HEADER GENE REGULATION 07-FEB-17 5PSV TITLE PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF BRD1 AFTER TITLE 2 INITIAL REFINEMENT WITH NO LIGAND MODELLED (STRUCTURE 139) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN-CONTAINING PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BR140-LIKE PROTEIN,BROMODOMAIN AND PHD FINGER-CONTAINING COMPND 5 PROTEIN 2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: BRD1, BRL, BRPF2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PANDDA, SGC - DIAMOND I04-1 FRAGMENT SCREENING, BROMODOMAIN, KEYWDS 2 EPIGENETICS, XCHEMEXPLORER, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR N.M.PEARCE,T.KROJER,R.TALON,A.R.BRADLEY,M.FAIRHEAD,R.SETHI,N.WRIGHT, AUTHOR 2 E.MACLEAN,P.COLLINS,J.BRANDAO-NETO,A.DOUANGAMATH,Z.RENJIE,A.DIAS, AUTHOR 3 J.NG,P.E.BRENNAN,O.COX,C.BOUNTRA,C.H.ARROWSMITH,A.EDWARDS,F.VON AUTHOR 4 DELFT REVDAT 4 06-MAR-24 5PSV 1 LINK REVDAT 3 04-OCT-17 5PSV 1 REMARK REVDAT 2 27-SEP-17 5PSV 1 JRNL REMARK REVDAT 1 29-MAR-17 5PSV 0 JRNL AUTH N.M.PEARCE,T.KROJER,A.R.BRADLEY,P.COLLINS,R.P.NOWAK,R.TALON, JRNL AUTH 2 B.D.MARSDEN,S.KELM,J.SHI,C.M.DEANE,F.VON DELFT JRNL TITL A MULTI-CRYSTAL METHOD FOR EXTRACTING OBSCURED JRNL TITL 2 CRYSTALLOGRAPHIC STATES FROM CONVENTIONALLY UNINTERPRETABLE JRNL TITL 3 ELECTRON DENSITY. JRNL REF NAT COMMUN V. 8 15123 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 28436492 JRNL DOI 10.1038/NCOMMS15123 REMARK 2 REMARK 2 RESOLUTION. 1.53 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 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) : 1.53 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 46308 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2386 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) : 1.53 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3356 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.2660 REMARK 3 BIN FREE R VALUE SET COUNT : 160 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1953 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 259 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.31000 REMARK 3 B22 (A**2) : -0.38000 REMARK 3 B33 (A**2) : -0.93000 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): 0.072 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.076 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.540 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2083 ; 0.025 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2008 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2815 ; 2.096 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4599 ; 1.117 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 264 ; 4.644 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 114 ;35.419 ;23.509 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 380 ;13.601 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;12.968 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 311 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2388 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 493 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1002 ; 2.183 ; 2.024 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1001 ; 2.162 ; 2.020 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1257 ; 2.954 ; 3.019 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5PSV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1001401072. 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 : 7 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) : NULL 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 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.3.6 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48752 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.530 REMARK 200 RESOLUTION RANGE LOW (A) : 29.