HEADER TRANSCRIPTION 11-DEC-19 6TOH TITLE CRYSTAL STRUCTURE OF HUMAN BCL6 BTB DOMAIN IN COMPLEX WITH COMPOUND 6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: B-CELL LYMPHOMA 6 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BCL-6,B-CELL LYMPHOMA 5 PROTEIN,BCL-5,PROTEIN LAZ-3,ZINC COMPND 5 FINGER AND BTB DOMAIN-CONTAINING PROTEIN 27,ZINC FINGER PROTEIN 51; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ALA-TRP-VAL-ILE-PRO-ALA; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: BCL6, BCL5, LAZ3, ZBTB27, ZNF51; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: AI; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET48B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS CANCER, LYMPHOMA, INHIBITOR, DEGRADER, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR G.W.COLLIE,K.SHETTY,M.J.RODRIGUES,Y.-V.LE BIHAN,R.L.M.VAN MONTFORT REVDAT 3 24-JAN-24 6TOH 1 REMARK REVDAT 2 06-MAY-20 6TOH 1 JRNL REVDAT 1 22-APR-20 6TOH 0 JRNL AUTH B.R.BELLENIE,K.J.CHEUNG,A.VARELA,O.A.PIERRAT,G.W.COLLIE, JRNL AUTH 2 G.M.BOX,M.D.BRIGHT,S.GOWAN,A.HAYES,M.J.RODRIGUES,K.N.SHETTY, JRNL AUTH 3 M.CARTER,O.A.DAVIS,A.T.HENLEY,P.INNOCENTI,L.D.JOHNSON,M.LIU, JRNL AUTH 4 S.DE KLERK,Y.V.LE BIHAN,M.G.LLOYD,P.C.MCANDREW,E.SHEHU, JRNL AUTH 5 R.TALBOT,H.L.WOODWARD,R.BURKE,V.KIRKIN,R.L.M.VAN MONTFORT, JRNL AUTH 6 F.I.RAYNAUD,O.W.ROSSANESE,S.HOELDER JRNL TITL ACHIEVINGIN VIVOTARGET DEPLETION THROUGH THE DISCOVERY AND JRNL TITL 2 OPTIMIZATION OF BENZIMIDAZOLONE BCL6 DEGRADERS. JRNL REF J.MED.CHEM. V. 63 4047 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 32275432 JRNL DOI 10.1021/ACS.JMEDCHEM.9B02076 REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 31818 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 1546 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.58 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.59 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.68 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 637 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2298 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 602 REMARK 3 BIN R VALUE (WORKING SET) : 0.2279 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.49 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 35 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1008 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 171 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.45240 REMARK 3 B22 (A**2) : -1.45240 REMARK 3 B33 (A**2) : 2.90480 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.200 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.068 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.069 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.061 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.063 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 1173 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 1596 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 421 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 223 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 1173 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 156 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : 14 ; 1.000 ; HARMONIC REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 1557 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.98 