HEADER TRANSCRIPTION 08-DEC-11 2RS9 TITLE SOLUTION STRUCTURE OF THE BROMODOMAIN OF HUMAN BRPF1 IN COMPLEX WITH TITLE 2 HISTONE H4K5AC PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACETYLATED LYSINE 5 OF PEPTIDE FROM HISTONE H4; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: H4K5AC; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PEREGRIN; COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: BROMODOMAIN, UNP RESIDUES 633-740; COMPND 10 SYNONYM: BROMODOMAIN AND PHD FINGER-CONTAINING PROTEIN 1, PROTEIN COMPND 11 BR140; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 GENE: BRPF1, BR140; SOURCE 11 EXPRESSION_SYSTEM: CELL-FREE SYNTHESIS KEYWDS HUMAN BRPF1 PROTEIN, BROMODOMAIN AND PHD FINGER-CONTAINING PROTEIN 1, KEYWDS 2 BR140 PROTEIN, TRANSCRIPTION ACTIVATOR, HISTONE, TRANSCRIPTION, KEYWDS 3 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 4 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 5 INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR X.QIN,T.NAGASHIMA,T.UMEHARA,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 5 09-OCT-24 2RS9 1 REMARK REVDAT 4 15-NOV-23 2RS9 1 ATOM REVDAT 3 14-JUN-23 2RS9 1 SEQADV REVDAT 2 16-OCT-19 2RS9 1 COMPND REMARK LINK REVDAT 1 12-DEC-12 2RS9 0 JRNL AUTH X.QIN,F.HAYASHI,S.YOKOYAMA JRNL TITL SITE-SPECIFIC HISTONE RECOGNITION BY THE BROMODOMAIN OF JRNL TITL 2 BRPF1 AND THE ROLE IN MOZ/MORF HISTONE ACETYLTRANSFERASE JRNL TITL 3 COMPLEXES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 20100701, AMBER 5, CYANA REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), CASE, DARDEN, CHEATHAM, III, SIMMERLING, REMARK 3 WANG, DUKE, LUO, ... AND KOLLM (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RS9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000150223. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.5 MM H4K5AC-1, 0.54 MM [U-99% REMARK 210 13C; U-99% 15N] BROMODOMAIN-2, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 13C-EDITED (F1); 13C/15N- REMARK 210 FILTERED (F3) 3D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW 5.0.4, KUJIRA 0.9905, REMARK 210 CYANA 2.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 14 ARG B 148 NE - CZ - NH2 ANGL. DEV. = -3.1 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 1 SER B 43 -166.92 -173.37 REMARK 500 1 LYS B 125 20.56 -71.02 REMARK 500 1 GLU B 138 -62.82 -90.31 REMARK 500 1 SER B 156 -159.96 62.97 REMARK 500 1 SER B 160 179.97 73.31 REMARK 500 2 TYR B 102 -67.69 -92.39 REMARK 500 2 ASP B 126 16.95 -148.21 REMARK 500 3 ARG A 3 173.53 72.64 REMARK 500 3 ASP B 63 79.79 -108.85 REMARK 500 3 TYR B 122 63.00 -103.66 REMARK 500 4 LYS A 8 75.47 59.78 REMARK 500 4 SER B 42 -58.89 71.57 REMARK 500 4 SER B 46 104.29 -168.02 REMARK 500 4 TYR B 100 51.84 71.92 REMARK 500 4 TYR B 102 -78.22 -83.38 REMARK 500 4 LEU B 103 -0.68 67.29 REMARK 500 4 ASN B 123 -167.88 -160.49 REMARK 500 4 LYS B 125 2.22 -68.35 REMARK 500 5 SER B 42 -40.94 -166.30 REMARK 500 5 SER B 46 -76.22 -111.89 REMARK 500 5 ASP B 126 16.18 -140.79 REMARK 500 6 ASP B 126 24.98 -148.81 REMARK 500 7 ASP B 126 18.33 -144.32 REMARK 500 8 SER B 42 -51.72 -148.06 