HEADER HISTONE-BINDING PROTEIN 10-MAR-15 5AMF TITLE CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN SURFACE EPITOPE TITLE 2 ENGINEERED BRD1A IN COMPLEX WITH 3D CONSORTIUM FRAGMENT ETHYL 4,5,6, TITLE 3 7- TETRAHYDRO-1H-INDAZOLE-5-CARBOXYLATE (SGC - DIAMOND I04-1 FRAGMENT TITLE 4 SCREENING) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN-CONTAINING PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: BROMODOMAIN AND PHD FINGER, RESIDUES 556-688; COMPND 5 SYNONYM: BR140-LIKE PROTEIN, BROMODOMAIN AND PHD FINGER-CONTAINING COMPND 6 PROTEIN 2, BRD1A, BR140-LIKE PROTEIN; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: SURFACE EPITOPE ENGINEERED P566E, V569R SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS HISTONE-BINDING PROTEIN, BROMODOMAIN, EPIGENETIC, FRAGMENTSCREENING, KEYWDS 2 STRUCTURAL GENOMICS CONSORTIUM, SGC, DIAMOND I04-1 EXPDTA X-RAY DIFFRACTION AUTHOR N.M.PEARCE,M.FAIRHEAD,C.STRAIN-DAMERELL,R.TALON,N.WRIGHT,J.T.NG, AUTHOR 2 A.BRADLEY,O.COX,D.BOWKETT,P.COLLINS,J.BRANDAO-NETO,A.DOUANGAMATH, AUTHOR 3 T.KROJER,N.BURGESS-BROWN,P.BRENNAN,C.H.ARROWSMITH,E.EDWARDS, AUTHOR 4 C.BOUNTRA,F.VON DELFT REVDAT 4 01-MAY-24 5AMF 1 REMARK LINK REVDAT 3 06-MAR-19 5AMF 1 REMARK REVDAT 2 24-JAN-18 5AMF 1 JRNL REVDAT 1 18-MAR-15 5AMF 0 JRNL AUTH N.M.PEARCE,M.FAIRHEAD,C.STRAIN-DAMERELL,R.TALON,N.WRIGHT, JRNL AUTH 2 J.T.NG,A.BRADLEY,O.COX,D.BOWKETT,P.COLLINS,J.BRANDAO-NETO, JRNL AUTH 3 A.DOUANGAMATH,T.KROJER,N.BURGESS-BROWN,P.BRENNAN, JRNL AUTH 4 C.H.ARROWSMITH,E.EDWARDS,C.BOUNTRA,F.VON DELFT JRNL TITL CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN SURFACE JRNL TITL 2 EPITOPE ENGINEERED BRD1A IN COMPLEX WITH 3D CONSORTIUM JRNL TITL 3 FRAGMENT ETHYL 4,5,6,7-TETRAHYDRO-1H-INDAZOLE-5-CARBOXYLATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 32684 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1616 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.2946 - 4.0059 0.98 2720 143 0.1574 0.1634 REMARK 3 2 4.0059 - 3.1797 1.00 2658 135 0.1628 0.2360 REMARK 3 3 3.1797 - 2.7778 0.99 2606 125 0.1743 0.2079 REMARK 3 4 2.7778 - 2.5239 1.00 2570 172 0.1840 0.2401 REMARK 3 5 2.5239 - 2.3430 1.00 2576 139 0.1765 0.1982 REMARK 3 6 2.3430 - 2.2048 0.97 2546 97 0.1710 0.2047 REMARK 3 7 2.2048 - 2.0944 1.00 2583 123 0.1750 0.1822 REMARK 3 8 2.0944 - 2.0032 1.00 2578 132 0.1876 0.2246 REMARK 3 9 2.0032 - 1.9261 1.00 2565 138 0.2027 0.2718 REMARK 3 10 1.9261 - 1.8597 1.00 2557 140 0.2239 0.2402 REMARK 3 11 1.8597 - 1.8015 0.99 2550 140 0.2306 0.3228 REMARK 3 12 1.8015 - 1.7500 1.00 2559 132 0.2474 0.2733 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.41 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.019 2095 REMARK 3 ANGLE : 1.655 2843 