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.47 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 13.08 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|6 - 27} REMARK 3 ORIGIN FOR THE GROUP (A): 29.1184 -28.1884 13.3282 REMARK 3 T TENSOR REMARK 3 T11: -0.0405 T22: -0.0458 REMARK 3 T33: -0.0666 T12: -0.0301 REMARK 3 T13: 0.0045 T23: -0.0188 REMARK 3 L TENSOR REMARK 3 L11: 4.2009 L22: 1.3640 REMARK 3 L33: 5.3855 L12: 0.7047 REMARK 3 L13: 2.5700 L23: 1.3694 REMARK 3 S TENSOR REMARK 3 S11: 0.0569 S12: -0.0219 S13: -0.2046 REMARK 3 S21: 0.1412 S22: -0.0225 S23: 0.0434 REMARK 3 S31: 0.2820 S32: -0.3386 S33: -0.0344 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: {A|28 - 40} REMARK 3 ORIGIN FOR THE GROUP (A): 41.2250 -14.8693 27.9302 REMARK 3 T TENSOR REMARK 3 T11: 0.0882 T22: 0.0866 REMARK 3 T33: 0.0385 T12: -0.0267 REMARK 3 T13: -0.0312 T23: -0.0542 REMARK 3 L TENSOR REMARK 3 L11: 0.9073 L22: 2.3586 REMARK 3 L33: 0.8357 L12: 0.1432 REMARK 3 L13: 0.6524 L23: 0.7766 REMARK 3 S TENSOR REMARK 3 S11: 0.1251 S12: -0.1289 S13: 0.0764 REMARK 3 S21: 0.2055 S22: 0.1831 S23: -0.4309 REMARK 3 S31: -0.1360 S32: 0.2712 S33: -0.3082 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: {A|41 - 46} REMARK 3 ORIGIN FOR THE GROUP (A): 39.6187 -15.9756 29.0988 REMARK 3 T TENSOR REMARK 3 T11: -0.0067 T22: -0.0492 REMARK 3 T33: -0.1051 T12: -0.0312 REMARK 3 T13: -0.0201 T23: -0.0326 REMARK 3 L TENSOR REMARK 3 L11: 2.3394 L22: 1.7859 REMARK 3 L33: 1.6375 L12: 0.2620 REMARK 3 L13: 1.5860 L23: 0.1412 REMARK 3 S TENSOR REMARK 3 S11: 0.0849 S12: -0.2395 S13: 0.0179 REMARK 3 S21: 0.3172 S22: 0.0403 S23: -0.1135 REMARK 3 S31: -0.1741 S32: 0.1743 S33: -0.1252 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: {A|47 - 79} REMARK 3 ORIGIN FOR THE GROUP (A): 34.9631 -7.0098 22.2896 REMARK 3 T TENSOR REMARK 3 T11: 0.0596 T22: -0.0611 REMARK 3 T33: -0.0104 T12: -0.0326 REMARK 3 T13: 0.0359 T23: -0.0175 REMARK 3 L TENSOR REMARK 3 L11: 1.5251 L22: 3.2349 REMARK 3 L33: 2.9366 L12: 1.1119 REMARK 3 L13: -0.3554 L23: 1.4957 REMARK 3 S TENSOR REMARK 3 S11: 0.0537 S12: 0.0294 S13: 0.1710 REMARK 3 S21: -0.0882 S22: 0.0644 S23: -0.0225 REMARK 3 S31: -0.3778 S32: 0.0686 S33: -0.1181 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: {A|80 - 92} REMARK 3 ORIGIN FOR THE GROUP (A): 29.6377 -18.7749 28.5205 REMARK 3 T TENSOR REMARK 3 T11: 0.0051 T22: -0.0469 REMARK 3 T33: -0.0654 T12: -0.0537 REMARK 3 T13: 0.0189 T23: -0.0121 REMARK 3 L TENSOR REMARK 3 L11: 1.1249 L22: 3.6864 REMARK 3 L33: 3.6204 L12: 1.0926 REMARK 3 L13: 0.1002 L23: 2.9074 REMARK 3 S TENSOR REMARK 3 S11: 0.1601 S12: -0.1927 S13: -0.0841 REMARK 3 S21: 0.5228 S22: -0.0903 S23: -0.0623 REMARK 3 S31: 0.2022 S32: 0.0234 S33: -0.0698 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: {A|93 - 101} REMARK 3 ORIGIN FOR THE GROUP (A): 22.1729 -22.5565 32.4770 REMARK 3 T TENSOR REMARK 3 T11: 0.1041 T22: 0.0259 REMARK 3 T33: -0.0264 T12: -0.1024 REMARK 3 T13: 0.0698 T23: -0.0272 REMARK 3 L TENSOR REMARK 3 L11: 2.5749 L22: 1.1046 REMARK 3 L33: 2.0756 L12: 1.6474 REMARK 3 L13: -0.6277 L23: -1.8670 REMARK 3 S TENSOR REMARK 3 S11: 0.0969 S12: -0.2411 S13: 0.0257 REMARK 3 S21: 0.3988 S22: -0.2411 S23: 0.2439 REMARK 3 S31: 0.0848 S32: 0.1916 S33: 0.1442 