HEADER SIGNALING PROTEIN 25-JAN-07 2OO1 TITLE CRYSTAL STRUCTURE OF THE BROMO DOMAIN 2 OF HUMAN BROMODOMAIN TITLE 2 CONTAINING PROTEIN 3 (BRD3) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN-CONTAINING PROTEIN 3; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: BROMO 2 DOMAIN; COMPND 5 SYNONYM: RING3-LIKE PROTEIN; 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: BRD3, KIAA0043, RING3L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA-R3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS BRD3, BROMODOMAIN CONTAINING PROTEIN 3, ORFX, RING3 LIKE GENE, KEYWDS 2 RING3L, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, KEYWDS 3 SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.FILIPPAKOPOULOS,A.BULLOCK,E.PAPAGRIGORIOU,T.KEATES,C.COOPER,C.SMEE, AUTHOR 2 E.UGOCHUKWU,J.DEBRECZENI,F.VON DELFT,C.ARROWSMITH,A.EDWARDS, AUTHOR 3 J.WEIGELT,M.SUNDSTROM,S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 30-AUG-23 2OO1 1 REMARK SEQADV REVDAT 4 18-OCT-17 2OO1 1 REMARK REVDAT 3 11-APR-12 2OO1 1 JRNL VERSN REVDAT 2 24-FEB-09 2OO1 1 VERSN REVDAT 1 13-FEB-07 2OO1 0 JRNL AUTH P.FILIPPAKOPOULOS,S.PICAUD,M.MANGOS,T.KEATES,J.P.LAMBERT, JRNL AUTH 2 D.BARSYTE-LOVEJOY,I.FELLETAR,R.VOLKMER,S.MULLER,T.PAWSON, JRNL AUTH 3 A.C.GINGRAS,C.H.ARROWSMITH,S.KNAPP JRNL TITL HISTONE RECOGNITION AND LARGE-SCALE STRUCTURAL ANALYSIS OF JRNL TITL 2 THE HUMAN BROMODOMAIN FAMILY. JRNL REF CELL(CAMBRIDGE,MASS.) V. 149 214 2012 JRNL REFN ISSN 0092-8674 JRNL PMID 22464331 JRNL DOI 10.1016/J.CELL.2012.02.013 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 69114 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3417 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4726 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2510 REMARK 3 BIN FREE R VALUE SET COUNT : 265 REMARK 3 BIN FREE R VALUE : 0.3140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3573 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 475 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.38000 REMARK 3 B22 (A**2) : -0.81000 REMARK 3 B33 (A**2) : -0.57000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.093 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.093 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.943 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3728 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2627 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5016 ; 1.749 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6346 ; 1.010 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 440 ; 4.874 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 177 ;34.520 ;22.712 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 629 ;11.802 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;21.482 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 510 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4082 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 796 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 911 ; 0.228 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2779 ; 0.206 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1888 ; 0.193 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1744 ; 0.092 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 345 ; 0.156 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 