REMARK 3 CHIRALITY : 0.088 313 REMARK 3 PLANARITY : 0.008 383 REMARK 3 DIHEDRAL : 16.275 828 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 22:60) REMARK 3 ORIGIN FOR THE GROUP (A): 7.3338 -2.4995 7.6836 REMARK 3 T TENSOR REMARK 3 T11: 0.1721 T22: 0.3263 REMARK 3 T33: 0.3749 T12: 0.0542 REMARK 3 T13: -0.0505 T23: 0.0040 REMARK 3 L TENSOR REMARK 3 L11: 0.9233 L22: 1.3594 REMARK 3 L33: 0.1625 L12: 0.4870 REMARK 3 L13: 0.0376 L23: 0.3435 REMARK 3 S TENSOR REMARK 3 S11: 0.2008 S12: 0.1439 S13: -0.0798 REMARK 3 S21: -0.0166 S22: -0.1552 S23: -0.7364 REMARK 3 S31: -0.0434 S32: 0.4397 S33: 0.0788 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 61:107) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2057 4.4207 9.5952 REMARK 3 T TENSOR REMARK 3 T11: 0.2176 T22: 0.2124 REMARK 3 T33: 0.1750 T12: -0.0053 REMARK 3 T13: -0.0035 T23: 0.0136 REMARK 3 L TENSOR REMARK 3 L11: 1.2300 L22: 0.4341 REMARK 3 L33: 0.4837 L12: -0.0352 REMARK 3 L13: -0.1798 L23: 0.0214 REMARK 3 S TENSOR REMARK 3 S11: 0.1352 S12: -0.0471 S13: -0.0659 REMARK 3 S21: 0.1359 S22: -0.0715 S23: -0.1178 REMARK 3 S31: -0.0525 S32: 0.0973 S33: 0.0019 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 108:127) REMARK 3 ORIGIN FOR THE GROUP (A): -12.1313 2.4875 -2.0721 REMARK 3 T TENSOR REMARK 3 T11: 0.2401 T22: 0.2027 REMARK 3 T33: 0.2086 T12: 0.0092 REMARK 3 T13: 0.0129 T23: -0.0190 REMARK 3 L TENSOR REMARK 3 L11: 0.1154 L22: 0.0632 REMARK 3 L33: 0.3019 L12: 0.1155 REMARK 3 L13: -0.1711 L23: -0.1527 REMARK 3 S TENSOR REMARK 3 S11: -0.0755 S12: 0.2117 S13: -0.1705 REMARK 3 S21: -0.0941 S22: 0.0569 S23: 0.2837 REMARK 3 S31: 0.0591 S32: 0.0439 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 128:144) REMARK 3 ORIGIN FOR THE GROUP (A): 2.0403 -15.1961 6.9317 REMARK 3 T TENSOR REMARK 3 T11: 0.4175 T22: 0.2953 REMARK 3 T33: 0.5492 T12: 0.0704 REMARK 3 T13: -0.0722 T23: 0.0087 REMARK 3 L TENSOR REMARK 3 L11: 0.0433 L22: 0.0463 REMARK 3 L33: 0.0365 L12: 0.0835 REMARK 3 L13: 0.0701 L23: -0.0450 REMARK 3 S TENSOR REMARK 3 S11: 0.0647 S12: -0.0690 S13: -0.1041 REMARK 3 S21: 0.1176 S22: -0.2690 S23: -1.0692 REMARK 3 S31: 0.7834 S32: -0.1895 S33: -0.0015 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B AND RESID 22:60) REMARK 3 ORIGIN FOR THE GROUP (A): -26.9920 -3.5783 28.1000 REMARK 3 T TENSOR REMARK 3 T11: 0.1591 T22: 0.1907 REMARK 3 T33: 0.2071 T12: -0.0296 REMARK 3 T13: -0.0150 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 0.3238 L22: 0.2335 REMARK 3 L33: 0.7727 L12: -0.1216 REMARK 3 L13: -0.4635 L23: 0.1205 REMARK 3 S TENSOR REMARK 3 S11: 0.0018 S12: -0.1101 S13: -0.0229 REMARK 3 S21: 0.0328 S22: 0.1153 S23: 0.0453 REMARK 3 S31: -0.0954 S32: -0.2353 S33: -0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 61:107) REMARK 3 ORIGIN FOR THE GROUP (A): -23.6882 -4.2939 14.6191 REMARK 3 T TENSOR REMARK 3 T11: 0.2078 T22: 0.1881 REMARK 3 T33: 0.1952 T12: 0.0201 REMARK 3 T13: -0.0136 T23: 0.0035 REMARK 3 L TENSOR REMARK 3 L11: -0.0869 L22: 0.7637 REMARK 3 L33: 0.9687 L12: 0.7145 REMARK 3 L13: -0.2385 L23: -0.5094 REMARK 3 S TENSOR REMARK 3 S11: 0.0504 S12: 0.0534 S13: -0.0200 REMARK 3 S21: -0.1373 S22: 0.0094 S23: -0.0434 REMARK 3 S31: 0.2593 S32: 0.1128 S33: 0.0001 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN B AND RESID 108:127) REMARK 3 ORIGIN FOR THE GROUP (A): -22.9230 9.9056 10.0539 REMARK 3 T TENSOR REMARK 3 T11: 0.1688 T22: 0.1751 REMARK 3 T33: 0.1871 T12: 0.0186 REMARK 3 T13: -0.0102 T23: 0.0095 REMARK 3 L TENSOR REMARK 3 L11: 0.1025 L22: 0.3524 REMARK 3 L33: 0.1309 L12: 0.1720 REMARK 3 L13: -0.1514 L23: -0.2341 REMARK 3 S TENSOR REMARK 3 S11: 0.0547 S12: 0.0057 S13: 0.0617 REMARK 3 S21: -0.0775 S22: 0.0002 S23: -0.0378 REMARK 3 S31: -0.0526 S32: -0.0396 S33: 0.0001 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN B AND RESID 128:144) REMARK 3 ORIGIN FOR THE GROUP (A): -16.4129 2.2846 32.0131 REMARK 3 T TENSOR REMARK 3 T11: 0.2284 T22: 0.2296 REMARK 3 T33: 0.2348 T12: -0.0327 REMARK 3 T13: -0.0367 T23: 0.0189 REMARK 3 L TENSOR REMARK 3 L11: 0.0798 L22: 0.1254 REMARK 3 L33: 0.0734 L12: -0.0142 REMARK 3 L13: 0.1013 L23: -0.0012 REMARK 3 S TENSOR REMARK 3 S11: -0.0684 S12: 0.0791 S13: 0.1155 REMARK 3 S21: 0.2063 S22: -0.0946 S23: -0.3381 REMARK 3 S31: -0.0707 S32: 0.2965 S33: -0.0005 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5AMF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1290063287. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 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) : 0.9200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32740 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 49.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 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: IN-HOUSE MODEL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS PH 7.0 , 30% PEG3350, REMARK 280 293 K, 12 HOURS, PH 6.2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 -1.000000 0.000000 0.000000 27.77500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.84500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.16500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.84500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.77500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.16500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 LEU A 143 REMARK 465 GLU A 144 REMARK 465 GLU A 145 REMARK 465 ALA A 146 REMARK 465 SER A 147 REMARK 465 GLY A 148 REMARK 465 MET A 