HEADER TRANSFERASE/NUCLEAR PROTEIN 03-FEB-08 2RNX TITLE THE STRUCTURAL BASIS FOR SITE-SPECIFIC LYSINE-ACETYLATED HISTONE TITLE 2 RECOGNITION BY THE BROMODOMAINS OF THE HUMAN TRANSCRIPTIONAL CO- TITLE 3 ACTIVATORS PCAF AND CBP COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE ACETYLTRANSFERASE PCAF; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 719-832; COMPND 5 SYNONYM: P300/CBP-ASSOCIATED FACTOR, P/CAF, HISTONE ACETYLASE PCAF; COMPND 6 EC: 2.3.1.48; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: HISTONE H3; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: UNP RESIDUES 32-43; COMPND 12 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: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 10 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 11 ORGANISM_TAXID: 4932; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR KEYWDS BROMODOMAIN, HISTONE, ACETYLTRANSFERASE, ACYLTRANSFERASE, CELL CYCLE, KEYWDS 2 HOST-VIRUS INTERACTION, NUCLEUS, POLYMORPHISM, TRANSCRIPTION, KEYWDS 3 TRANSCRIPTION REGULATION, ACETYLATION, CHROMOSOMAL PROTEIN, DNA KEYWDS 4 DAMAGE, DNA REPAIR, DNA-BINDING, METHYLATION, NUCLEOSOME CORE, KEYWDS 5 PHOSPHOPROTEIN, TRANSFERASE-NUCLEAR PROTEIN COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR L.ZENG,Q.ZHANG,G.GERONA-NAVARRO,M.M.ZHOU REVDAT 3 16-MAR-22 2RNX 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2RNX 1 VERSN REVDAT 1 06-MAY-08 2RNX 0 JRNL AUTH L.ZENG,Q.ZHANG,G.GERONA-NAVARRO,N.MOSHKINA,M.M.ZHOU JRNL TITL STRUCTURAL BASIS OF SITE-SPECIFIC HISTONE RECOGNITION BY THE JRNL TITL 2 BROMODOMAINS OF HUMAN COACTIVATORS PCAF AND CBP/P300 JRNL REF STRUCTURE V. 16 643 2008 JRNL REFN ISSN 0969-2126 JRNL PMID 18400184 JRNL DOI 10.1016/J.STR.2008.01.010 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0, CNS 1.0 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RNX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000150075. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 13C; U-100% 15N] REMARK 210 POTASSIUM PHOSPHATE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA 2.1 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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: CLOSE CONTACTS 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 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 1 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 2 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.4 DEGREES REMARK 500 3 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 3 TYR A 802 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 3 TYR A 802 CB - CG - CD1 ANGL. DEV. = 4.3 DEGREES REMARK 500 4 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 5 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.8 DEGREES REMARK 500 5 TYR A 802 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 6 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 7 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 8 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 9 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 10 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 11 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.9 DEGREES REMARK 500 12 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 13 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.8 DEGREES REMARK 500 13 TYR A 802 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 14 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 14 TYR A 802 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 15 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 15 TYR A 802 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 16 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 16 TYR A 802 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 16 TYR A 802 CB - CG - CD1 ANGL. DEV. = 3.9 DEGREES REMARK 500 17 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 17 TYR