HEADER TRANSCRIPTION 11-DEC-19 6TOM
TITLE CRYSTAL STRUCTURE OF HUMAN BCL6 BTB DOMAIN IN COMPLEX WITH COMPOUND 1
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
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
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 6TOM 1 REMARK
REVDAT 2 06-MAY-20 6TOM 1 JRNL
REVDAT 1 22-APR-20 6TOM 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. 1.90 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) : 1.90
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.42
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 3 NUMBER OF REFLECTIONS : 18347
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) : 0.198
REMARK 3 R VALUE (WORKING SET) : 0.197
REMARK 3 FREE R VALUE : 0.218
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150
REMARK 3 FREE R VALUE TEST SET COUNT : 944
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 : 47
REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90
REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.91
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.73
REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 391
REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.1951
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 370
REMARK 3 BIN R VALUE (WORKING SET) : 0.1961
REMARK 3 BIN FREE R VALUE : 0.1787
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.37
REMARK 3 BIN FREE R VALUE TEST SET COUNT : 21
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 : 1030
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 47
REMARK 3 SOLVENT ATOMS : 95
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 41.91
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.90
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -1.17840
REMARK 3 B22 (A**2) : -1.17840
REMARK 3 B33 (A**2) : 2.35680
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) : 0.260
REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.122
REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.112
REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.112
REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.106
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 : 0.953
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956
REMARK 3
REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15
REMARK 3 TERM COUNT WEIGHT FUNCTION.
REMARK 3 BOND LENGTHS : 1138 ; 2.000 ; HARMONIC
REMARK 3 BOND ANGLES : 1542 ; 2.000 ; HARMONIC
REMARK 3 TORSION ANGLES : 409 ; 2.000 ; SINUSOIDAL
REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL
REMARK 3 GENERAL PLANES : 210 ; 5.000 ; HARMONIC
REMARK 3 ISOTROPIC THERMAL FACTORS : 1138 ; 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 : 152 ; 5.000 ; SEMIHARMONIC
REMARK 3 SUM OF OCCUPANCIES : 11 ; 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 : 1456 ; 4.000 ; SEMIHARMONIC
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES.
REMARK 3 BOND LENGTHS (A) : 0.010
REMARK 3 BOND ANGLES (DEGREES) : 1.00
REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.21
REMARK 3 OTHER TORSION ANGLES (DEGREES) : 14.98
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 9
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: {A|-1 - 13}
REMARK 3 ORIGIN FOR THE GROUP (A): -19.4685 30.1531 1.9681
REMARK 3 T TENSOR
REMARK 3 T11: -0.1184 T22: 0.0275
REMARK 3 T33: 0.0257 T12: -0.0614
REMARK 3 T13: -0.0053 T23: 0.0985
REMARK 3 L TENSOR
REMARK 3 L11: 5.0234 L22: 3.2979
REMARK 3 L33: 6.9340 L12: 4.2995
REMARK 3 L13: -1.1423 L23: -3.8424
