HEADER TRANSCRIPTION 11-DEC-19 6TOO
TITLE CRYSTAL STRUCTURE OF HUMAN BCL6 BTB DOMAIN IN COMPLEX WITH COMPOUND
TITLE 2 11A
CAVEAT 6TOO NR8 A 201 HAS WRONG CHIRALITY AT ATOM C15
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,M.J.RODRIGUES,Y.-V.LE BIHAN,R.L.M.VAN MONTFORT
REVDAT 3 24-JAN-24 6TOO 1 REMARK
REVDAT 2 06-MAY-20 6TOO 1 JRNL
REVDAT 1 22-APR-20 6TOO 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. 1.53 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) : 1.53
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.85
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9
REMARK 3 NUMBER OF REFLECTIONS : 34785
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) : 0.177
REMARK 3 R VALUE (WORKING SET) : 0.176
REMARK 3 FREE R VALUE : 0.195
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030
REMARK 3 FREE R VALUE TEST SET COUNT : 1750
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) : 1.53
REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.54
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.56
REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 696
REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.3016
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 661
REMARK 3 BIN R VALUE (WORKING SET) : 0.3023
REMARK 3 BIN FREE R VALUE : 0.2848
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.03
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 : 1024
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 38
REMARK 3 SOLVENT ATOMS : 186
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 21.50
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.55
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.97750
REMARK 3 B22 (A**2) : -0.97750
REMARK 3 B33 (A**2) : 1.95500
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) : 0.190
REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.066
REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.065
REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.059
REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.060
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 : 0.962
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 : 1245 ; 2.000 ; HARMONIC
REMARK 3 BOND ANGLES : 1707 ; 2.000 ; HARMONIC
REMARK 3 TORSION ANGLES : 451 ; 2.000 ; SINUSOIDAL
REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL
REMARK 3 GENERAL PLANES : 240 ; 5.000 ; HARMONIC
REMARK 3 ISOTROPIC THERMAL FACTORS : 1245 ; 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 : 165 ; 5.000 ; SEMIHARMONIC
REMARK 3 SUM OF OCCUPANCIES : 21 ; 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 : 1674 ; 4.000 ; SEMIHARMONIC
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES.
REMARK 3 BOND LENGTHS (A) : 0.010
REMARK 3 BOND ANGLES (DEGREES) : 0.95
REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.34
REMARK 3 OTHER TORSION ANGLES (DEGREES) : 13.67
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 8
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: {A|5 - 27}
REMARK 3 ORIGIN FOR THE GROUP (A): 28.5213 -28.0227 11.8788
REMARK 3 T TENSOR
REMARK 3 T11: -0.0569 T22: -0.0341
REMARK 3 T33: -0.0978 T12: -0.0320
REMARK 3 T13: 0.0019 T23: -0.0288
REMARK 3 L TENSOR
REMARK 3 L11: 3.7472 L22: 1.1656
REMARK 3 L33: 6.2764 L12: 0.3375
REMARK 3 L13: 2.6816 L23: 1.1761
REMARK 3 S TENSOR
REMARK 3 S11: 0.0884 S12: 0.0769 S13: -0.1606
REMARK 3 S21: 0.1957 S22: -0.0746 S23: 0.0407
REMARK 3 S31: 0.3904 S32: -0.3598 S33: -0.0137
REMARK 3
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: {A|28 - 40}
REMARK 3 ORIGIN FOR THE GROUP (A): 41.5119 -15.4258 27.1074
REMARK 3 T TENSOR
REMARK 3 T11: 0.0959 T22: 0.1139
