HEADER DNA BINDING PROTEIN 03-JUL-15 5A7C TITLE CRYSTAL STRUCTURE OF THE SECOND BROMODOMAIN OF HUMAN BRD3 IN COMPLEX TITLE 2 WITH COMPOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN-CONTAINING PROTEIN 3; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: BROMO 2 DOMAIN, RESIDUES 306-416; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: T1R PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS DNA BINDING PROTEIN, BRD3, BROMODOMAIN CONTAINING PROTEIN 3, RING3- KEYWDS 2 LIKE PROTEIN, BRD3 DOMAIN 2 EXPDTA X-RAY DIFFRACTION AUTHOR M.WELIN,R.KIMBUNG,C.DIEHL,M.HAKANSSON,D.T.LOGAN,B.WALSE REVDAT 3 17-JAN-18 5A7C 1 REMARK REVDAT 2 28-SEP-16 5A7C 1 JRNL REVDAT 1 16-MAR-16 5A7C 0 JRNL AUTH L.M.NILSSON,L.C.GREEN,S.V.MURALIDHARAN,D.DEMIR,M.WELIN, JRNL AUTH 2 J.BHADURY,D.T.LOGAN,B.WALSE,J.A.NILSSON JRNL TITL CANCER DIFFERENTIATING AGENT HEXAMETHYLENE BISACETAMIDE JRNL TITL 2 INHIBITS BET BROMODOMAIN PROTEINS. JRNL REF CANCER RES. V. 76 2376 2016 JRNL REFN ISSN 0008-5472 JRNL PMID 26941288 JRNL DOI 10.1158/0008-5472.CAN-15-2721 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 44884 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) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2311 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : 3163 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.4020 REMARK 3 BIN FREE R VALUE SET COUNT : 158 REMARK 3 BIN FREE R VALUE : 0.4010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3650 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 366 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.75000 REMARK 3 B22 (A**2) : -0.69000 REMARK 3 B33 (A**2) : -1.08000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.24000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.168 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.131 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.846 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.915 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3837 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3646 ; 0.010 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5148 ; 1.650 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8423 ; 1.501 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 439 ; 4.945 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 189 ;35.641 ;22.963 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 674 ;12.736 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;21.801 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 510 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4235 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 907 ; 0.009 ; 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): 1765 ; 1.494 ; 1.751 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1766 ; 1.494 ; 1.752 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2213 ; 2.291 ; 2.625 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2211 ; 2.277 ; 2.625 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2071 ; 2.530 ; 2.093 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2071 ; 2.530 ; 2.093 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2936 ; 4.031 ; 3.000 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4851 ; 5.531 ;14.740 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4852 ; 5.530 ;14.743 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 306 415 B 306 415 13408 0.06 0.05 REMARK 3 2 A 308 415 C 308 415 13406 0.04 0.05 REMARK 3 3 A 308 415 D 308 415 13290 0.06 0.05 REMARK 3 4 B 308 415 C 308 415 13130 0.06 0.05 REMARK 3 5 B 308 415 D 308 415 13316 0.04 0.05 REMARK 3 6 C 308 416 D 308 416 13362 0.06 0.05 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 : 1.20 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 5A7C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1290064250. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : SI (111) DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47219 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 48.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.16000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.77000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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 3S92 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% PEG 6000, 0.1M HEPES PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 51.68250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.00650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.68250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 46.00650 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 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 350 REMARK 350 BIOMOLECULE: 3 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: 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SER B 304 REMARK 465 MET B 305 REMARK 465 SER C 304 REMARK 465 MET C 305 REMARK 465 GLY C 306 REMARK 465 LYS C 307 REMARK 465 SER D 304 REMARK 465 MET D 305 REMARK 465 GLY D 306 REMARK 465 LYS D 307 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 