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.53 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.78700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 5AMF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS PH 7.0 -- 30% PEG3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 27.69750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.89100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.24200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.89100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.69750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.24200 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 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 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 MET A 1 REMARK 465 HIS A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 SER A 8 REMARK 465 SER A 9 REMARK 465 GLY A 10 REMARK 465 VAL A 11 REMARK 465 ASP A 12 REMARK 465 LEU A 13 REMARK 465 GLY A 14 REMARK 465 THR A 15 REMARK 465 GLU A 16 REMARK 465 ASN A 17 REMARK 465 LEU A 18 REMARK 465 TYR A 19 REMARK 465 PHE A 20 REMARK 465 GLN A 21 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 MET B 1 REMARK 465 HIS B 2 REMARK 465 HIS B 3 REMARK 465 HIS B 4 REMARK 465 HIS B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 SER B 8 REMARK 465 SER B 9 REMARK 465 GLY B 10 REMARK 465 VAL B 11 REMARK 465 ASP B 12 REMARK 465 LEU B 13 REMARK 465 GLY B 14 REMARK 465 THR B 15 REMARK 465 GLU B 16 REMARK 465 ASN B 17 REMARK 465 LEU B 18 REMARK 465 TYR B 19 REMARK 465 PHE B 20 REMARK 465 GLN B 21 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 O1 EDO B 202 O HOH B 301 2.02 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 SD MET A 23 O HOH B 325 1655 1.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ASP B 125 CB ASP B 125 CG 0.158 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 MET A 23 CG - SD - CE ANGL. DEV. = 11.3 DEGREES REMARK 500 ARG A 118 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 31 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 124 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES 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 A 414 DISTANCE = 5.88 ANGSTROMS 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 B 201 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 108 O REMARK 620 2 HOH A 336 O 100.6 REMARK 620 3 HOH A 367 O 74.9 87.1 REMARK 620 4 MET B 107 O 89.9 105.6 161.9 REMARK 620 5 ASN B 110 O 153.1 106.2 103.2 85.9 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 EDO 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 NA B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 203 DBREF 5PSV A 23 156 UNP O95696 BRD1_HUMAN 555 688 DBREF 5PSV B 23 156 UNP O95696 BRD1_HUMAN 555 688 SEQADV 5PSV MET A 1 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS A 2 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS A 3 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS A 4 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS A 5 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS A 6 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS A 7 UNP O95696 EXPRESSION TAG SEQADV 5PSV SER A 8 UNP O95696 EXPRESSION TAG SEQADV 5PSV SER A 9 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLY A 10 UNP O95696 EXPRESSION TAG SEQADV 5PSV VAL A 11 UNP O95696 EXPRESSION TAG SEQADV 5PSV ASP A 12 UNP O95696 EXPRESSION TAG SEQADV 5PSV LEU A 13 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLY A 14 UNP O95696 EXPRESSION TAG SEQADV 5PSV THR A 15 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLU A 16 UNP O95696 EXPRESSION TAG SEQADV 5PSV ASN A 17 UNP O95696 EXPRESSION TAG SEQADV 5PSV LEU A 18 UNP O95696 EXPRESSION TAG SEQADV 5PSV TYR A 19 UNP O95696 EXPRESSION TAG SEQADV 5PSV PHE A 20 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLN A 21 UNP O95696 EXPRESSION TAG SEQADV 5PSV SER A 22 UNP O95696 EXPRESSION TAG SEQADV 5PSV MET A 23 UNP O95696 VAL 555 ENGINEERED MUTATION SEQADV 5PSV GLU A 34 UNP O95696 PRO 566 ENGINEERED MUTATION SEQADV 5PSV ARG A 37 UNP O95696 VAL 569 ENGINEERED MUTATION SEQADV 5PSV MET B 1 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS B 2 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS B 3 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS B 4 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS B 5 