REMARK 3 T33: 0.0629 T12: -0.0156
REMARK 3 T13: -0.0462 T23: -0.0607
REMARK 3 L TENSOR
REMARK 3 L11: 1.1558 L22: 1.4815
REMARK 3 L33: 1.5141 L12: 0.5620
REMARK 3 L13: 0.2047 L23: 0.0635
REMARK 3 S TENSOR
REMARK 3 S11: 0.1678 S12: -0.0878 S13: 0.1009
REMARK 3 S21: 0.1890 S22: 0.1624 S23: -0.4639
REMARK 3 S31: -0.0569 S32: 0.3813 S33: -0.3302
REMARK 3
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: {A|41 - 46}
REMARK 3 ORIGIN FOR THE GROUP (A): 39.7887 -15.8514 29.0363
REMARK 3 T TENSOR
REMARK 3 T11: -0.0571 T22: -0.0645
REMARK 3 T33: -0.1395 T12: -0.0156
REMARK 3 T13: -0.0338 T23: -0.0522
REMARK 3 L TENSOR
REMARK 3 L11: 0.9692 L22: 2.1890
REMARK 3 L33: 1.1182 L12: 0.2957
REMARK 3 L13: 1.8814 L23: 1.4711
REMARK 3 S TENSOR
REMARK 3 S11: 0.0299 S12: -0.1914 S13: 0.1488
REMARK 3 S21: 0.3244 S22: 0.1730 S23: -0.1628
REMARK 3 S31: -0.1141 S32: 0.1755 S33: -0.2029
REMARK 3
REMARK 3 TLS GROUP : 4
REMARK 3 SELECTION: {A|47 - 92}
REMARK 3 ORIGIN FOR THE GROUP (A): 33.6347 -9.9463 24.1523
REMARK 3 T TENSOR
REMARK 3 T11: 0.0103 T22: -0.0626
REMARK 3 T33: -0.0449 T12: -0.0306
REMARK 3 T13: 0.0349 T23: -0.0181
REMARK 3 L TENSOR
REMARK 3 L11: 1.5116 L22: 2.9912
REMARK 3 L33: 2.1898 L12: 1.0730
REMARK 3 L13: -0.3015 L23: 1.2171
REMARK 3 S TENSOR
REMARK 3 S11: 0.1168 S12: -0.0120 S13: 0.1279
REMARK 3 S21: 0.0818 S22: 0.0498 S23: -0.0419
REMARK 3 S31: -0.2300 S32: 0.0376 S33: -0.1666
REMARK 3
REMARK 3 TLS GROUP : 5
REMARK 3 SELECTION: {A|93 - 101}
REMARK 3 ORIGIN FOR THE GROUP (A): 22.5875 -23.2684 31.7036
REMARK 3 T TENSOR
REMARK 3 T11: 0.1050 T22: -0.0153
REMARK 3 T33: -0.0464 T12: -0.0970
REMARK 3 T13: 0.0590 T23: -0.0075
REMARK 3 L TENSOR
REMARK 3 L11: 3.5441 L22: 1.7183
REMARK 3 L33: 0.7837 L12: 1.7349
REMARK 3 L13: 0.3279 L23: -2.2795
REMARK 3 S TENSOR
REMARK 3 S11: 0.1016 S12: -0.2426 S13: -0.1270
REMARK 3 S21: 0.3376 S22: -0.2314 S23: 0.1568
REMARK 3 S31: 0.0858 S32: 0.1588 S33: 0.1298
REMARK 3
REMARK 3 TLS GROUP : 6
REMARK 3 SELECTION: {A|102 - 114}
REMARK 3 ORIGIN FOR THE GROUP (A): 23.4248 -10.3799 30.6497
REMARK 3 T TENSOR
REMARK 3 T11: 0.0131 T22: -0.0649
REMARK 3 T33: -0.0478 T12: -0.0451
REMARK 3 T13: 0.0750 T23: -0.0434
REMARK 3 L TENSOR
REMARK 3 L11: 2.1832 L22: 5.1418
REMARK 3 L33: 5.2878 L12: 1.9158
REMARK 3 L13: -0.8317 L23: -0.4438
REMARK 3 S TENSOR
REMARK 3 S11: 0.2541 S12: -0.1665 S13: 0.3000
REMARK 3 S21: 0.4565 S22: -0.2460 S23: 0.4264
REMARK 3 S31: -0.0155 S32: -0.4011 S33: -0.0081
REMARK 3
REMARK 3 TLS GROUP : 7
REMARK 3 SELECTION: {A|115 - 129}
REMARK 3 ORIGIN FOR THE GROUP (A): 13.7673 -14.7161 30.4753
REMARK 3 T TENSOR
REMARK 3 T11: 0.0111 T22: 0.0187
REMARK 3 T33: 0.0823 T12: -0.0735
REMARK 3 T13: 0.1093 T23: -0.0971
REMARK 3 L TENSOR
REMARK 3 L11: 7.8617 L22: 8.1356
REMARK 3 L33: 0.1332 L12: 0.4173
REMARK 3 L13: -2.8253 L23: -0.3481
REMARK 3 S TENSOR
REMARK 3 S11: -0.0816 S12: 0.1869 S13: 0.1984
REMARK 3 S21: 0.3563 S22: -0.2292 S23: 0.7430
REMARK 3 S31: 0.1184 S32: -0.2245 S33: 0.3108
REMARK 3
REMARK 3 TLS GROUP : 8
REMARK 3 SELECTION: {B|0 - 5}
REMARK 3 ORIGIN FOR THE GROUP (A): 19.3965 -32.5281 2.1735
REMARK 3 T TENSOR
REMARK 3 T11: -0.0745 T22: 0.1124
REMARK 3 T33: -0.0429 T12: -0.0283
REMARK 3 T13: -0.0203 T23: -0.0773
REMARK 3 L TENSOR
REMARK 3 L11: 2.3146 L22: 2.3792
REMARK 3 L33: 0.0739 L12: 2.1223
REMARK 3 L13: -0.4256 L23: 0.8339
REMARK 3 S TENSOR
REMARK 3 S11: 0.1279 S12: -0.0593 S13: 0.0219
REMARK 3 S21: 0.0382 S22: -0.0143 S23: 0.0448
REMARK 3 S31: 0.1018 S32: 0.1315 S33: -0.1136
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 6TOO 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_1292104948.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 07-MAR-16