368 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 320 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG B 320 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG D 313 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG D 320 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG D 320 NE - CZ - NH2 ANGL. DEV. = -3.7 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 77.99 -102.60 REMARK 500 LEU B 345 69.24 -108.45 REMARK 500 LEU C 345 77.74 -104.76 REMARK 500 LEU D 345 71.60 -107.77 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 5D4 A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5D4 B 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5D4 C 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO C 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5D4 D 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO D 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A6N RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN DEATH ASSOCIATED PROTEIN KINASE 3 (DAPK3) REMARK 900 IN COMPLEX WITH COMPOUND 2 REMARK 900 RELATED ID: 5A6O RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE APO FORM OF THE UNPHOSPHORYLATED HUMAN REMARK 900 DEATH ASSOCIATED PROTEIN KINASE 3 (DAPK3) DBREF 5A7C A 306 416 UNP Q15059 BRD3_HUMAN 306 416 DBREF 5A7C B 306 416 UNP Q15059 BRD3_HUMAN 306 416 DBREF 5A7C C 306 416 UNP Q15059 BRD3_HUMAN 306 416 DBREF 5A7C D 306 416 UNP Q15059 BRD3_HUMAN 306 416 SEQADV 5A7C SER A 304 UNP Q15059 EXPRESSION TAG SEQADV 5A7C MET A 305 UNP Q15059 EXPRESSION TAG SEQADV 5A7C SER B 304 UNP Q15059 EXPRESSION TAG SEQADV 5A7C MET B 305 UNP Q15059 EXPRESSION TAG SEQADV 5A7C SER C 304 UNP Q15059 EXPRESSION TAG SEQADV 5A7C MET C 305 UNP Q15059 EXPRESSION TAG SEQADV 5A7C SER D 304 UNP Q15059 EXPRESSION TAG SEQADV 5A7C MET D 305 UNP Q15059 EXPRESSION TAG 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 5D4 A 500 14 HET EDO A 501 4 HET EDO A 502 4 HET 5D4 B 500 14 HET EDO B 501 4 HET 5D4 C 500 14 HET EDO C 501 4 HET 5D4 D 500 14 HET EDO D 501 4 HETNAM 5D4 N-(6-ACETAMIDOHEXYL)ACETAMIDE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 5D4 4(C10 H20 N2 O2) FORMUL 6 EDO 5(C2 H6 O2) FORMUL 14 HOH *366(H2 O) HELIX 1 1 SER A 309 LEU A 323 1 15 HELIX 2 2 SER A 324 LYS A 326 5 3 HELIX 3 3 HIS A 327 TRP A 332 1 6 HELIX 4 4 PRO A 333 TYR A 335 5 3 HELIX 5 5 ASP A 339 GLU A 344 1 6 HELIX 6 6 ASP A 347 ILE A 352 1 6 HELIX 7 7 ASP A 357 GLY A 367 1 11 HELIX 8 8 ASP A 372 ASN A 391 1 20 HELIX 9 9 HIS A 395 LYS A 414 1 20 HELIX 10 10 SER B 309 LEU B 323 1 15 HELIX 11 11 SER B 324 LYS B 326 5 3 HELIX 12 12 HIS B 327 TRP B 332 1 6 HELIX 13 13 PRO B 333 TYR B 335 5 3 HELIX 14 14 ASP B 339 GLU B 344 1 6 HELIX 15 15 ASP B 347 ILE B 352 1 6 HELIX 16 16 ASP B 357 GLY B 367 1 11 HELIX 17 17 ASP B 372 ASN B 391 1 20 HELIX 18 18 HIS B 395 LYS B 414 1 20 HELIX 19 19 SER C 309 LEU C 323 1 15 HELIX 20 20 SER C 324 LYS C 326 5 3 HELIX 21 21 HIS C 327 TRP C 332 1 6 HELIX 22 22 PRO C 333 TYR C 335 5 3 HELIX 23 23 ASP C 339 GLU C 344 1 6 HELIX 24 24 ASP C 347 ILE C 352 1 6 HELIX 25 25 ASP C 357 GLY C 367 1 11 HELIX 26 26 ASP C 372 ASN C 391 1 20 HELIX 27 27 HIS C 395 LYS C 414 1 20 HELIX 28 28 SER D 309 LEU D 323 1 15 HELIX 29 29 SER D 324 LYS D 326 5 3 HELIX 30 30 HIS D 327 TRP D 332 1 6 HELIX 31 31 PRO D 333 TYR D 335 5 3 HELIX 32 32 ASP D 339 GLU D 344 1 6 HELIX 33 33 ASP D 347 ILE D 352 1 6 HELIX 34 34 ASP D 357 GLY D 367 1 11 HELIX 35 35 ASP D 372 ASN D 391 1 20 HELIX 36 36 HIS D 395 LYS D 414 1 20 SITE 1 AC1 9 TRP A 332 PHE A 334 VAL A 338 LEU A 343 SITE 2 AC1 9 ASN A 391 HOH A2029 HOH A2044 HOH B2038 SITE 3 AC1 9 HOH B2043 SITE 1 AC2 6 SER A 317 ILE A 318 GLU A 321 ARG A 411 SITE 2 AC2 6 HOH A2106 TRP D 332 SITE 1 AC3 4 LEU A 323 LYS A 325 ALA A 328 TYR A 335 SITE 1 AC4 9 VAL B 338 LEU B 345 ASN B 391 HIS B 395 SITE 2 AC4 9 GLU B 396 MET B 400 HOH B2028 HOH B2045 SITE 3 AC4 9 ARG C 313 SITE 1 AC5 6 GLN A 405 ASP A 406 HOH A2078 HOH A2090 SITE 2 AC5 6 GLN B 405 ASP B 406 SITE 1 AC6 5 PHE C 334 ASN C 391 HIS C 395 HOH C2020 SITE 2 AC6 5 HOH C2029 SITE 1 AC7 7 TRP B 332 HOH B2025 TYR C 314 SER C 317 SITE 2 AC7 7 ILE C 318 GLU C 321 ARG C 411 SITE 1 AC8 7 TRP D 332 PHE D 334 VAL D 338 ASN D 391 SITE 2 AC8 7 HIS D 395 HOH D2025 HOH D2036 SITE 1 AC9 5 GLN C 405 ASP C 406 HOH C2072 GLN D 405 SITE 2 AC9 5 ASP D 406 CRYST1 103.365 92.013 64.898 90.00 95.35 90.00 C 1 2 1 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 0.009674 0.000000 0.000906 0.00000 SCALE2 0.000000 0.010868 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015476 0.00000 MTRIX1 1 0.582000 -0.679000 0.448000 -24.62700 1 MTRIX2 1 -0.668000 -0.713000 -0.214000 -18.20400 1 MTRIX3 1 0.464000 -0.174000 -0.868000 58.75100 1 MTRIX1 2 0.582000 -0.679000 0.448000 -24.62700 1 MTRIX2 2 -0.668000 -0.713000 -0.214000 -18.20400 1 MTRIX3 2 0.464000 -0.174000 -0.868000 58.75100 1 MTRIX1 3 -0.668000 0.669000 0.327000 11.39000 1 MTRIX2 3 0.679000 0.727000 -0.101000 -30.85000 1 MTRIX3 3 -0.306000 0.155000 -0.940000 112.24000 1 MASTER 378 0 9 36 0 0 19 15 0 0 0 36 END