HEADER PROTEIN BINDING 23-MAR-15 4YYI TITLE CRYSTAL STRUCTURE OF BRD9 BROMODOMAIN BOUND TO AN ACETYLATED PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN-CONTAINING PROTEIN 9; COMPND 3 CHAIN: A, B, D, E; COMPND 4 FRAGMENT: BROMODOMAIN (UNP RESIDUES 17-123); COMPND 5 SYNONYM: RHABDOMYOSARCOMA ANTIGEN MU-RMS-40.8, BRD9; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HISTONE H4; COMPND 9 CHAIN: C, F; COMPND 10 FRAGMENT: N-TERMINAL TAIL (UNP RESIDUES 2-12); COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: LYSINE RESIDUES ACETYLATED SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: BRD9, UNQ3040/PRO9856; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PRSF; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606 KEYWDS BROMODOMAIN-ACETYLLYSINE COMPLEX, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR Y.TANG,S.BELLON,A.G.COCHRAN,F.POY REVDAT 5 15-NOV-23 4YYI 1 REMARK REVDAT 4 27-SEP-23 4YYI 1 JRNL REMARK REVDAT 3 14-OCT-15 4YYI 1 JRNL REVDAT 2 30-SEP-15 4YYI 1 JRNL REVDAT 1 16-SEP-15 4YYI 0 JRNL AUTH E.M.FLYNN,O.W.HUANG,F.POY,M.OPPIKOFER,S.F.BELLON,Y.TANG, JRNL AUTH 2 A.G.COCHRAN JRNL TITL A SUBSET OF HUMAN BROMODOMAINS RECOGNIZES BUTYRYLLYSINE AND JRNL TITL 2 CROTONYLLYSINE HISTONE PEPTIDE MODIFICATIONS. JRNL REF STRUCTURE V. 23 1801 2015 JRNL REFN ISSN 0969-2126 JRNL PMID 26365797 JRNL DOI 10.1016/J.STR.2015.08.004 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0069 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 57639 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3019 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3897 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 225 REMARK 3 BIN FREE R VALUE : 0.2810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3352 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 287 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.92000 REMARK 3 B22 (A**2) : -2.79000 REMARK 3 B33 (A**2) : -0.13000 REMARK 3 B12 (A**2) : 0.83000 REMARK 3 B13 (A**2) : -0.43000 REMARK 3 B23 (A**2) : -0.45000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.020 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.020 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.646 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 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): 3438 ; 0.028 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4610 ; 2.752 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 408 ; 6.571 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 148 ;37.751 ;23.784 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 622 ;16.345 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;17.800 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 482 ; 0.193 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2560 ; 0.017 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1650 ; 2.516 ; 1.887 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2052 ; 3.102 ; 2.828 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1788 ; 3.159 ; 2.093 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 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.556 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : H, H-K, -L REMARK 3 TWIN FRACTION : 0.444 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 23 A 122 REMARK 3 ORIGIN FOR THE GROUP (A): 55.7295 -31.7013 2.0209 REMARK 3 T TENSOR REMARK 3 T11: 0.0675 T22: 