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 0.7.4
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34884
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.530
REMARK 200 RESOLUTION RANGE LOW (A) : 47.850
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 200 DATA REDUNDANCY : 18.00
REMARK 200 R MERGE (I) : 0.13500
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.6000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.53
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : 17.90
REMARK 200 R MERGE FOR SHELL (I) : 3.02200
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: 3BIM
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 65.90
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.61
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 55.09600
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 110.19200
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 82.64400
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 137.74000
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 27.54800
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 55.09600
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 110.19200
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 137.74000
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 82.64400
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 27.54800
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 300 REMARK: A, [EDO]B:101 12_545, [EDO]A:203, A 12_545, [EDO]B:101,
REMARK 300 [EDO]A:203 12_545, B, [EDO]A:202
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 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 APPLY THE FOLLOWING TO CHAINS: A, B
REMARK 350 BIOMT1 2 0.500000 0.866025 0.000000 33.88750
REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -58.69487
REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 27.54800
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 324 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A 425 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 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 GLN A 64 OE1
REMARK 470 GLU A 99 CD OE1 OE2
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 SER A 39 -131.38 60.57
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 NR8 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 B 101
DBREF 6TOO A 5 129 UNP P41182 BCL6_HUMAN 5 129
DBREF 6TOO B 0 5 PDB 6TOO 6TOO 0 5
SEQADV 6TOO GLY A 2 UNP P41182 EXPRESSION TAG
SEQADV 6TOO PRO A 3 UNP P41182 EXPRESSION TAG
SEQADV 6TOO 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 NR8 A 201 31
HET EDO A 202 4
HET EDO A 203 4
HET EDO B 101 4
HETNAM NR8 2-CHLORANYL-4-[[1-METHYL-3-[(2~{S})-2-OXIDANYLBUTYL]-2-
HETNAM 2 NR8 OXIDANYLIDENE-BENZIMIDAZOL-5-YL]AMINO]PYRIDINE-3-
HETNAM 3 NR8 CARBONITRILE
HETNAM EDO 1,2-ETHANEDIOL
HETSYN EDO ETHYLENE GLYCOL
FORMUL 3 NR8 C18 H18 CL N5 O2
FORMUL 4 EDO 3(C2 H6 O2)
FORMUL 7 HOH *186(H2 O)
HELIX 1 AA1 ARG A 13 ARG A 28 1 16
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 16 ASP A 17 ASN A 21 ARG A 24 LEU A 25
SITE 2 AC1 16 MET A 51 ALA A 52 CYS A 53 GLY A 55
SITE 3 AC1 16 TYR A 58 GLN A 113 MET A 114 GLU A 115
SITE 4 AC1 16 HOH A 312 HOH A 343 HOH A 354 HOH A 374
SITE 1 AC2 6 ASP A 6 SER A 59 ILE A 60 HOH A 305
SITE 2 AC2 6 HOH A 318 HOH A 372
SITE 1 AC3 4 ASP A 29 THR A 32 HOH A 371 HOH A 410
SITE 1 AC4 6 VAL A 71 ILE A 72 ASN A 73 TRP B 1
SITE 2 AC4 6 VAL B 2 ILE B 3
CRYST1 67.775 67.775 165.288 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 0.014755 0.008519 0.000000 0.00000
SCALE2 0.000000 0.017037 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006050 0.00000