12 ; 0.201 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 37 ; 0.257 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.225 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2225 ; 1.159 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 858 ; 0.357 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3576 ; 2.032 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1546 ; 3.053 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1438 ; 4.770 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. THE MOLECULE 7PE SHOULD BE A POLYETHYLENE GLYCOL REMARK 3 3350. ONLY THE FRAGMENT HAS BEEN BUILT DUE TO ELECTRON DENSITY REMARK 3 THAT WAS INCOMPLETE FOR FULL ASSIGNMENT. REMARK 4 REMARK 4 2OO1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041373. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-06 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97910 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 69114 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : 0.09400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PDB ENTRY 1X0J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NAF, 0.1M BTPROP, 20% PEG3350, REMARK 280 10% ETGLY, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 51.91850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.33900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 51.91850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.33900 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, 3, 4 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 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 SER A 304 REMARK 465 MET A 305 REMARK 465 GLY A 306 REMARK 465 SER B 304 REMARK 465 MET B 305 REMARK 465 GLY B 306 REMARK 465 SER C 304 REMARK 465 MET C 305 REMARK 465 GLY C 306 REMARK 465 SER D 304 REMARK 465 MET D 305 REMARK 465 GLY D 306 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 LYS A 307 CG CD CE NZ REMARK 470 LYS A 325 CD CE NZ REMARK 470 GLU A 341 CG CD OE1 OE2 REMARK 470 GLN A 374 CD OE1 NE2 REMARK 470 LYS A 403 NZ REMARK 470 LYS B 307 CG CD CE NZ REMARK 470 GLU B 310 CG CD OE1 OE2 REMARK 470 ARG B 313 CZ NH1 NH2 REMARK 470 LYS B 325 CD CE NZ REMARK 470 GLU B 341 CD OE1 OE2 REMARK 470 GLU B 344 CD OE1 OE2 REMARK 470 GLN B 374 CD OE1 NE2 REMARK 470 LYS B 403 CD CE NZ REMARK 470 LYS C 307 CG CD CE NZ REMARK 470 LEU C 308 CG CD1 CD2 REMARK 470 LYS C 325 CD CE NZ REMARK 470 LYS C 326 CE NZ REMARK 470 GLU C 341 CD OE1 OE2 REMARK 470 ARG C 368 NE CZ NH1 NH2 REMARK 470 LYS D 307 CG CD CE NZ REMARK 470 GLU D 310 OE1 OE2 REMARK 470 LYS D 325 CD CE NZ REMARK 470 GLU D 341 CD OE1 OE2 REMARK 470 GLN D 374 CD OE1 NE2 REMARK 470 LYS D 403 CE NZ 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 OE1 GLU A 369 O HOH A 3068 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLU D 369 O HOH A 3044 2655 1.92 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 ARG A 402 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ASP D 394 CB - CG - OD1 ANGL. DEV. = 5.9 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 LEU A 345 70.55 -112.55 REMARK 500 LEU C 345 67.92 -109.