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: {A|102 - 114} REMARK 3 ORIGIN FOR THE GROUP (A): 23.4858 -10.4800 30.9071 REMARK 3 T TENSOR REMARK 3 T11: -0.0472 T22: -0.0859 REMARK 3 T33: -0.0676 T12: -0.0449 REMARK 3 T13: 0.0775 T23: -0.0699 REMARK 3 L TENSOR REMARK 3 L11: 2.9723 L22: 4.9011 REMARK 3 L33: 4.4042 L12: 2.4313 REMARK 3 L13: -1.1692 L23: -0.7647 REMARK 3 S TENSOR REMARK 3 S11: 0.3003 S12: -0.2123 S13: 0.3396 REMARK 3 S21: 0.3908 S22: -0.3203 S23: 0.4121 REMARK 3 S31: -0.1470 S32: -0.4368 S33: 0.0200 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: {A|115 - 129} REMARK 3 ORIGIN FOR THE GROUP (A): 13.6990 -14.4481 31.0653 REMARK 3 T TENSOR REMARK 3 T11: -0.0198 T22: 0.0903 REMARK 3 T33: 0.1035 T12: -0.0747 REMARK 3 T13: 0.0916 T23: -0.1141 REMARK 3 L TENSOR REMARK 3 L11: 7.4785 L22: 7.0072 REMARK 3 L33: 0.0901 L12: -0.0683 REMARK 3 L13: -3.1329 L23: 1.0371 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: 0.1583 S13: 0.2394 REMARK 3 S21: 0.1099 S22: -0.1555 S23: 0.6739 REMARK 3 S31: 0.2279 S32: -0.4789 S33: 0.1586 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: {B|0 - 5} REMARK 3 ORIGIN FOR THE GROUP (A): 19.1353 -31.6498 2.4038 REMARK 3 T TENSOR REMARK 3 T11: -0.0660 T22: 0.0800 REMARK 3 T33: -0.0034 T12: -0.0528 REMARK 3 T13: -0.0141 T23: -0.0517 REMARK 3 L TENSOR REMARK 3 L11: 6.3577 L22: 0.6984 REMARK 3 L33: 0.0234 L12: 2.4402 REMARK 3 L13: 0.5156 L23: 3.6506 REMARK 3 S TENSOR REMARK 3 S11: 0.0795 S12: 0.0362 S13: -0.0482 REMARK 3 S21: -0.1281 S22: 0.0344 S23: 0.1669 REMARK 3 S31: 0.0819 S32: 0.0408 S33: -0.1139 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TOH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-DEC-19. REMARK 100 THE DEPOSITION ID IS D_1292104940. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9660 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.26 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31907 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 47.930 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 18.80 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 19.40 REMARK 200 R MERGE FOR SHELL (I) : 2.16800 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: PHASER REMARK 200 STARTING MODEL: 3BIM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 MICROLITRE OF THE BCL6-BTB/WVIP REMARK 280 COMPLEX AT 4 MG/ML PLUS 1 MICROLITER OF A CRYSTALLISATION REMARK 280 SOLUTION CONSISTING OF 1 M K2HPO4, 0.7 M NAH2PO4, 75 MM SODIUM REMARK 280 ACETATE BUFFER PH 4.5 AND 2 % DMSO, AGAINST 350 MICROLITER OF REMARK 280 CRYSTALLISATION SOLUTION., PH 7, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 55.32767 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 110.65533 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 82.99150 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 138.31917 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 27.66383 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 55.32767 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 110.65533 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 138.31917 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 82.99150 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 27.66383 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: 