149 REMARK 465 HIS A 150 REMARK 465 LEU A 151 REMARK 465 PRO A 152 REMARK 465 GLU A 153 REMARK 465 ARG A 154 REMARK 465 PRO A 155 REMARK 465 ALA A 156 REMARK 465 GLU B 145 REMARK 465 ALA B 146 REMARK 465 SER B 147 REMARK 465 GLY B 148 REMARK 465 MET B 149 REMARK 465 HIS B 150 REMARK 465 LEU B 151 REMARK 465 PRO B 152 REMARK 465 GLU B 153 REMARK 465 ARG B 154 REMARK 465 PRO B 155 REMARK 465 ALA B 156 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 GLU A 24 CG CD OE1 OE2 REMARK 470 MET A 28 CE REMARK 470 LEU A 30 CG CD1 CD2 REMARK 470 ARG A 31 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 37 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 62 CD CE NZ REMARK 470 LYS A 82 CG CD CE NZ REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 ARG A 132 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 141 CG1 CG2 CD1 REMARK 470 LYS B 62 CG CD CE NZ REMARK 470 GLU B 63 CG CD OE1 OE2 REMARK 470 LYS B 90 CG CD CE NZ REMARK 470 ARG B 136 NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU B 34 O HOH B 2013 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 66 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP B 125 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 ASP B 50 64.93 -119.80 REMARK 500 ASP B 113 57.06 -93.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2012 DISTANCE = 5.87 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 ETHYL 4,5,6,7-TETRAHYDRO-1H-INDAZOLE-5-CARBOXYLATE (LIG): REMARK 600 3D CONSORTIUM FRAGMENT, SGC NAMES N11075A, FMO3D000387A REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1145 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 108 O REMARK 620 2 HOH A2089 O 101.8 REMARK 620 3 HOH A2090 O 74.6 87.8 REMARK 620 4 MET B 107 O 89.8 104.0 162.2 REMARK 620 5 ASN B 110 O 154.7 103.3 102.8 87.5 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TWL A 1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1145 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5AME RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN SURFACE EPITOPE REMARK 900 ENGINEERED BRD1A IN COMPLEX WITH 3D CONSORTIUM FRAGMENT 4-ACETYL- REMARK 900 PIPERAZIN-2-ONE (SGC - DIAMOND I04- 1 FRAGMENT SCREENING) REMARK 999 REMARK 999 SEQUENCE REMARK 999 EPITOPE ENGINEERED MUTATIONS P566E,V569R DBREF 5AMF A 24 156 UNP O95696 BRD1_HUMAN 556 688 DBREF 5AMF B 24 156 UNP O95696 BRD1_HUMAN 556 688 SEQADV 5AMF SER A 22 UNP O95696 EXPRESSION TAG SEQADV 5AMF MET A 23 UNP O95696 EXPRESSION TAG SEQADV 5AMF GLU A 34 UNP O95696 PRO 566 ENGINEERED MUTATION SEQADV 5AMF ARG A 37 UNP O95696 VAL 569 ENGINEERED MUTATION SEQADV 5AMF SER B 22 UNP O95696 EXPRESSION TAG SEQADV 5AMF MET B 23 UNP O95696 EXPRESSION TAG SEQADV 5AMF GLU B 34 UNP O95696 