0.0321 REMARK 3 T33: 0.0104 T12: -0.0233 REMARK 3 T13: 0.0052 T23: 0.0130 REMARK 3 L TENSOR REMARK 3 L11: 1.4978 L22: 1.2290 REMARK 3 L33: 1.2405 L12: -0.2436 REMARK 3 L13: 0.5526 L23: -0.5752 REMARK 3 S TENSOR REMARK 3 S11: -0.0292 S12: 0.0911 S13: 0.0353 REMARK 3 S21: 0.0403 S22: 0.0065 S23: -0.0042 REMARK 3 S31: 0.0515 S32: -0.0153 S33: 0.0227 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 23 B 122 REMARK 3 ORIGIN FOR THE GROUP (A): 55.7681 -8.8948 -30.0271 REMARK 3 T TENSOR REMARK 3 T11: 0.0645 T22: 0.0445 REMARK 3 T33: 0.0112 T12: -0.0022 REMARK 3 T13: 0.0068 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 1.4888 L22: 1.1521 REMARK 3 L33: 1.5659 L12: 0.1608 REMARK 3 L13: -0.6798 L23: -0.6273 REMARK 3 S TENSOR REMARK 3 S11: -0.0363 S12: -0.0816 S13: -0.0547 REMARK 3 S21: -0.0438 S22: 0.0018 S23: -0.0013 REMARK 3 S31: -0.0599 S32: -0.0049 S33: 0.0345 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 22 D 122 REMARK 3 ORIGIN FOR THE GROUP (A): 61.8980 -30.3481 34.5486 REMARK 3 T TENSOR REMARK 3 T11: 0.0716 T22: 0.0274 REMARK 3 T33: 0.0082 T12: -0.0111 REMARK 3 T13: 0.0071 T23: -0.0138 REMARK 3 L TENSOR REMARK 3 L11: 1.3962 L22: 0.9846 REMARK 3 L33: 1.4123 L12: 0.0935 REMARK 3 L13: 0.6636 L23: 0.6710 REMARK 3 S TENSOR REMARK 3 S11: -0.0222 S12: -0.0979 S13: 0.0456 REMARK 3 S21: -0.0186 S22: -0.0015 S23: 0.0101 REMARK 3 S31: 0.0606 S32: 0.0056 S33: 0.0237 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 22 E 122 REMARK 3 ORIGIN FOR THE GROUP (A): 61.9143 -7.2480 66.7665 REMARK 3 T TENSOR REMARK 3 T11: 0.0684 T22: 0.0190 REMARK 3 T33: 0.0042 T12: -0.0195 REMARK 3 T13: 0.0078 T23: -0.0087 REMARK 3 L TENSOR REMARK 3 L11: 1.4765 L22: 1.1370 REMARK 3 L33: 1.3100 L12: -0.1311 REMARK 3 L13: -0.5255 L23: 0.6217 REMARK 3 S TENSOR REMARK 3 S11: -0.0206 S12: 0.0819 S13: -0.0461 REMARK 3 S21: 0.0187 S22: 0.0004 S23: 0.0073 REMARK 3 S31: -0.0463 S32: -0.0062 S33: 0.0202 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: NULL REMARK 4 REMARK 4 4YYI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000208301. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60687 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 95.1 REMARK 200 DATA REDUNDANCY : 2.300 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.30400 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 3HME REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS, PH 6.5, 25% W/V REMARK 280 PEG3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F 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 GLY A 16 REMARK 465 SER A 17 REMARK 465 ALA A 18 REMARK 465 GLU A 19 REMARK 465 ASN A 20 REMARK 465 GLU A 21 REMARK 465 SER A 22 REMARK 465 LYS A 123 REMARK 465 GLY B 16 REMARK 465 SER B 17 REMARK 465 ALA B 18 REMARK 465 GLU B 19 REMARK 465 ASN B 20 REMARK 465 GLU B 21 REMARK 465 SER B 22 REMARK 465 LYS B 123 REMARK 465 SER C 1 REMARK 465 GLY C 2 REMARK 465 ARG C 3 REMARK 465 LEU C 10 REMARK 465 GLY C 11 REMARK 465 GLY D 16 REMARK 465 SER D 17 REMARK 465 ALA D 18 REMARK 465 GLU D 19 REMARK 465 ASN D 20 REMARK 465 GLU D 21 REMARK 465 LYS D 123 REMARK 465 GLY E 16 REMARK 465 SER E 17 REMARK 465 ALA E 18 REMARK 465 GLU E 19 REMARK 465 ASN E 20 REMARK 465 GLU E 21 REMARK 465 LYS E 123 REMARK 465 SER F 1 REMARK 465 GLY F 2 REMARK 465 ARG F 3 REMARK 465 LEU F 10 REMARK 465 GLY F 11 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 OD1 ASP E 66 OG1 