REMARK 500 9 SER B 42 24.56 -149.29 REMARK 500 9 GLU B 138 -66.87 -90.07 REMARK 500 9 SER B 156 145.16 75.00 REMARK 500 10 SER B 43 172.74 66.11 REMARK 500 10 ASP B 63 78.67 -118.90 REMARK 500 10 ASP B 126 19.12 -150.18 REMARK 500 11 SER B 45 112.29 60.53 REMARK 500 11 ASP B 126 11.25 -144.37 REMARK 500 11 SER B 156 144.18 74.60 REMARK 500 12 SER B 42 108.91 72.38 REMARK 500 12 SER B 46 31.92 -149.10 REMARK 500 12 TYR B 102 -71.38 -82.86 REMARK 500 12 LEU B 103 -2.05 66.26 REMARK 500 12 ASN B 123 -166.27 -173.75 REMARK 500 13 LYS A 8 -140.50 64.63 REMARK 500 13 SER B 42 -166.55 -165.64 REMARK 500 13 ASP B 126 17.03 -147.05 REMARK 500 13 SER B 160 163.88 67.09 REMARK 500 14 LYS A 8 -32.24 -161.49 REMARK 500 14 VAL B 77 78.24 -150.72 REMARK 500 14 TYR B 122 81.09 -150.70 REMARK 500 14 ASP B 126 16.94 -143.59 REMARK 500 14 GLU B 138 -64.19 -91.40 REMARK 500 14 SER B 159 -49.15 -170.96 REMARK 500 15 SER B 42 -52.59 -134.83 REMARK 500 15 SER B 46 -74.41 -74.71 REMARK 500 REMARK 500 THIS ENTRY HAS 68 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2D9E RELATED DB: PDB REMARK 900 BROMODOMAIN IN FREE STATE REMARK 900 RELATED ID: 11463 RELATED DB: BMRB DBREF 2RS9 A 1 10 UNP P62805 H4_HUMAN 2 11 DBREF 2RS9 B 48 155 UNP P55201 BRPF1_HUMAN 633 740 SEQADV 2RS9 GLY B 41 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 42 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 43 UNP P55201 EXPRESSION TAG SEQADV 2RS9 GLY B 44 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 45 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 46 UNP P55201 EXPRESSION TAG SEQADV 2RS9 GLY B 47 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 156 UNP P55201 EXPRESSION TAG SEQADV 2RS9 GLY B 157 UNP P55201 EXPRESSION TAG SEQADV 2RS9 PRO B 158 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 159 UNP P55201 EXPRESSION TAG SEQADV 2RS9 SER B 160 UNP P55201 EXPRESSION TAG SEQADV 2RS9 GLY B 161 UNP P55201 EXPRESSION TAG SEQRES 1 A 10 SER GLY ARG GLY ALY GLY GLY LYS GLY LEU SEQRES 1 B 121 GLY SER SER GLY SER SER GLY PHE LEU ILE LEU LEU ARG SEQRES 2 B 121 LYS THR LEU GLU GLN LEU GLN GLU LYS ASP THR GLY ASN SEQRES 3 B 121 ILE PHE SER GLU PRO VAL PRO LEU SER GLU VAL PRO ASP SEQRES 4 B 121 TYR LEU ASP HIS ILE LYS LYS PRO MET ASP PHE PHE THR SEQRES 5 B 121 MET LYS GLN ASN LEU GLU ALA TYR ARG TYR LEU ASN PHE SEQRES 6 B 121 ASP ASP PHE GLU GLU ASP PHE ASN LEU ILE VAL SER ASN SEQRES 7 B 121 CYS LEU LYS TYR ASN ALA LYS ASP THR ILE PHE TYR ARG SEQRES 8 B 121 ALA ALA VAL ARG LEU ARG GLU GLN GLY GLY ALA VAL LEU SEQRES 9 B 121 ARG GLN ALA ARG ARG GLN ALA GLU LYS MET GLY SER GLY SEQRES 10 B 121 PRO SER SER GLY MODRES 2RS9 ALY A 5 LYS N(6)-ACETYLLYSINE HET ALY A 5 26 HETNAM ALY N(6)-ACETYLLYSINE FORMUL 1 ALY C8 H16 N2 O3 HELIX 1 1 SER B 46 GLN B 60 1 15 HELIX 2 2 GLU B 61 ASP B 63 5 3 HELIX 3 3 PRO B 73 VAL B 77 5 5 HELIX 4 4 ASP B 79 ILE B 84 1 6 HELIX 5 5 ASP B 89 ALA B 99 1 11 HELIX 6 6 ASN B 104 LYS B 121 1 18 HELIX 7 7 THR B 127 SER B 156 1 30 LINK C GLY A 4 N ALY A 5 1555 1555 1.34 LINK C ALY A 5 N GLY A 6 1555 1555 1.34 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1