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