REMARK 3 S TENSOR
REMARK 3 S11: -0.0256 S12: 0.2941 S13: 0.1033
REMARK 3 S21: -0.1838 S22: 0.0315 S23: -0.4694
REMARK 3 S31: -0.0791 S32: 0.2721 S33: -0.0059
REMARK 3
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: {A|14 - 33}
REMARK 3 ORIGIN FOR THE GROUP (A): -36.1506 25.2821 18.3297
REMARK 3 T TENSOR
REMARK 3 T11: 0.0155 T22: -0.0450
REMARK 3 T33: 0.0654 T12: 0.0268
REMARK 3 T13: 0.0117 T23: 0.0285
REMARK 3 L TENSOR
REMARK 3 L11: 4.9107 L22: 2.2332
REMARK 3 L33: 3.8823 L12: 1.5967
REMARK 3 L13: -0.7319 L23: -1.0781
REMARK 3 S TENSOR
REMARK 3 S11: 0.2170 S12: -0.2881 S13: 0.3991
REMARK 3 S21: 0.3448 S22: 0.0100 S23: 0.3972
REMARK 3 S31: -0.3702 S32: -0.1625 S33: -0.2270
REMARK 3
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: {A|34 - 46}
REMARK 3 ORIGIN FOR THE GROUP (A): -39.5033 13.7627 29.8376
REMARK 3 T TENSOR
REMARK 3 T11: -0.0193 T22: -0.0217
REMARK 3 T33: -0.0649 T12: -0.0510
REMARK 3 T13: 0.0508 T23: 0.0613
REMARK 3 L TENSOR
REMARK 3 L11: 3.8398 L22: 1.7543
REMARK 3 L33: 0.0000 L12: 0.8198
REMARK 3 L13: -3.8451 L23: 1.1302
REMARK 3 S TENSOR
REMARK 3 S11: 0.0538 S12: -0.5804 S13: -0.0742
REMARK 3 S21: 0.4883 S22: 0.0840 S23: 0.2891
REMARK 3 S31: 0.1724 S32: -0.2651 S33: -0.1378
REMARK 3
REMARK 3 TLS GROUP : 4
REMARK 3 SELECTION: {A|47 - 61}
REMARK 3 ORIGIN FOR THE GROUP (A): -31.8959 9.5547 18.8640
REMARK 3 T TENSOR
REMARK 3 T11: 0.0268 T22: -0.0949
REMARK 3 T33: 0.0344 T12: -0.0173
REMARK 3 T13: -0.0226 T23: 0.0172
REMARK 3 L TENSOR
REMARK 3 L11: 4.1410 L22: 5.0924
REMARK 3 L33: 5.3260 L12: 1.5876
REMARK 3 L13: -0.7311 L23: -2.6120
REMARK 3 S TENSOR
REMARK 3 S11: -0.0789 S12: 0.2171 S13: -0.3522
REMARK 3 S21: -0.1444 S22: 0.0400 S23: 0.0036
REMARK 3 S31: 0.4882 S32: 0.0134 S33: 0.0389
REMARK 3
REMARK 3 TLS GROUP : 5
REMARK 3 SELECTION: {A|62 - 68}
REMARK 3 ORIGIN FOR THE GROUP (A): -38.9915 1.6892 16.4818
REMARK 3 T TENSOR
REMARK 3 T11: 0.2146 T22: -0.0199
REMARK 3 T33: 0.0586 T12: -0.0954
REMARK 3 T13: -0.1367 T23: 0.0555
REMARK 3 L TENSOR
REMARK 3 L11: 1.0772 L22: 2.2079
REMARK 3 L33: 0.7046 L12: 0.1007
REMARK 3 L13: 1.8323 L23: 2.5945
REMARK 3 S TENSOR
REMARK 3 S11: 0.0487 S12: -0.0681 S13: -0.1183
REMARK 3 S21: -0.1287 S22: -0.0815 S23: -0.0196
REMARK 3 S31: 0.1344 S32: -0.3376 S33: 0.0328
REMARK 3
REMARK 3 TLS GROUP : 6
REMARK 3 SELECTION: {A|69 - 92}
REMARK 3 ORIGIN FOR THE GROUP (A): -32.3688 13.2831 29.5950
REMARK 3 T TENSOR
REMARK 3 T11: -0.0416 T22: -0.1601
REMARK 3 T33: -0.1098 T12: -0.0774
REMARK 3 T13: -0.0412 T23: 0.0425
REMARK 3 L TENSOR
REMARK 3 L11: 2.8302 L22: 3.2524
REMARK 3 L33: 2.7016 L12: 0.7611
REMARK 3 L13: -0.7177 L23: -0.7712
REMARK 3 S TENSOR
REMARK 3 S11: 0.2698 S12: -0.2732 S13: -0.0791
REMARK 3 S21: 0.6737 S22: -0.1250 S23: 0.0683
REMARK 3 S31: 0.0947 S32: -0.0059 S33: -0.1447
REMARK 3
REMARK 3 TLS GROUP : 7
REMARK 3 SELECTION: {A|93 - 101}
REMARK 3 ORIGIN FOR THE GROUP (A): -21.8048 21.8628 33.3366
REMARK 3 T TENSOR
REMARK 3 T11: 0.1156 T22: -0.0269
REMARK 3 T33: 0.0256 T12: -0.1422
REMARK 3 T13: -0.1156 T23: 0.0402
REMARK 3 L TENSOR
REMARK 3 L11: 2.5224 L22: -1.2204
REMARK 3 L33: 2.0997 L12: -0.4917
REMARK 3 L13: 0.4640 L23: 3.6285
REMARK 3 S TENSOR
REMARK 3 S11: 0.2409 S12: -0.3677 S13: 0.3523
REMARK 3 S21: 0.2795 S22: -0.2005 S23: -0.4085
REMARK 3 S31: -0.0401 S32: -0.0875 S33: -0.0403
REMARK 3
REMARK 3 TLS GROUP : 8
REMARK 3 SELECTION: {A|102 - 114}
REMARK 3 ORIGIN FOR THE GROUP (A): -23.4234 10.0930 30.7709
REMARK 3 T TENSOR
REMARK 3 T11: -0.0689 T22: -0.1862