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 7PE C 5096 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA D 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO D 2960 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 2961 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2962 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 2963 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 2964 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO D 2965 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2966 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO D 2967 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 7PE C 5096 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2968 DBREF 2OO1 A 307 416 UNP Q15059 BRD3_HUMAN 307 416 DBREF 2OO1 B 307 416 UNP Q15059 BRD3_HUMAN 307 416 DBREF 2OO1 C 307 416 UNP Q15059 BRD3_HUMAN 307 416 DBREF 2OO1 D 307 416 UNP Q15059 BRD3_HUMAN 307 416 SEQADV 2OO1 SER A 304 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 MET A 305 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 GLY A 306 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 SER B 304 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 MET B 305 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 GLY B 306 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 SER C 304 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 MET C 305 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 GLY C 306 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 SER D 304 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 MET D 305 UNP Q15059 CLONING ARTIFACT SEQADV 2OO1 GLY D 306 UNP Q15059 CLONING ARTIFACT SEQRES 1 A 113 SER MET GLY LYS LEU SER GLU HIS LEU ARG TYR CYS ASP SEQRES 2 A 113 SER ILE LEU ARG GLU MET LEU SER LYS LYS HIS ALA ALA SEQRES 3 A 113 TYR ALA TRP PRO PHE TYR LYS PRO VAL ASP ALA GLU ALA SEQRES 4 A 113 LEU GLU LEU HIS ASP TYR HIS ASP ILE ILE LYS HIS PRO SEQRES 5 A 113 MET ASP LEU SER THR VAL LYS ARG LYS MET ASP GLY ARG SEQRES 6 A 113 GLU TYR PRO ASP ALA GLN GLY PHE ALA ALA ASP VAL ARG SEQRES 7 A 113 LEU MET PHE SER ASN CYS TYR LYS TYR ASN PRO PRO ASP SEQRES 8 A 113 HIS GLU VAL VAL ALA MET ALA ARG LYS LEU GLN ASP VAL SEQRES 9 A 113 PHE GLU MET ARG PHE ALA LYS MET PRO SEQRES 1 B 113 SER MET GLY LYS LEU SER GLU HIS LEU ARG TYR CYS ASP SEQRES 2 B 113 SER ILE LEU ARG GLU MET LEU SER LYS LYS HIS ALA ALA SEQRES 3 B 113 TYR ALA TRP PRO PHE TYR LYS PRO VAL ASP ALA GLU ALA SEQRES 4 B 113 LEU GLU LEU HIS ASP TYR HIS ASP ILE ILE LYS HIS PRO SEQRES 5 B 113 MET ASP LEU SER THR VAL LYS ARG LYS MET ASP GLY ARG SEQRES 6 B 113 GLU TYR PRO ASP ALA GLN GLY PHE ALA ALA ASP VAL ARG SEQRES 7 B 113 LEU MET PHE SER ASN CYS TYR LYS TYR ASN PRO PRO ASP SEQRES 8 B 113 HIS GLU VAL VAL ALA MET ALA ARG LYS LEU GLN ASP VAL SEQRES 9 B 113 PHE GLU MET ARG PHE ALA LYS MET PRO SEQRES 1 C 113 SER MET GLY LYS LEU SER GLU HIS LEU ARG TYR CYS ASP SEQRES 2 C 113 SER ILE LEU ARG GLU MET LEU SER LYS LYS HIS ALA ALA SEQRES 3 C 113 TYR ALA TRP PRO PHE TYR LYS PRO VAL ASP ALA GLU ALA SEQRES 4 C 113 LEU GLU LEU HIS ASP TYR HIS ASP ILE ILE LYS HIS PRO SEQRES 5 C 113 MET ASP LEU SER THR VAL LYS ARG LYS MET ASP GLY ARG SEQRES 6 C 113 GLU TYR PRO ASP ALA GLN GLY PHE ALA ALA ASP VAL ARG SEQRES 7 C 113 LEU MET PHE SER ASN CYS TYR LYS TYR ASN PRO PRO ASP SEQRES 8 C 113 HIS GLU VAL VAL ALA MET ALA ARG LYS LEU GLN ASP VAL SEQRES 9 C 113 PHE GLU MET ARG PHE ALA LYS MET PRO SEQRES 1 D 113 SER MET GLY LYS LEU SER GLU HIS LEU ARG TYR CYS ASP SEQRES 2 D 113 SER ILE LEU ARG GLU