HEADER TRANSCRIPTION 11-DEC-19 6TOF TITLE CRYSTAL STRUCTURE OF HUMAN BCL6 BTB DOMAIN IN COMPLEX WITH COMPOUND 4 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 K.SHETTY,M.J.RODRIGUES,Y.-V.LE BIHAN,R.L.M.VAN MONTFORT REVDAT 3 24-JAN-24 6TOF 1 REMARK REVDAT 2 06-MAY-20 6TOF 1 JRNL REVDAT 1 22-APR-20 6TOF 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. 1.67 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 23605 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 1216 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) : 1.67 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.68 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.59 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 473 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2347 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 451 REMARK 3 BIN R VALUE (WORKING SET) : 0.2347 REMARK 3 BIN FREE R VALUE : 0.2344 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.65 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 22 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 : 1010 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 119 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.33840 REMARK 3 B22 (A**2) : -1.33840 REMARK 3 B33 (A**2) : 2.67690 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) : 0.220 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.084 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.087 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.077 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.081 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 : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 1111 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 1509 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 395 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 213 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 1111 ; 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 : 150 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : 15 ; 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 : 1441 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.97 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.32 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 13.85 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|6 - 27} REMARK 3 ORIGIN FOR THE GROUP (A): -40.3873 17.1553 -12.8303 REMARK 3 T TENSOR REMARK 3 T11: -0.0281 T22: 0.0345 REMARK 3 T33: -0.0523 T12: 0.0079 REMARK 3 T13: 0.0001 T23: -0.0343 REMARK 3 L TENSOR REMARK 3 L11: 3.3188 L22: 1.7297 REMARK 3 L33: 5.5745 L12: -1.3886 REMARK 3 L13: 3.7607 L23: -1.1894 REMARK 3 S TENSOR REMARK 3 S11: -0.0279 S12: -0.1622 S13: -0.0280 REMARK 3 S21: 0.0623 S22: 0.0133 S23: 0.1298 REMARK 3 S31: -0.1859 S32: -0.3760 S33: 0.0145 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: {A|28 - 40} REMARK 3 ORIGIN FOR THE GROUP (A): -23.3996 13.7572 -0.2975 REMARK 3 T TENSOR REMARK 3 T11: 0.0125 T22: 0.0208 REMARK 3 T33: -0.0205 T12: 0.0268 REMARK 3 T13: -0.0032 T23: -0.0095 REMARK 3 L TENSOR REMARK 3 L11: 2.8414 L22: 1.2828 REMARK 3 L33: 4.9122 L12: 1.1693 REMARK 3 L13: 2.5969 L23: -0.7649 REMARK 3 S TENSOR REMARK 3 S11: 0.0268 S12: -0.0906 S13: -0.2222 REMARK 3 S21: -0.0965 S22: 0.0478 S23: 0.0118 REMARK 3 S31: -0.0350 S32: -0.0418 S33: -0.0746 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: {A|41 - 46} REMARK 3 ORIGIN FOR THE GROUP (A): -24.4151 15.2311 1.4535 REMARK 3 T TENSOR REMARK 3 T11: 0.0285 T22: -0.0151 REMARK 3 T33: -0.0816 T12: 0.0071 REMARK 3 T13: -0.0007 T23: -0.0207 REMARK 3 L TENSOR REMARK 3 L11: 7.7193 L22: -0.5077 REMARK 3 L33: 0.9480 L12: 1.7887 REMARK 3 L13: 0.9825 L23: -2.7934 REMARK 3 S TENSOR REMARK 3 S11: 0.1690 S12: -0.4992 S13: -0.0343 REMARK 3 S21: 0.1225 S22: -0.0555 S23: 0.1043 REMARK 3 S31: 0.0302 S32: 0.0477 S33: -0.1135 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: {A|47 - 79} REMARK 3 ORIGIN FOR THE GROUP (A): -18.9560 23.4307 -4.7999 REMARK 3 T TENSOR REMARK 3 T11: -0.0327 T22: 0.0346 REMARK 3 T33: -0.0305 T12: -0.0270 REMARK 3 T13: 0.0078 T23: -0.0277 REMARK 3 L TENSOR REMARK 3 L11: 2.4043 L22: 1.4815 REMARK 3 L33: 1.8967 L12: 0.1155 REMARK 3 L13: 1.0181 L23: 0.2578 REMARK 3 S TENSOR REMARK 3 S11: 0.0603 S12: 0.1965 S13: -0.0511 REMARK 3 S21: -0.0596 S22: 0.0216 S23: -0.0866 REMARK 3 S31: -0.1119 S32: 0.2228 S33: -0.0819 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: {A|80 - 101} REMARK 3 ORIGIN FOR THE GROUP (A): -34.3575 24.9502 3.2062 REMARK 3 T TENSOR REMARK 3 T11: -0.0288 T22: 0.0344 REMARK 3 T33: -0.0403 T12: -0.0064 REMARK 3 T13: 0.0101 T23: -0.0191 REMARK 3 L TENSOR REMARK 3 L11: 2.7188 L22: 1.9004 REMARK 3 L33: 4.7878 L12: -0.6224 REMARK 3 L13: 0.5817 L23: 2.7530 REMARK 3 S TENSOR REMARK 3 S11: 0.0366 S12: -0.2459 S13: -0.0906 REMARK 3 S21: 0.1440 S22: -0.0856 S23: 0.0423 REMARK 3 S31: 0.1288 S32: -0.2072 S33: 0.0490 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: {A|102 - 129} REMARK 3 ORIGIN FOR THE GROUP (A): -32.1063 36.3394 2.9404 REMARK 3 T TENSOR REMARK 3 T11: -0.0166 T22: -0.0406 REMARK 3 T33: 0.0133 T12: 0.0161 REMARK 3 T13: -0.0207 T23: -0.0529 REMARK 3 L TENSOR REMARK 3 L11: 7.5401 L22: 2.7436 REMARK 3 L33: 3.5758 L12: -1.6670 REMARK 3 L13: -1.2153 L23: 1.4281 REMARK 3 S TENSOR REMARK 3 S11: -0.0110 S12: -0.2373 S13: 0.6299 REMARK 3 S21: -0.1168 S22: -0.0610 S23: -0.0161 REMARK 3 S31: -0.3943 S32: -0.2366 S33: 0.0720 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: {B|0 - 5} REMARK 3 ORIGIN FOR THE GROUP (A): -49.1368 22.8717 -23.0170 REMARK 3 T TENSOR REMARK 3 T11: -0.0215 T22: 0.0259 REMARK 3 T33: -0.0035 T12: 0.0573 REMARK 3 T13: -0.0134 T23: -0.0245 REMARK 3 L TENSOR REMARK 3 L11: 4.6070 L22: -0.0655 REMARK 3 L33: 0.0000 L12: -1.7744 REMARK 3 L13: 1.9002 L23: 1.9329 REMARK 3 S TENSOR REMARK 3 S11: -0.0325 S12: 0.0589 S13: 0.4076 REMARK 3 S21: 0.0368 S22: 0.0030 S23: 0.0400 REMARK 3 S31: 0.1343 S32: -0.0475 S33: 0.0296 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TOF 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_1292104811. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAY-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 : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23741 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.670 REMARK 200 RESOLUTION RANGE LOW (A) : 37.870 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.90 REMARK 200 R MERGE (I) : 0.16700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.70 REMARK 200 R MERGE FOR SHELL (I) : 4.36200 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 (%): 60.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 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 50.42333 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 100.84667 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 75.63500 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 126.05833 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 25.21167 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 50.42333 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 100.84667 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 126.05833 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 75.63500 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 25.21167 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: 6260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 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 0.00000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -25.21167 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 387 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 398 LIES ON A SPECIAL POSITION. 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 CB CG OD1 OD2 REMARK 470 ARG A 28 NH2 REMARK 470 ARG A 44 NH1 REMARK 470 GLN A 64 CD OE1 NE2 REMARK 470 ARG A 98 NE CZ NH1 NH2 REMARK 470 GLU A 99 OE1 REMARK 470 LYS A 123 CD 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 SER A 93 -1.28 73.66 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 NQE 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 A 205 DBREF 6TOF A 5 129 UNP P41182 BCL6_HUMAN 5 129 DBREF 6TOF B 0 5 PDB 6TOF 6TOF 0 5 SEQADV 6TOF GLY A 2 UNP P41182 EXPRESSION TAG SEQADV 6TOF PRO A 3 UNP P41182 EXPRESSION TAG SEQADV 6TOF 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 NQE A 201 21 HET EDO A 202 4 HET EDO A 203 4 HET EDO A 204 4 HET EDO A 205 4 HETNAM NQE 2-[(1,3-DIMETHYL-2-OXIDANYLIDENE-BENZIMIDAZOL-5-YL) HETNAM 2 NQE AMINO]PYRIDINE-3-CARBONITRILE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NQE C15 H13 N5 O FORMUL 4 EDO 4(C2 H6 O2) FORMUL 8 HOH *119(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 315 SITE 4 AC1 13 HOH A 385 SITE 1 AC2 5 ILE A 72 ASN A 73 HOH A 333 TRP B 1 SITE 2 AC2 5 ILE B 3 SITE 1 AC3 4 ASP A 63 GLN A 64 ARG A 98 GLU A 99 SITE 1 AC4 4 ARG A 26 SER A 27 ASP A 29 ARG A 44 SITE 1 AC5 3 MET A 110 TYR A 111 ALA B 5 CRYST1 66.222 66.222 151.270 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 0.015101 0.008718 0.000000 0.00000 SCALE2 0.000000 0.017437 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006611 0.00000