HEADER TRANSCRIPTION 11-DEC-19 6TON TITLE CRYSTAL STRUCTURE OF HUMAN BCL6 BTB DOMAIN IN COMPLEX WITH COMPOUND TITLE 2 25B 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 M.J.RODRIGUES,Y.-V.LE BIHAN,R.L.M.VAN MONTFORT REVDAT 3 24-JAN-24 6TON 1 REMARK REVDAT 2 06-MAY-20 6TON 1 JRNL REVDAT 1 22-APR-20 6TON 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. 2.36 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) : 2.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 10063 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.220 REMARK 3 FREE R VALUE TEST SET COUNT : 525 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 : 26 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.36 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.02 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 388 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2470 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 370 REMARK 3 BIN R VALUE (WORKING SET) : 0.2458 REMARK 3 BIN FREE R VALUE : 0.2729 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.64 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 18 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 : 996 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 86 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.80940 REMARK 3 B22 (A**2) : 1.80940 REMARK 3 B33 (A**2) : -3.61880 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) : 0.300 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.244 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.197 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.212 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.185 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 : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 1099 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 1499 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 377 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 203 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 1099 ; 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 : 146 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : 3 ; 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 : 1333 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.11 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.92 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 16.93 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|5 - 40} REMARK 3 ORIGIN FOR THE GROUP (A): 31.8211 -24.5021 16.0946 REMARK 3 T TENSOR REMARK 3 T11: 0.0123 T22: -0.0433 REMARK 3 T33: -0.0021 T12: 0.0378 REMARK 3 T13: -0.0278 T23: -0.0573 REMARK 3 L TENSOR REMARK 3 L11: 4.0549 L22: 4.9907 REMARK 3 L33: 6.9383 L12: 0.6943 REMARK 3 L13: -0.4126 L23: 3.1224 REMARK 3 S TENSOR REMARK 3 S11: 0.1913 S12: -0.0555 S13: -0.1207 REMARK 3 S21: 0.5678 S22: -0.0099 S23: -0.2540 REMARK 3 S31: 0.3222 S32: -0.2507 S33: -0.1814 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: {A|41 - 46} REMARK 3 ORIGIN FOR THE GROUP (A): 38.9679 -17.1773 27.5666 REMARK 3 T TENSOR REMARK 3 T11: 0.0144 T22: -0.1574 REMARK 3 T33: -0.1647 T12: -0.0318 REMARK 3 T13: -0.0745 T23: -0.1750 REMARK 3 L TENSOR REMARK 3 L11: 2.5648 L22: -2.5057 REMARK 3 L33: 0.2041 L12: -1.4296 REMARK 3 L13: -0.2387 L23: 2.6894 REMARK 3 S TENSOR REMARK 3 S11: -0.0006 S12: -0.0400 S13: 0.2778 REMARK 3 S21: 0.2490 S22: 0.0103 S23: -0.1103 REMARK 3 S31: -0.1106 S32: 0.0850 S33: -0.0096 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: {A|47 - 79} REMARK 3 ORIGIN FOR THE GROUP (A): 33.8125 -7.9380 23.0415 REMARK 3 T TENSOR REMARK 3 T11: 0.0644 T22: -0.1632 REMARK 3 T33: 0.0545 T12: -0.0840 REMARK 3 T13: 0.1962 T23: -0.0622 REMARK 3 L TENSOR REMARK 3 L11: 3.1101 L22: 8.1187 REMARK 3 L33: 5.4074 L12: 1.4833 REMARK 3 L13: 0.8713 L23: 3.7472 REMARK 3 S TENSOR REMARK 3 S11: 0.1820 S12: -0.1178 S13: 0.7394 REMARK 3 S21: 0.1099 S22: 0.1834 S23: -0.1923 REMARK 3 S31: -0.7086 S32: 0.2107 S33: -0.3654 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: {A|80 - 101} REMARK 3 ORIGIN FOR THE GROUP (A): 25.9810 -21.6789 30.1769 REMARK 3 T TENSOR REMARK 3 T11: 0.2204 T22: -0.0609 REMARK 3 T33: -0.0745 T12: -0.0604 REMARK 3 T13: 0.0689 T23: 0.0093 REMARK 3 L TENSOR REMARK 3 L11: 5.2458 L22: 9.1511 REMARK 3 L33: 3.9769 L12: 2.4172 REMARK 3 L13: -3.5222 L23: 0.6527 REMARK 3 S TENSOR REMARK 3 S11: 0.0789 S12: -0.3086 S13: -0.1430 REMARK 3 S21: 0.7799 S22: -0.1932 S23: 0.0943 REMARK 3 S31: 0.1529 S32: -0.1645 S33: 0.1143 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: {A|102 - 114} REMARK 3 ORIGIN FOR THE GROUP (A): 22.7075 -11.5688 31.8453 REMARK 3 T TENSOR REMARK 3 T11: -0.0160 T22: -0.2112 REMARK 3 T33: -0.1453 T12: -0.1349 REMARK 3 T13: 0.1887 T23: -0.0665 REMARK 3 L TENSOR REMARK 3 L11: -1.2303 L22: 6.2898 REMARK 3 L33: 5.2287 L12: -0.6918 REMARK 3 L13: -2.4281 L23: 1.9588 REMARK 3 S TENSOR REMARK 3 S11: 0.2386 S12: -0.3773 S13: 0.5022 REMARK 3 S21: 0.3803 S22: -0.1411 S23: 0.2187 REMARK 3 S31: 0.2412 S32: -0.4892 S33: -0.0975 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: {A|115 - 129} REMARK 3 ORIGIN FOR THE GROUP (A): 12.9165 -15.8659 31.7669 REMARK 3 T TENSOR REMARK 3 T11: 0.1581 T22: 0.0058 REMARK 3 T33: 0.0966 T12: -0.1721 REMARK 3 T13: 0.2076 T23: -0.0556 REMARK 3 L TENSOR REMARK 3 L11: 5.8538 L22: 7.6189 REMARK 3 L33: 0.0000 L12: -1.3139 REMARK 3 L13: -3.5848 L23: 1.2910 REMARK 3 S TENSOR REMARK 3 S11: -0.1174 S12: 0.2938 S13: 0.2330 REMARK 3 S21: 0.2828 S22: -0.2071 S23: 0.4364 REMARK 3 S31: 0.0811 S32: -0.2322 S33: 0.3245 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: {B|0 - 5} REMARK 3 ORIGIN FOR THE GROUP (A): 17.8872 -32.5471 2.2551 REMARK 3 T TENSOR REMARK 3 T11: -0.2109 T22: 0.1749 REMARK 3 T33: 0.0717 T12: -0.0301 REMARK 3 T13: -0.0556 T23: -0.2076 REMARK 3 L TENSOR REMARK 3 L11: 2.6995 L22: -2.1065 REMARK 3 L33: 0.0016 L12: -1.0450 REMARK 3 L13: 0.3036 L23: 1.2840 REMARK 3 S TENSOR REMARK 3 S11: 0.1094 S12: -0.0115 S13: -0.0364 REMARK 3 S21: -0.0317 S22: -0.0986 S23: -0.0126 REMARK 3 S31: 0.0885 S32: 0.0755 S33: -0.0108 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TON 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_1292104977. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAR-18 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 : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10122 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.360 REMARK 200 RESOLUTION RANGE LOW (A) : 48.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 14.50 REMARK 200 R MERGE (I) : 0.30000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 15.50 REMARK 200 R MERGE FOR SHELL (I) : 3.28300 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 (%): 67.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 MICROLITER 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 56.68433 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 113.36867 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 85.02650 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 141.71083 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 28.34217 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 56.68433 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 113.36867 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 141.71083 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 85.02650 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 28.34217 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: 5260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL 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 BIOMT1 2 0.500000 0.866025 0.000000 33.75150 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -58.45931 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 28.34217 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 3 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 28.34217 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 33.75150 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 -58.45931 REMARK 350 BIOMT3 4 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 GLY A 2 REMARK 465 PRO A 3 REMARK 465 GLY A 4 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 CG OD1 OD2 REMARK 470 ARG A 13 NE CZ NH1 NH2 REMARK 470 ARG A 40 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 41 CD OE1 OE2 REMARK 470 GLN A 64 CD OE1 NE2 REMARK 470 GLU A 77 CD OE1 OE2 REMARK 470 GLU A 81 OE1 OE2 REMARK 470 ARG A 98 NE CZ NH1 NH2 REMARK 470 GLU A 99 CG CD OE1 OE2 REMARK 470 ARG A 122 CZ NH1 NH2 REMARK 470 LYS A 123 CE 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 LEU A 31 17.24 59.52 REMARK 500 SER A 39 -120.35 52.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 382 DISTANCE = 7.43 ANGSTROMS REMARK 525 HOH A 383 DISTANCE = 8.07 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NR5 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 B 101 DBREF 6TON A 5 129 UNP P41182 BCL6_HUMAN 5 129 DBREF 6TON B 0 5 PDB 6TON 6TON 0 5 SEQADV 6TON GLY A 2 UNP P41182 EXPRESSION TAG SEQADV 6TON PRO A 3 UNP P41182 EXPRESSION TAG SEQADV 6TON 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 NR5 A 201 35 HET EDO A 202 4 HET EDO B 101 4 HETNAM NR5 5-[[5-CHLORANYL-2-(2,2,6,6-TETRAMETHYLMORPHOLIN-4-YL) HETNAM 2 NR5 PYRIMIDIN-4-YL]AMINO]-1-METHYL-3-(3-METHYL-3-OXIDANYL- HETNAM 3 NR5 BUTYL)BENZIMIDAZOL-2-ONE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NR5 C25 H35 CL N6 O3 FORMUL 4 EDO 2(C2 H6 O2) FORMUL 6 HOH *86(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 LEU A 112 1 12 HELIX 7 AA7 MET A 114 SER A 128 1 15 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 15 ASP A 17 ASN A 21 LEU A 25 ARG A 28 SITE 2 AC1 15 MET A 51 ALA A 52 CYS A 53 TYR A 58 SITE 3 AC1 15 GLN A 113 MET A 114 GLU A 115 HOH A 308 SITE 4 AC1 15 HOH A 313 HOH A 322 HOH A 334 SITE 1 AC2 3 GLU A 99 ILE A 125 SER A 128 SITE 1 AC3 4 ILE A 9 ASN A 73 PHE A 124 TRP B 1 CRYST1 67.503 67.503 170.053 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 0.014814 0.008553 0.000000 0.00000 SCALE2 0.000000 0.017106 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005881 0.00000