PRO 566 ENGINEERED MUTATION SEQADV 5AMF ARG B 37 UNP O95696 VAL 569 ENGINEERED MUTATION SEQRES 1 A 135 SER MET GLU GLN VAL ALA MET GLU LEU ARG LEU THR GLU SEQRES 2 A 135 LEU THR ARG LEU LEU ARG SER VAL LEU ASP GLN LEU GLN SEQRES 3 A 135 ASP LYS ASP PRO ALA ARG ILE PHE ALA GLN PRO VAL SER SEQRES 4 A 135 LEU LYS GLU VAL PRO ASP TYR LEU ASP HIS ILE LYS HIS SEQRES 5 A 135 PRO MET ASP PHE ALA THR MET ARG LYS ARG LEU GLU ALA SEQRES 6 A 135 GLN GLY TYR LYS ASN LEU HIS GLU PHE GLU GLU ASP PHE SEQRES 7 A 135 ASP LEU ILE ILE ASP ASN CYS MET LYS TYR ASN ALA ARG SEQRES 8 A 135 ASP THR VAL PHE TYR ARG ALA ALA VAL ARG LEU ARG ASP SEQRES 9 A 135 GLN GLY GLY VAL VAL LEU ARG GLN ALA ARG ARG GLU VAL SEQRES 10 A 135 ASP SER ILE GLY LEU GLU GLU ALA SER GLY MET HIS LEU SEQRES 11 A 135 PRO GLU ARG PRO ALA SEQRES 1 B 135 SER MET GLU GLN VAL ALA MET GLU LEU ARG LEU THR GLU SEQRES 2 B 135 LEU THR ARG LEU LEU ARG SER VAL LEU ASP GLN LEU GLN SEQRES 3 B 135 ASP LYS ASP PRO ALA ARG ILE PHE ALA GLN PRO VAL SER SEQRES 4 B 135 LEU LYS GLU VAL PRO ASP TYR LEU ASP HIS ILE LYS HIS SEQRES 5 B 135 PRO MET ASP PHE ALA THR MET ARG LYS ARG LEU GLU ALA SEQRES 6 B 135 GLN GLY TYR LYS ASN LEU HIS GLU PHE GLU GLU ASP PHE SEQRES 7 B 135 ASP LEU ILE ILE ASP ASN CYS MET LYS TYR ASN ALA ARG SEQRES 8 B 135 ASP THR VAL PHE TYR ARG ALA ALA VAL ARG LEU ARG ASP SEQRES 9 B 135 GLN GLY GLY VAL VAL LEU ARG GLN ALA ARG ARG GLU VAL SEQRES 10 B 135 ASP SER ILE GLY LEU GLU GLU ALA SER GLY MET HIS LEU SEQRES 11 B 135 PRO GLU ARG PRO ALA HET TWL A1143 14 HET NA B1145 1 HETNAM TWL ETHYL (5R)-4,5,6,7-TETRAHYDRO-1H-INDAZOLE-5-CARBOXYLATE HETNAM NA SODIUM ION FORMUL 3 TWL C10 H14 N2 O2 FORMUL 4 NA NA 1+ FORMUL 5 HOH *239(H2 O) HELIX 1 1 SER A 22 LYS A 49 1 28 HELIX 2 2 ASP A 66 ILE A 71 1 6 HELIX 3 3 ASP A 76 ALA A 86 1 11 HELIX 4 4 ASN A 91 ASN A 110 1 20 HELIX 5 5 THR A 114 GLY A 142 1 29 HELIX 6 6 SER B 22 LYS B 49 1 28 HELIX 7 7 ASP B 66 ILE B 71 1 6 HELIX 8 8 ASP B 76 ALA B 86 1 11 HELIX 9 9 ASN B 91 ASN B 110 1 20 HELIX 10 10 THR B 114 GLY B 142 1 29 LINK O LYS A 108 NA NA B1145 1555 1555 2.38 LINK O HOH A2089 NA NA B1145 1555 1555 2.40 LINK O HOH A2090 NA NA B1145 1555 1555 2.42 LINK O MET B 107 NA NA B1145 1555 1555 2.32 LINK O ASN B 110 NA NA B1145 1555 1555 2.34 SITE 1 AC1 9 ILE A 54 VAL A 59 TYR A 67 CYS A 106 SITE 2 AC1 9 TYR A 109 ASN A 110 PHE A 116 HOH A2083 SITE 3 AC1 9 MET B 23 SITE 1 AC2 6 LYS A 108 HOH A2089 HOH A2090 MET B 107 SITE 2 AC2 6 ASN B 110 TYR B 117 CRYST1 55.550 56.330 101.690 90.00 90.00 90.00 P 21 21 21 8 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 0.018002 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017753 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009834 0.00000