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS B 6 UNP O95696 EXPRESSION TAG SEQADV 5PSV HIS B 7 UNP O95696 EXPRESSION TAG SEQADV 5PSV SER B 8 UNP O95696 EXPRESSION TAG SEQADV 5PSV SER B 9 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLY B 10 UNP O95696 EXPRESSION TAG SEQADV 5PSV VAL B 11 UNP O95696 EXPRESSION TAG SEQADV 5PSV ASP B 12 UNP O95696 EXPRESSION TAG SEQADV 5PSV LEU B 13 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLY B 14 UNP O95696 EXPRESSION TAG SEQADV 5PSV THR B 15 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLU B 16 UNP O95696 EXPRESSION TAG SEQADV 5PSV ASN B 17 UNP O95696 EXPRESSION TAG SEQADV 5PSV LEU B 18 UNP O95696 EXPRESSION TAG SEQADV 5PSV TYR B 19 UNP O95696 EXPRESSION TAG SEQADV 5PSV PHE B 20 UNP O95696 EXPRESSION TAG SEQADV 5PSV GLN B 21 UNP O95696 EXPRESSION TAG SEQADV 5PSV SER B 22 UNP O95696 EXPRESSION TAG SEQADV 5PSV MET B 23 UNP O95696 VAL 555 ENGINEERED MUTATION SEQADV 5PSV GLU B 34 UNP O95696 PRO 566 ENGINEERED MUTATION SEQADV 5PSV ARG B 37 UNP O95696 VAL 569 ENGINEERED MUTATION SEQRES 1 A 156 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 156 GLY THR GLU ASN LEU TYR PHE GLN SER MET GLU GLN VAL SEQRES 3 A 156 ALA MET GLU LEU ARG LEU THR GLU LEU THR ARG LEU LEU SEQRES 4 A 156 ARG SER VAL LEU ASP GLN LEU GLN ASP LYS ASP PRO ALA SEQRES 5 A 156 ARG ILE PHE ALA GLN PRO VAL SER LEU LYS GLU VAL PRO SEQRES 6 A 156 ASP TYR LEU ASP HIS ILE LYS HIS PRO MET ASP PHE ALA SEQRES 7 A 156 THR MET ARG LYS ARG LEU GLU ALA GLN GLY TYR LYS ASN SEQRES 8 A 156 LEU HIS GLU PHE GLU GLU ASP PHE ASP LEU ILE ILE ASP SEQRES 9 A 156 ASN CYS MET LYS TYR ASN ALA ARG ASP THR VAL PHE TYR SEQRES 10 A 156 ARG ALA ALA VAL ARG LEU ARG ASP GLN GLY GLY VAL VAL SEQRES 11 A 156 LEU ARG GLN ALA ARG ARG GLU VAL ASP SER ILE GLY LEU SEQRES 12 A 156 GLU GLU ALA SER GLY MET HIS LEU PRO GLU ARG PRO ALA SEQRES 1 B 156 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 B 156 GLY THR GLU ASN LEU TYR PHE GLN SER MET GLU GLN VAL SEQRES 3 B 156 ALA MET GLU LEU ARG LEU THR GLU LEU THR ARG LEU LEU SEQRES 4 B 156 ARG SER VAL LEU ASP GLN LEU GLN ASP LYS ASP PRO ALA SEQRES 5 B 156 ARG ILE PHE ALA GLN PRO VAL SER LEU LYS GLU VAL PRO SEQRES 6 B 156 ASP TYR LEU ASP HIS ILE LYS HIS PRO MET ASP PHE ALA SEQRES 7 B 156 THR MET ARG LYS ARG LEU GLU ALA GLN GLY TYR LYS ASN SEQRES 8 B 156 LEU HIS GLU PHE GLU GLU ASP PHE ASP LEU ILE ILE ASP SEQRES 9 B 156 ASN CYS MET LYS TYR ASN ALA ARG ASP THR VAL PHE TYR SEQRES 10 B 156 ARG ALA ALA VAL ARG LEU ARG ASP GLN GLY GLY VAL VAL SEQRES 11 B 156 LEU ARG GLN ALA ARG ARG GLU VAL ASP SER ILE GLY LEU SEQRES 12 B 156 GLU GLU ALA SER GLY MET HIS LEU PRO GLU ARG PRO ALA HET EDO A 201 4 HET EDO A 202 8 HET NA B 201 1 HET EDO B 202 4 HET EDO B 203 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 4(C2 H6 O2) FORMUL 5 NA NA 1+ FORMUL 8 HOH *259(H2 O) HELIX 1 AA1 SER A 22 LYS A 49 1 28 HELIX 2 AA2 ASP A 66 ILE A 71 1 6 HELIX 3 AA3 ASP A 76 ALA A 86 1 11 HELIX 4 AA4 ASN A 91 ASN A 110 1 20 HELIX 5 AA5 THR A 114 GLY A 142 1 29 HELIX 6 AA6 MET B 23 LYS B 49 1 27 HELIX 7 AA7 ASP B 66 ILE B 71 1 6 HELIX 8 AA8 ASP B 76 ALA B 86 1 11 HELIX 9 AA9 ASN B 91 ASN B 110 1 20 HELIX 10 AB1 THR B 114 GLY B 142 1 29 LINK O LYS A 108 NA NA B 201 1555 1555 2.36 LINK O HOH A 336 NA NA B 201 1555 1555 2.34 LINK O HOH A 367 NA NA B 201 1555 1555 2.43 LINK O MET B 107 NA NA B 201 1555 1555 2.26 LINK O ASN B 110 NA NA B 201 1555 1555 2.35 SITE 1 AC1 5 TYR A 109 ASN A 110 EDO A 202 HOH A 302 SITE 2 AC1 5 HOH A 365 SITE 1 AC2 8 ILE A 54 VAL A 59 CYS A 106 PHE A 116 SITE 2 AC2 8 EDO A 201 HOH A 302 HOH A 308 HOH A 325 SITE 1 AC3 6 LYS A 108 HOH A 336 HOH A 367 MET B 107 SITE 2 AC3 6 ASN B 110 TYR B 117 SITE 1 AC4 7 ILE B 54 TYR B 109 ASN B 110 PHE B 116 SITE 2 AC4 7 HOH B 301 HOH B 307 HOH B 406 SITE 1 AC5 5 LEU B 92 GLU B 96 LEU B 131 ARG B 135 SITE 2 AC5 5 HOH B 308 CRYST1 55.395 56.484 101.782 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 0.018052 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017704 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009825 0.00000