THR E 69 2.18 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 PHE A 67 CG PHE A 67 CD2 0.133 REMARK 500 PHE B 67 C PHE B 67 O 0.123 REMARK 500 GLY C 6 N GLY C 6 CA 0.091 REMARK 500 PHE D 67 CG PHE D 67 CD2 0.098 REMARK 500 ALA D 96 C ALA D 96 O 0.118 REMARK 500 GLY F 6 C GLY F 6 O 0.118 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 PHE A 44 CB - CG - CD2 ANGL. DEV. = -5.3 DEGREES REMARK 500 ASP A 103 CB - CG - OD1 ANGL. DEV. = 9.3 DEGREES REMARK 500 ASP A 103 CB - CG - OD2 ANGL. DEV. = -7.7 DEGREES REMARK 500 LEU B 28 CB - CG - CD2 ANGL. DEV. = 10.4 DEGREES REMARK 500 PHE B 44 CB - CG - CD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 TYR B 57 CB - CG - CD1 ANGL. DEV. = -3.8 DEGREES REMARK 500 TYR B 57 CD1 - CE1 - CZ ANGL. DEV. = -6.6 DEGREES REMARK 500 ASP B 66 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 MET B 70 CG - SD - CE ANGL. DEV. = 13.5 DEGREES REMARK 500 LEU D 28 CB - CG - CD2 ANGL. DEV. = 12.6 DEGREES REMARK 500 PHE D 44 CB - CG - CD2 ANGL. DEV. = -4.8 DEGREES REMARK 500 TYR D 57 CG - CD2 - CE2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP D 72 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 ASP D 103 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP D 103 CB - CG - OD2 ANGL. DEV. = -7.3 DEGREES REMARK 500 LEU E 29 CB - CG - CD2 ANGL. DEV. = 13.3 DEGREES REMARK 500 LEU E 33 CB - CG - CD2 ANGL. DEV. = -11.4 DEGREES REMARK 500 TYR E 57 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 PHE E 67 CB - CG - CD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 LYS E 80 CD - CE - NZ ANGL. DEV. = 15.1 DEGREES REMARK 500 ASP E 94 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 GLY F 6 CA - C - N ANGL. DEV. = -13.3 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 ALA E 54 81.81 -154.62 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 276 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH E 276 DISTANCE = 5.82 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4YY4 RELATED DB: PDB REMARK 900 RELATED ID: 4YY6 RELATED DB: PDB REMARK 900 RELATED ID: 4YYD RELATED DB: PDB REMARK 900 RELATED ID: 4YYG RELATED DB: PDB REMARK 900 RELATED ID: 4YYH RELATED DB: PDB REMARK 900 RELATED ID: 4YYJ RELATED DB: PDB REMARK 900 RELATED ID: 4YYK RELATED DB: PDB REMARK 900 RELATED ID: 4YYM RELATED DB: PDB REMARK 900 RELATED ID: 4YYN RELATED DB: PDB DBREF 4YYI A 17 123 UNP Q9H8M2 BRD9_HUMAN 17 123 DBREF 4YYI B 17 123 UNP Q9H8M2 BRD9_HUMAN 17 123 DBREF 4YYI C 1 11 UNP P62805 H4_HUMAN 2 12 DBREF 4YYI D 17 123 UNP Q9H8M2 BRD9_HUMAN 17 123 DBREF 4YYI E 17 123 UNP Q9H8M2 BRD9_HUMAN 17 123 DBREF 4YYI F 1 11 UNP P62805 H4_HUMAN 2 12 SEQADV 4YYI GLY A 16 UNP Q9H8M2 EXPRESSION TAG SEQADV 4YYI GLY B 16 UNP Q9H8M2 EXPRESSION TAG SEQADV 4YYI GLY D 16 UNP Q9H8M2 EXPRESSION TAG SEQADV 4YYI GLY E 16 UNP Q9H8M2 EXPRESSION TAG SEQRES 1 A 108 GLY SER ALA GLU ASN GLU SER THR PRO ILE GLN GLN LEU SEQRES 2 A 108 LEU GLU HIS PHE LEU ARG GLN LEU GLN ARG LYS ASP PRO SEQRES 3 A 108 HIS GLY PHE PHE ALA PHE PRO VAL THR ASP ALA ILE ALA SEQRES 4 A 108 PRO GLY TYR SER MET ILE ILE LYS HIS PRO MET ASP PHE SEQRES 5 A 108 GLY THR MET LYS ASP LYS ILE VAL ALA ASN GLU TYR LYS SEQRES 6 A 108 SER VAL THR GLU PHE LYS ALA ASP PHE LYS LEU MET CYS SEQRES 7 A 108 ASP ASN ALA MET THR TYR ASN ARG PRO ASP THR VAL TYR SEQRES 8 A 108 TYR LYS LEU ALA LYS LYS ILE LEU HIS ALA GLY PHE LYS SEQRES 9 A 108 MET MET SER LYS SEQRES 