4580 REMARK 3 T33: 0.8628 T12: -0.0876 REMARK 3 T13: -0.0136 T23: 0.0624 REMARK 3 L TENSOR REMARK 3 L11: 2.8086 L22: 3.3930 REMARK 3 L33: 2.9336 L12: 0.5638 REMARK 3 L13: -0.6920 L23: 2.7567 REMARK 3 S TENSOR REMARK 3 S11: 0.8248 S12: -0.2305 S13: -0.1088 REMARK 3 S21: -0.1866 S22: -0.7726 S23: -0.8814 REMARK 3 S31: -1.4922 S32: 0.4511 S33: 0.1897 REMARK 3 TLS GROUP : 20 REMARK 3 SELECTION: (CHAIN D AND RESID 17:20) REMARK 3 ORIGIN FOR THE GROUP (A): -1.7417 23.0037 0.2841 REMARK 3 T TENSOR REMARK 3 T11: 1.0962 T22: 0.5122 REMARK 3 T33: 0.7871 T12: 0.0560 REMARK 3 T13: 0.1363 T23: -0.1263 REMARK 3 L TENSOR REMARK 3 L11: 1.0687 L22: 7.2777 REMARK 3 L33: 7.3365 L12: 0.8056 REMARK 3 L13: 2.0630 L23: 2.2091 REMARK 3 S TENSOR REMARK 3 S11: 0.1413 S12: 0.3413 S13: 0.6628 REMARK 3 S21: -0.3569 S22: -1.1116 S23: 0.2603 REMARK 3 S31: -0.0587 S32: -1.3293 S33: 0.7786 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 5CM3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211836. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9797 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19920 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 23.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.03200 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: PHASER REMARK 200 STARTING MODEL: 5CKT, THEORETICAL MODEL OF DNA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6000, SODIUM ACETATE, ETHYLENE REMARK 280 GLYCOL, PH 4.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 57.55000 REMARK 290 SMTRY3 2 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.0 KCAL/MOL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LYS B 94 REMARK 465 LYS B 95 REMARK 465 LYS B 96 REMARK 465 GLN B 97 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 DG C 20 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DG C 20 N9 C8 N7 C5 C6 O6 N1 REMARK 470 DG C 20 C2 N2 N3 C4 REMARK 470 DG D 20 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DG D 20 N9 C8 N7 C5 C6 O6 N1 REMARK 470 DG D 20 C2 N2 N3 C4 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 130 O HOH A 133 1.92 REMARK 500 O HOH A 122 O HOH A 124 1.98 REMARK 500 NZ LYS A 3 OP1 DT C 6 2.06 REMARK 500 O LYS B 35 O HOH B 101 2.08 REMARK 500 O HOH C 114 O HOH C 124 2.08 REMARK 500 O HOH C 111 O HOH C 122 2.11 REMARK 500 O6 DG D 10 O HOH D 101 2.13 REMARK 500 OP2 DC C 11 O HOH C 101 2.13 REMARK 500 OE1 GLN B 82 O HOH B 102 2.15 REMARK 500 OP1 DG C 5 O HOH C 102 2.16 REMARK 500 OE2 GLU B 90 O HOH B 103 2.17 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 ARG B 87 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 DA C 4 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG C 5 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT C 6 O4' - C1' - N1 ANGL. DEV. = -6.3 DEGREES REMARK 500 DT C 7 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DT C 7 N3 - C4 - O4 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG C 10 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 DT C 12 N3 - C4 - O4 ANGL. DEV. = 4.1 DEGREES REMARK 500 DA C 14 O4' - C1' - N9 ANGL. DEV. = 6.6 DEGREES REMARK 500 DA D 4 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG D 5 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT D 6 N3 - C4 - O4 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT D 8 O5' - C5' - C4' ANGL. DEV. = -5.7 DEGREES REMARK 500 DG D 10 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA D 14 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA D 14 O4' - C1' - N9 ANGL. DEV. = 4.0 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 LYS A 3 100.10 103.52 REMARK 500 LYS A 96 64.61 -104.60 REMARK 500 REMARK 500 REMARK: NULL DBREF 5CM3 A 1 97 UNP P03052 KORA2_ECOLX 1 97 DBREF 5CM3 B 1 97 UNP P03052 KORA2_ECOLX 1 97 DBREF 5CM3 C 1 20 PDB 5CM3 5CM3 1 20 DBREF 5CM3 D 1 20 PDB 5CM3 5CM3 1 20 SEQRES 1 A 97 MET LYS LYS ARG LEU THR GLU SER GLN PHE GLN GLU ALA SEQRES 2 A 97 ILE GLN GLY LEU GLU VAL GLY GLN GLN THR ILE GLU ILE SEQRES 3 A 97 ALA ARG GLY VAL LEU VAL ASP GLY LYS PRO GLN ALA THR SEQRES 4 A 97 PHE ALA THR SER LEU GLY LEU THR ARG GLY ALA VAL SER SEQRES 5 A 97 GLN ALA VAL HIS ARG VAL TRP ALA ALA PHE GLU ASP LYS SEQRES 6 A 97 ASN LEU PRO GLU GLY TYR ALA ARG VAL THR ALA VAL LEU SEQRES 7 A 97 PRO GLU HIS GLN ALA TYR ILE VAL ARG LYS TRP GLU ALA SEQRES 8 A 97 ASP ALA LYS LYS LYS GLN SEQRES 1 B 97 MET LYS LYS ARG LEU THR GLU SER GLN PHE GLN GLU ALA SEQRES 2 B 97 ILE GLN GLY LEU GLU VAL GLY GLN GLN THR ILE GLU ILE SEQRES 3 B 97 ALA ARG GLY VAL LEU VAL ASP GLY LYS PRO GLN ALA THR SEQRES 4 B 97 PHE ALA THR SER LEU GLY LEU THR ARG GLY ALA VAL SER SEQRES 5 B 97 GLN ALA VAL HIS ARG VAL TRP ALA ALA PHE GLU ASP LYS SEQRES 6 B 97 ASN LEU PRO GLU GLY TYR ALA ARG VAL THR ALA VAL LEU SEQRES 7 B 97 PRO GLU HIS GLN ALA TYR ILE VAL ARG LYS TRP GLU ALA SEQRES 8 B 97 ASP ALA LYS LYS LYS GLN SEQRES 1 C 20 DC DC DA DA DG DT DT DT DA DG DC DT DA SEQRES 2 C 20 DA DA DC DT DT DG DG SEQRES 1 D 20 DC DC DA DA DG DT DT DT DA DG DC DT DA SEQRES 2 D 20 DA DA DC DT DT DG DG FORMUL 5 HOH *139(H2 O) HELIX 1 AA1 THR A 6 GLN A 15 1 10 HELIX 2 AA2 GLY A 20 VAL A 32 1 13 HELIX 3 AA3 PRO A 36 GLY A 45 1 10 HELIX 4 AA4 THR A 47 ASN A 66 1 20 HELIX 5 AA5 PRO A 79 LYS A 95 1 17 HELIX 6 AA6 THR B 6 GLN B 15 1 10 HELIX 7 AA7 GLY B 20 VAL B 32 1 13 HELIX 8 AA8 PRO B 36 GLY B 45 1 10 HELIX 9 AA9 THR B 47 ASN B 66 1 20 HELIX 10 AB1 GLU B 80 ASP B 92 1 13 SHEET 1 AA1 2 TYR A 71 LEU A 78 0 SHEET 2 AA1 2 ALA B 72 PRO B 79 -1 O ALA B 76 N VAL A 74 CISPEP 1 MET B 1 LYS B 2 0 -7.33 CRYST1 44.540 115.100 49.930 90.00 113.81 90.00 P 1 21 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 0.022452 0.000000 0.009907 0.00000 SCALE2 0.000000 0.008688 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021891 0.00000