A 802 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 18 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 18 TYR A 802 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 19 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 20 PHE A 788 CB - CG - CD1 ANGL. DEV. = -4.5 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 HIS A 717 32.39 -166.98 REMARK 500 1 ARG A 723 -61.69 69.56 REMARK 500 1 ASP A 724 157.57 -49.98 REMARK 500 1 ARG A 754 -20.40 69.18 REMARK 500 1 TYR A 782 75.94 -68.80 REMARK 500 1 PRO A 805 5.65 -56.57 REMARK 500 1 LEU A 829 -95.93 -73.88 REMARK 500 1 ILE A 830 126.45 -21.00 REMARK 500 1 ASP A 831 -34.24 -162.89 REMARK 500 1 LYS B 37 65.44 17.93 REMARK 500 1 PRO B 38 105.47 -26.12 REMARK 500 2 MET A 718 80.87 53.53 REMARK 500 2 LYS A 720 -51.11 -154.71 REMARK 500 2 GLU A 721 105.60 -51.54 REMARK 500 2 ARG A 723 -72.70 66.38 REMARK 500 2 ASP A 724 155.57 -45.38 REMARK 500 2 PRO A 751 139.39 -39.74 REMARK 500 2 LYS A 753 7.81 -69.31 REMARK 500 2 ARG A 754 3.72 58.70 REMARK 500 2 THR A 755 -20.45 -143.00 REMARK 500 2 TYR A 782 79.93 -65.69 REMARK 500 2 PRO A 805 -1.46 -56.79 REMARK 500 2 SER A 807 -78.38 -54.56 REMARK 500 2 GLU A 808 -54.20 172.18 REMARK 500 2 LEU A 829 -87.41 -73.68 REMARK 500 2 ILE A 830 128.73 -24.68 REMARK 500 2 ASP A 831 -35.78 -162.52 REMARK 500 2 VAL B 35 -61.81 -129.24 REMARK 500 2 ALY B 36 101.08 -48.51 REMARK 500 2 LYS B 37 102.84 -46.36 REMARK 500 2 PRO B 38 -166.28 -56.81 REMARK 500 2 ARG B 40 28.96 -79.63 REMARK 500 3 LYS A 720 -84.63 -97.58 REMARK 500 3 GLU A 721 107.11 58.43 REMARK 500 3 ARG A 723 -177.52 57.33 REMARK 500 3 ASP A 724 151.62 59.83 REMARK 500 3 ARG A 754 -2.44 63.98 REMARK 500 3 PRO A 767 84.65 -64.11 REMARK 500 3 TYR A 782 74.86 -67.65 REMARK 500 3 PRO A 805 2.84 -57.52 REMARK 500 3 SER A 807 -81.64 -53.40 REMARK 500 3 GLU A 808 -50.89 175.21 REMARK 500 3 LEU A 829 -94.53 -76.75 REMARK 500 3 ILE A 830 116.64 -17.76 REMARK 500 3 ASP A 831 -38.26 -152.49 REMARK 500 3 ALY B 36 36.43 -142.00 REMARK 500 3 LYS B 37 67.24 24.91 REMARK 500 3 PRO B 38 151.77 -37.79 REMARK 500 3 TYR B 41 -152.12 -177.31 REMARK 500 4 HIS A 717 104.05 60.72 REMARK 500 REMARK 500 THIS ENTRY HAS 369 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RNW RELATED DB: PDB DBREF 2RNX A 719 832 UNP Q92831 PCAF_HUMAN 719 832 DBREF 2RNX B 31 42 UNP P61830 H3_YEAST 32 43 SEQADV 2RNX GLY A 715 UNP Q92831 EXPRESSION TAG SEQADV 2RNX SER A 716 UNP Q92831 EXPRESSION TAG SEQADV 2RNX HIS A 717 UNP Q92831 EXPRESSION TAG SEQADV 2RNX MET A 718 UNP Q92831 EXPRESSION TAG SEQADV 2RNX CYS B 43 UNP P61830 INSERTION SEQRES 1 A 118 GLY SER HIS MET SER LYS GLU PRO ARG ASP PRO ASP GLN SEQRES 2 A 118 LEU TYR SER THR LEU LYS SER ILE LEU GLN GLN VAL LYS SEQRES 3 A 118 SER HIS GLN SER ALA TRP PRO PHE MET GLU PRO VAL LYS SEQRES 4 A 118 ARG THR GLU ALA PRO GLY TYR TYR GLU VAL ILE ARG PHE SEQRES 5 A 118 PRO MET ASP LEU LYS THR MET SER GLU ARG LEU LYS ASN SEQRES 6 A 118 ARG TYR TYR VAL SER LYS LYS LEU PHE MET ALA ASP LEU SEQRES 7 A 118 GLN ARG VAL PHE THR ASN CYS LYS GLU TYR ASN PRO PRO SEQRES 8 A 118 GLU SER GLU TYR TYR LYS CYS ALA ASN ILE LEU GLU LYS SEQRES 9 A 118 PHE PHE PHE SER LYS ILE LYS GLU ALA GLY LEU ILE ASP SEQRES 10 A 118 LYS SEQRES 1 B 13 SER THR GLY GLY VAL ALY LYS PRO HIS ARG TYR LYS CYS MODRES 2RNX ALY B 36 LYS N(6)-ACETYLLYSINE HET ALY B 36 26 HETNAM ALY N(6)-ACETYLLYSINE FORMUL 2 ALY C8 H16 N2 O3 HELIX 1 1 ASP A 724 HIS A 742 1 19 HELIX 2 2 ALA A 745 GLU A 750 1 6 HELIX 3 3 GLY A 759 ILE A 764 1 6 HELIX 4 4 ASP A 769 ASN A 779 1 11 HELIX 5 5 SER A 784 TYR A 802 1 19 HELIX 6 6 SER A 807 ALA A 827 1 21 LINK C VAL B 35 N ALY B 36 1555 1555 1.33 LINK C ALY B 36 N LYS B 37 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 MODEL 2 MODEL 3 MODEL 4 MODEL 5 MODEL 6 MODEL 7 MODEL 8 MODEL 9 MODEL 10 MODEL 11 MODEL 12 MODEL 13 MODEL 14 MODEL 15 MODEL 16 MODEL 17 MODEL 18 MODEL 19 MODEL 20