REMARK 3 T33: -0.0557 T12: -0.0416
REMARK 3 T13: -0.1170 T23: 0.1079
REMARK 3 L TENSOR
REMARK 3 L11: 2.4390 L22: 4.9809
REMARK 3 L33: 2.3769 L12: 2.0854
REMARK 3 L13: -0.8377 L23: -0.8090
REMARK 3 S TENSOR
REMARK 3 S11: 0.0837 S12: -0.2634 S13: -0.2559
REMARK 3 S21: 0.5822 S22: -0.3810 S23: -0.4617
REMARK 3 S31: 0.1345 S32: 0.3228 S33: 0.2973
REMARK 3
REMARK 3 TLS GROUP : 9
REMARK 3 SELECTION: {A|115 - 129}
REMARK 3 ORIGIN FOR THE GROUP (A): -13.3844 14.4365 30.8167
REMARK 3 T TENSOR
REMARK 3 T11: 0.0245 T22: 0.0337
REMARK 3 T33: 0.2708 T12: 0.0075
REMARK 3 T13: -0.0814 T23: 0.1285
REMARK 3 L TENSOR
REMARK 3 L11: 10.0488 L22: 6.4763
REMARK 3 L33: 0.0203 L12: -0.9702
REMARK 3 L13: -1.6584 L23: -2.3341
REMARK 3 S TENSOR
REMARK 3 S11: -0.0683 S12: 0.2318 S13: -0.1967
REMARK 3 S21: 0.0595 S22: -0.0536 S23: -0.4682
REMARK 3 S31: -0.0580 S32: 0.0773 S33: 0.1219
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 6TOM 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_1292104976.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 15-JUL-19
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 7.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : DIAMOND
REMARK 200 BEAMLINE : I04-1
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.9159
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL
REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18447
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900
REMARK 200 RESOLUTION RANGE LOW (A) : 47.720
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 200 DATA REDUNDANCY : 12.00
REMARK 200 R MERGE (I) : 0.09800
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.4000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : 12.70
REMARK 200 R MERGE FOR SHELL (I) : 2.02100
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 (%): 62.66
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.29
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 MICROLITER OF BCL6-BTB AT 10 MG/ML
REMARK 280 PLUS 1.5 MICROLITER OF A CRYSTALLISATION SOLUTION CONSISTING OF
REMARK 280 0.1 M TRIS PH 7.5 AND 0.80 M NA/K TARTRATE, AGAINST 300
REMARK 280 MICROLITER OF CRYSTALLISATION SOLUTION., VAPOR DIFFUSION,
REMARK 280 HANGING DROP, 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 55.45967
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 110.91933
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 83.18950
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 138.64917
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 27.72983
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 55.45967
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 110.91933
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 138.64917
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 83.18950
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 27.72983
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: DIMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 5100 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 13540 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 -33.63950
REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 58.26532
REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 27.72983
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 -14
REMARK 465 PRO A -13
REMARK 465 GLY A -12
REMARK 465 LEU A -11
REMARK 465 ASP A -10
REMARK 465 TYR A -9
REMARK 465 LYS A -8
REMARK 465 ASP A -7
REMARK 465 ASP A -6
REMARK 465 ASP A -5
REMARK 465 ASP A -4
