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 <I/SIGMA(I)> 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 <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 (%): 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