6150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.500000 0.866025 0.000000 33.89250 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -58.70353 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 27.66383 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 GLY A 2 REMARK 465 PRO A 3 REMARK 465 GLY A 4 REMARK 465 ALA A 5 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 ASP A 6 N CA O CB CG OD1 OD2 REMARK 470 SER A 7 OG REMARK 470 ARG A 13 NH2 REMARK 470 ARG A 28 NH1 NH2 REMARK 470 GLN A 64 OE1 REMARK 470 GLU A 77 OE2 REMARK 470 ARG A 98 NE CZ NH1 NH2 REMARK 470 GLU A 99 OE2 REMARK 470 GLU A 115 OE1 REMARK 470 LYS A 123 NZ REMARK 470 LYS A 126 CD CE NZ REMARK 470 GLU A 129 O REMARK 470 ALA B 0 N CB REMARK 470 ALA B 5 CA C O CB 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 SER A 39 -109.47 60.49 REMARK 500 ARG A 40 -22.79 76.27 REMARK 500 SER A 93 -0.65 74.33 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 NQK A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 101 DBREF 6TOH A 5 129 UNP P41182 BCL6_HUMAN 5 129 DBREF 6TOH B 0 5 PDB 6TOH 6TOH 0 5 SEQADV 6TOH GLY A 2 UNP P41182 EXPRESSION TAG SEQADV 6TOH PRO A 3 UNP P41182 EXPRESSION TAG SEQADV 6TOH GLY A 4 UNP P41182 EXPRESSION TAG SEQRES 1 A 128 GLY PRO GLY ALA ASP SER CYS ILE GLN PHE THR ARG HIS SEQRES 2 A 128 ALA SER ASP VAL LEU LEU ASN LEU ASN ARG LEU ARG SER SEQRES 3 A 128 ARG ASP ILE LEU THR ASP VAL VAL ILE VAL VAL SER ARG SEQRES 4 A 128 GLU GLN PHE ARG ALA HIS LYS THR VAL LEU MET ALA CYS SEQRES 5 A 128 SER GLY LEU PHE TYR SER ILE PHE THR ASP GLN LEU LYS SEQRES 6 A 128 CYS ASN LEU SER VAL ILE ASN LEU ASP PRO GLU ILE ASN SEQRES 7 A 128 PRO GLU GLY PHE CYS ILE LEU LEU ASP PHE MET TYR THR SEQRES 8 A 128 SER ARG LEU ASN LEU ARG GLU GLY ASN ILE MET ALA VAL SEQRES 9 A 128 MET ALA THR ALA MET TYR LEU GLN MET GLU HIS VAL VAL SEQRES 10 A 128 ASP THR CYS ARG LYS PHE ILE LYS ALA SER GLU SEQRES 1 B 6 ALA TRP VAL ILE PRO ALA HET NQK A 201 22 HET EDO A 202 4 HET EDO A 203 4 HET EDO A 204 4 HET EDO B 101 4 HETNAM NQK 2-CHLORANYL-4-[(1,3-DIMETHYL-2-OXIDANYLIDENE- HETNAM 2 NQK BENZIMIDAZOL-5-YL)AMINO]PYRIDINE-3-CARBONITRILE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NQK C15 H12 CL N5 O FORMUL 4 EDO 4(C2 H6 O2) FORMUL 8 HOH *171(H2 O) HELIX 1 AA1 ARG A 13 ASP A 29 1 17 HELIX 2 AA2 HIS A 46 SER A 54 1 9 HELIX 3 AA3 SER A 54 THR A 62 1 9 HELIX 4 AA4 LEU A 65 LEU A 69 5 5 HELIX 5 AA5 ASN A 79 SER A 93 1 15 HELIX 6 AA6 ASN A 101 GLN A 113 1 13 HELIX 7 AA7 MET A 114 GLU A 129 1 16 SHEET 1 AA1 2 GLN A 10 PHE A 11 0 SHEET 2 AA1 2 TRP B 1 VAL B 2 -1 O VAL B 2 N GLN A 10 SHEET 1 AA2 3 GLU A 41 ALA A 45 0 SHEET 2 AA2 3 VAL A 34 VAL A 38 -1 N ILE A 36 O PHE A 43 SHEET 3 AA2 3 VAL A 71 ASN A 73 1 O ILE A 72 N VAL A 37 SITE 1 AC1 13 ASN A 21 ARG A 24 LEU A 25 MET A 51 SITE 2 AC1 13 ALA A 52 CYS A 53 GLY A 55 TYR A 58 SITE 3 AC1 13 GLN A 113 MET A 114 GLU A 115 HOH A 310 SITE 4 AC1 13 HOH A 387 SITE 1 AC2 4 ASP A 63 GLN A 64 ARG A 98 GLU A 99 SITE 1 AC3 4 ILE A 72 ASN A 73 HOH A 339 TRP B 1 SITE 1 AC4 3 LEU A 20 ARG A 24 HOH A 372 SITE 1 AC5 2 ALA B 5 HOH B 203 CRYST1 67.785 67.785 165.983 90.00 90.00 120.00 P 61 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 0.014753 0.008517 0.000000 0.00000 SCALE2 0.000000 0.017035 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006025 0.00000