MET LEU SER LYS LYS HIS ALA ALA SEQRES 3 D 113 TYR ALA TRP PRO PHE TYR LYS PRO VAL ASP ALA GLU ALA SEQRES 4 D 113 LEU GLU LEU HIS ASP TYR HIS ASP ILE ILE LYS HIS PRO SEQRES 5 D 113 MET ASP LEU SER THR VAL LYS ARG LYS MET ASP GLY ARG SEQRES 6 D 113 GLU TYR PRO ASP ALA GLN GLY PHE ALA ALA ASP VAL ARG SEQRES 7 D 113 LEU MET PHE SER ASN CYS TYR LYS TYR ASN PRO PRO ASP SEQRES 8 D 113 HIS GLU VAL VAL ALA MET ALA ARG LYS LEU GLN ASP VAL SEQRES 9 D 113 PHE GLU MET ARG PHE ALA LYS MET PRO HET NA A 602 1 HET EDO A2962 4 HET EDO A2966 4 HET EDO A2968 4 HET EDO B2961 4 HET EDO B2963 4 HET EDO B2964 4 HET 7PE C5096 10 HET NA D 601 1 HET EDO D2960 4 HET EDO D2965 4 HET EDO D2967 4 HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM 7PE 2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY) HETNAM 2 7PE ETHOXY)ETHANOL HETSYN EDO ETHYLENE GLYCOL HETSYN 7PE POLYETHYLENE GLYCOL FRAGMENT FORMUL 5 NA 2(NA 1+) FORMUL 6 EDO 9(C2 H6 O2) FORMUL 12 7PE C14 H30 O7 FORMUL 17 HOH *475(H2 O) HELIX 1 1 SER A 309 SER A 324 1 16 HELIX 2 2 HIS A 327 TRP A 332 1 6 HELIX 3 3 PRO A 333 TYR A 335 5 3 HELIX 4 4 ASP A 339 GLU A 344 1 6 HELIX 5 5 ASP A 347 ILE A 352 1 6 HELIX 6 6 ASP A 357 GLY A 367 1 11 HELIX 7 7 ASP A 372 ASN A 391 1 20 HELIX 8 8 HIS A 395 LYS A 414 1 20 HELIX 9 9 SER B 309 LEU B 323 1 15 HELIX 10 10 SER B 324 LYS B 326 5 3 HELIX 11 11 HIS B 327 TRP B 332 1 6 HELIX 12 12 PRO B 333 TYR B 335 5 3 HELIX 13 13 ASP B 339 GLU B 344 1 6 HELIX 14 14 ASP B 347 ILE B 352 1 6 HELIX 15 15 ASP B 357 GLY B 367 1 11 HELIX 16 16 ASP B 372 ASN B 391 1 20 HELIX 17 17 HIS B 395 LYS B 414 1 20 HELIX 18 18 LYS C 307 SER C 324 1 18 HELIX 19 19 HIS C 327 TRP C 332 1 6 HELIX 20 20 PRO C 333 TYR C 335 5 3 HELIX 21 21 ASP C 339 GLU C 344 1 6 HELIX 22 22 ASP C 347 ILE C 352 1 6 HELIX 23 23 ASP C 357 GLY C 367 1 11 HELIX 24 24 ASP C 372 ASN C 391 1 20 HELIX 25 25 HIS C 395 LYS C 414 1 20 HELIX 26 26 SER D 309 LEU D 323 1 15 HELIX 27 27 SER D 324 LYS D 326 5 3 HELIX 28 28 HIS D 327 TRP D 332 1 6 HELIX 29 29 PRO D 333 TYR D 335 5 3 HELIX 30 30 ASP D 347 ILE D 352 1 6 HELIX 31 31 ASP D 357 GLY D 367 1 11 HELIX 32 32 ASP D 372 ASN D 391 1 20 HELIX 33 33 HIS D 395 LYS D 414 1 20 SITE 1 AC1 1 ARG D 402 SITE 1 AC2 2 LYS A 414 7PE C5096 SITE 1 AC3 7 TRP A 332 HOH A3026 TYR D 314 SER D 317 SITE 2 AC3 7 ILE D 318 GLU D 321 ARG D 411 SITE 1 AC4 7 TYR B 314 SER B 317 ILE B 318 GLU B 321 SITE 2 AC4 7 ARG B 411 TRP C 332 HOH C5146 SITE 1 AC5 3 ARG A 402 MET D 410 ARG D 411 SITE 1 AC6 6 GLN B 405 ASP B 406 HOH B2999 HOH B3040 SITE 2 AC6 6 GLN C 405 ASP C 406 SITE 1 AC7 5 PRO B 333 CYS B 387 ASN B 391 VAL B 397 SITE 2 AC7 5 HOH B2984 SITE 1 AC8 5 ASP A 406 GLN D 405 ASP D 406 EDO D2967 SITE 2 AC8 5 HOH D3071 SITE 1 AC9 2 ASP A 316 LYS A 362 SITE 1 BC1 6 ASP A 406 GLU A 409 MET A 410 TYR D 388 SITE 2 BC1 6 ARG D 402 EDO D2965 SITE 1 BC2 11 LYS A 414 NA A 602 EDO A2968 HOH B3020 SITE 2 BC2 11 TYR C 314 LYS C 414 HOH C5118 ILE D 351 SITE 3 BC2 11 LYS D 389 TYR D 390 HOH D3042 SITE 1 BC3 7 LYS A 414 HOH A3009 HOH A3010 PRO B 393 SITE 2 BC3 7 LYS C 414 7PE C5096 PRO D 393 CRYST1 103.837 64.678 91.827 90.00 90.00 90.00 P 21 21 2 16 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 0.009630 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015461 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010890 0.00000