REMARK 465 LYS A -3
REMARK 465 GLU A -2
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 LEU A 0 CD1 CD2
REMARK 470 ASP A 6 OD2
REMARK 470 GLN A 64 CD OE1 NE2
REMARK 470 ARG A 94 NH2
REMARK 470 ARG A 98 NE CZ NH1 NH2
REMARK 470 GLU A 115 CD OE1 OE2
REMARK 470 LYS A 123 NZ
REMARK 470 LYS A 126 CD CE NZ
REMARK 470 GLU A 129 O
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 CYS A 8 150.51 -48.40
REMARK 500 LEU A 31 18.98 58.94
REMARK 500 SER A 39 -129.58 53.80
REMARK 500 SER A 93 3.59 80.98
REMARK 500 MET A 114 76.86 -116.14
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 NQZ 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
DBREF 6TOM A 5 129 UNP P41182 BCL6_HUMAN 5 129
SEQADV 6TOM GLY A -14 UNP P41182 EXPRESSION TAG
SEQADV 6TOM PRO A -13 UNP P41182 EXPRESSION TAG
SEQADV 6TOM GLY A -12 UNP P41182 EXPRESSION TAG
SEQADV 6TOM LEU A -11 UNP P41182 EXPRESSION TAG
SEQADV 6TOM ASP A -10 UNP P41182 EXPRESSION TAG
SEQADV 6TOM TYR A -9 UNP P41182 EXPRESSION TAG
SEQADV 6TOM LYS A -8 UNP P41182 EXPRESSION TAG
SEQADV 6TOM ASP A -7 UNP P41182 EXPRESSION TAG
SEQADV 6TOM ASP A -6 UNP P41182 EXPRESSION TAG
SEQADV 6TOM ASP A -5 UNP P41182 EXPRESSION TAG
SEQADV 6TOM ASP A -4 UNP P41182 EXPRESSION TAG
SEQADV 6TOM LYS A -3 UNP P41182 EXPRESSION TAG
SEQADV 6TOM GLU A -2 UNP P41182 EXPRESSION TAG
SEQADV 6TOM ASN A -1 UNP P41182 EXPRESSION TAG
SEQADV 6TOM LEU A 0 UNP P41182 EXPRESSION TAG
SEQADV 6TOM TYR A 1 UNP P41182 EXPRESSION TAG
SEQADV 6TOM PHE A 2 UNP P41182 EXPRESSION TAG
SEQADV 6TOM GLN A 3 UNP P41182 EXPRESSION TAG
SEQADV 6TOM GLY A 4 UNP P41182 EXPRESSION TAG
SEQRES 1 A 144 GLY PRO GLY LEU ASP TYR LYS ASP ASP ASP ASP LYS GLU
SEQRES 2 A 144 ASN LEU TYR PHE GLN GLY ALA ASP SER CYS ILE GLN PHE
SEQRES 3 A 144 THR ARG HIS ALA SER ASP VAL LEU LEU ASN LEU ASN ARG
SEQRES 4 A 144 LEU ARG SER ARG ASP ILE LEU THR ASP VAL VAL ILE VAL
SEQRES 5 A 144 VAL SER ARG GLU GLN PHE ARG ALA HIS LYS THR VAL LEU
SEQRES 6 A 144 MET ALA CYS SER GLY LEU PHE TYR SER ILE PHE THR ASP
SEQRES 7 A 144 GLN LEU LYS CYS ASN LEU SER VAL ILE ASN LEU ASP PRO
SEQRES 8 A 144 GLU ILE ASN PRO GLU GLY PHE CYS ILE LEU LEU ASP PHE
SEQRES 9 A 144 MET TYR THR SER ARG LEU ASN LEU ARG GLU GLY ASN ILE
SEQRES 10 A 144 MET ALA VAL MET ALA THR ALA MET TYR LEU GLN MET GLU
SEQRES 11 A 144 HIS VAL VAL ASP THR CYS ARG LYS PHE ILE LYS ALA SER
SEQRES 12 A 144 GLU
HET NQZ A 201 35
HET EDO A 202 4
HET EDO A 203 4
HET EDO A 204 4
HETNAM NQZ 5-[[2-[(3~{S},5~{R})-4,4-BIS(FLUORANYL)-3,5-DIMETHYL-
HETNAM 2 NQZ PIPERIDIN-1-YL]-5-CHLORANYL-PYRIMIDIN-4-YL]AMINO]-1-
HETNAM 3 NQZ METHYL-3-(3-METHYL-3-OXIDANYL-BUTYL)BENZIMIDAZOL-2-ONE
HETNAM EDO 1,2-ETHANEDIOL
HETSYN EDO ETHYLENE GLYCOL
FORMUL 2 NQZ C24 H31 CL F2 N6 O2
FORMUL 3 EDO 3(C2 H6 O2)
FORMUL 6 HOH *95(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 TYR A 1 GLN A 3 0
SHEET 2 AA1 2 ILE A 9 PHE A 11 -1 O GLN A 10 N PHE A 2
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 14 ASP A 17 LEU A 25 MET A 51 ALA A 52
SITE 2 AC1 14 CYS A 53 GLY A 55 TYR A 58 GLN A 113
SITE 3 AC1 14 MET A 114 GLU A 115 HOH A 301 HOH A 315
SITE 4 AC1 14 HOH A 351 HOH A 356
SITE 1 AC2 4 TYR A 1 GLN A 3 ASN A 73 HOH A 317
SITE 1 AC3 6 SER A 39 ARG A 40 PRO A 76 GLU A 77
SITE 2 AC3 6 ILE A 78 ASN A 79
SITE 1 AC4 4 GLU A 115 VAL A 118 ASP A 119 HOH A 306
CRYST1 67.279 67.279 166.379 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 0.014863 0.008581 0.000000 0.00000
SCALE2 0.000000 0.017163 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006010 0.00000