1 B 108 GLY SER ALA GLU ASN GLU SER THR PRO ILE GLN GLN LEU SEQRES 2 B 108 LEU GLU HIS PHE LEU ARG GLN LEU GLN ARG LYS ASP PRO SEQRES 3 B 108 HIS GLY PHE PHE ALA PHE PRO VAL THR ASP ALA ILE ALA SEQRES 4 B 108 PRO GLY TYR SER MET ILE ILE LYS HIS PRO MET ASP PHE SEQRES 5 B 108 GLY THR MET LYS ASP LYS ILE VAL ALA ASN GLU TYR LYS SEQRES 6 B 108 SER VAL THR GLU PHE LYS ALA ASP PHE LYS LEU MET CYS SEQRES 7 B 108 ASP ASN ALA MET THR TYR ASN ARG PRO ASP THR VAL TYR SEQRES 8 B 108 TYR LYS LEU ALA LYS LYS ILE LEU HIS ALA GLY PHE LYS SEQRES 9 B 108 MET MET SER LYS SEQRES 1 C 11 SER GLY ARG GLY ALY GLY GLY ALY GLY LEU GLY SEQRES 1 D 108 GLY SER ALA GLU ASN GLU SER THR PRO ILE GLN GLN LEU SEQRES 2 D 108 LEU GLU HIS PHE LEU ARG GLN LEU GLN ARG LYS ASP PRO SEQRES 3 D 108 HIS GLY PHE PHE ALA PHE PRO VAL THR ASP ALA ILE ALA SEQRES 4 D 108 PRO GLY TYR SER MET ILE ILE LYS HIS PRO MET ASP PHE SEQRES 5 D 108 GLY THR MET LYS ASP LYS ILE VAL ALA ASN GLU TYR LYS SEQRES 6 D 108 SER VAL THR GLU PHE LYS ALA ASP PHE LYS LEU MET CYS SEQRES 7 D 108 ASP ASN ALA MET THR TYR ASN ARG PRO ASP THR VAL TYR SEQRES 8 D 108 TYR LYS LEU ALA LYS LYS ILE LEU HIS ALA GLY PHE LYS SEQRES 9 D 108 MET MET SER LYS SEQRES 1 E 108 GLY SER ALA GLU ASN GLU SER THR PRO ILE GLN GLN LEU SEQRES 2 E 108 LEU GLU HIS PHE LEU ARG GLN LEU GLN ARG LYS ASP PRO SEQRES 3 E 108 HIS GLY PHE PHE ALA PHE PRO VAL THR ASP ALA ILE ALA SEQRES 4 E 108 PRO GLY TYR SER MET ILE ILE LYS HIS PRO MET ASP PHE SEQRES 5 E 108 GLY THR MET LYS ASP LYS ILE VAL ALA ASN GLU TYR LYS SEQRES 6 E 108 SER VAL THR GLU PHE LYS ALA ASP PHE LYS LEU MET CYS SEQRES 7 E 108 ASP ASN ALA MET THR TYR ASN ARG PRO ASP THR VAL TYR SEQRES 8 E 108 TYR LYS LEU ALA LYS LYS ILE LEU HIS ALA GLY PHE LYS SEQRES 9 E 108 MET MET SER LYS SEQRES 1 F 11 SER GLY ARG GLY ALY GLY GLY ALY GLY LEU GLY MODRES 4YYI ALY C 5 LYS MODIFIED RESIDUE MODRES 4YYI ALY C 8 LYS MODIFIED RESIDUE MODRES 4YYI ALY F 5 LYS MODIFIED RESIDUE MODRES 4YYI ALY F 8 LYS MODIFIED RESIDUE HET ALY C 5 12 HET ALY C 8 12 HET ALY F 5 12 HET ALY F 8 12 HETNAM ALY N(6)-ACETYLLYSINE FORMUL 3 ALY 4(C8 H16 N2 O3) FORMUL 7 HOH *287(H2 O) HELIX 1 AA1 THR A 23 LYS A 39 1 17 HELIX 2 AA2 GLY A 56 ILE A 61 1 6 HELIX 3 AA3 ASP A 66 ALA A 76 1 11 HELIX 4 AA4 SER A 81 ASN A 100 1 20 HELIX 5 AA5 THR A 104 MET A 121 1 18 HELIX 6 AA6 PRO B 24 ARG B 38 1 15 HELIX 7 AA7 GLY B 56 ILE B 61 1 6 HELIX 8 AA8 ASP B 66 ALA B 76 1 11 HELIX 9 AA9 SER B 81 ASN B 100 1 20 HELIX 10 AB1 THR B 104 MET B 121 1 18 HELIX 11 AB2 THR D 23 LYS D 39 1 17 HELIX 12 AB3 GLY D 56 ILE D 61 1 6 HELIX 13 AB4 ASP D 66 ALA D 76 1 11 HELIX 14 AB5 SER D 81 ASN D 100 1 20 HELIX 15 AB6 THR D 104 MET D 121 1 18 HELIX 16 AB7 THR E 23 ARG E 38 1 16 HELIX 17 AB8 GLY E 56 ILE E 61 1 6 HELIX 18 AB9 ASP E 66 ALA E 76 1 11 HELIX 19 AC1 SER E 81 ASN E 100 1 20 HELIX 20 AC2 THR E 104 MET E 121 1 18 LINK C GLY C 4 N ALY C 5 1555 1555 1.35 LINK C ALY C 5 N GLY C 6 1555 1555 1.34 LINK C GLY C 7 N ALY C 8 1555 1555 1.36 LINK C ALY C 8 N GLY C 9 1555 1555 1.34 LINK C GLY F 4 N ALY F 5 1555 1555 1.35 LINK C ALY F 5 N GLY F 6 1555 1555 1.35 LINK C GLY F 7 N ALY F 8 1555 1555 1.35 LINK C ALY F 8 N GLY F 9 1555 1555 1.33 CRYST1 24.746 34.602 129.361 88.79 90.00 68.92 P 1 4 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 0.040411 -0.015579 0.000349 0.00000 SCALE2 0.000000 0.030973 -0.000700 0.00000 SCALE3 0.000000 0.000000 0.007732 0.00000