PDB Short entry for 2H60 HEADER TRANSCRIPTION 30-MAY-06 2H60 TITLE SOLUTION STRUCTURE OF HUMAN BRG1 BROMODOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE GLOBAL TRANSCRIPTION ACTIVATOR SNF2L4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BROMODOMAIN; COMPND 5 SYNONYM: BRAHMA-RELATED GENE 1 PROTEIN, BRG1, ATP- DEPENDENT HELICASE COMPND 6 SMARCA4, SNF2-BETA, BRG-1 PROTEIN, MITOTIC GROWTH AND TRANSCRIPTION COMPND 7 ACTIVATOR, BRAHMA PROTEIN HOMOLOG 1, SWI/SNF-RELATED MATRIX- COMPND 8 ASSOCIATED ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY A MEMBER COMPND 9 4; COMPND 10 EC: 3.6.1.-; COMPND 11 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_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS ALFA HELIX, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 11 MDLTYP MINIMIZED AVERAGE AUTHOR W.SHEN,C.XU,J.ZHANG,J.WU,Y.SHI REVDAT 3 09-MAR-22 2H60 1 REMARK SEQADV REVDAT 2 17-JUN-08 2H60 1 JRNL VERSN REVDAT 1 13-FEB-07 2H60 0 JRNL AUTH W.SHEN,C.XU,W.HUANG,J.ZHANG,J.E.CARLSON,X.TU,J.WU,Y.SHI JRNL TITL SOLUTION STRUCTURE OF HUMAN BRG1 BROMODOMAIN AND ITS JRNL TITL 2 SPECIFIC BINDING TO ACETYLATED HISTONE TAILS JRNL REF BIOCHEMISTRY V. 46 2100 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17274598 JRNL DOI 10.1021/BI0611208 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CNS 1.1 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1355 RESTRAINTS, 1132 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 172 REMARK 3 DIHEDRAL ANGLE RESTRAINTS,51 DISTANCE RESTRAINTS FROM HYDROGEN REMARK 3 BONDS. REMARK 4 REMARK 4 2H60 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000037972. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : 100MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1MM BRG1 BROMODOMAIN U-15N, 13C; REMARK 210 25MM PHOSPHATE BUFFER; 100MM REMARK 210 NACL; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.3, SPARKY 3.11, RASMOL REMARK 210 2.6.4, MOLMOL 2K.2 REMARK 210 METHOD USED : SIMULATED ANNEALING, MOLECULAR REMARK 210 DYNAMICS, TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 11 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: THIS STRUCTURE WAS DETERMINED USING STANDARD 3D REMARK 210 HETERONUCLEAR TECHNIQUES 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-11 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 PRO A 3 REMARK 465 ASN A 4 REMARK 465 PRO A 5 REMARK 465 PRO A 6 REMARK 465 ASN A 7 REMARK 465 LEU A 8 REMARK 465 THR A 9 REMARK 465 LYS A 10 REMARK 465 LYS A 116 REMARK 465 GLU A 117 REMARK 465 ASP A 118 REMARK 465 ASP A 119 REMARK 465 SER A 120 REMARK 465 LEU A 121 REMARK 465 GLU A 122 REMARK 465 HIS A 123 REMARK 465 HIS A 124 REMARK 465 HIS A 125 REMARK 465 HIS A 126 REMARK 465 HIS A 127 REMARK 465 HIS A 128 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 HH TYR A 69 OD2 ASP A 78 1.48 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 1 LYS A 11 N LYS A 11 CA -0.166 REMARK 500 1 LYS A 11 CA LYS A 11 CB -0.141 REMARK 500 1 LYS A 23 CA LYS A 23 CB -0.152 REMARK 500 1 ARG A 41 CA ARG A 41 CB -0.147 REMARK 500 1 LYS A 42 CA LYS A 42 CB -0.154 REMARK 500 1 LYS A 42 CB LYS A 42 CG -0.177 REMARK 500 1 ARG A 52 CA ARG A 52 CB -0.182 REMARK 500 1 ARG A 52 CB ARG A 52 CG -0.233 REMARK 500 1 ARG A 52 CD ARG A 52 NE -0.145 REMARK 500 1 ARG A 52 NE ARG A 52 CZ -0.087 REMARK 500 1 LYS A 53 CA LYS A 53 CB -0.184 REMARK 500 1 LYS A 53 CA LYS A 53 C -0.176 REMARK 500 1 PRO A 54 N PRO A 54 CA -0.130 REMARK 500 1 ARG A 65 NE ARG A 65 CZ -0.083 REMARK 500 1 ARG A 70 CD ARG A 70 NE -0.136 REMARK 500 1 ARG A 70 NE ARG A 70 CZ -0.121 REMARK 500 1 ARG A 70 CZ ARG A 70 NH1 0.080 REMARK 500 1 ARG A 111 CD ARG A 111 NE -0.163 REMARK 500 1 ARG A 111 NE ARG A 111 CZ -0.089 REMARK 500 1 GLU A 115 CA GLU A 115 CB -0.138 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 LYS A 23 CD - CE - NZ ANGL. DEV. = -18.2 DEGREES REMARK 500 1 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 6.8 DEGREES REMARK 500 1 ARG A 29 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 ARG A 41 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 1 LEU A 44 CB - CG - CD2 ANGL. DEV. = 10.4 DEGREES REMARK 500 1 ARG A 52 CG - CD - NE ANGL. DEV. = -12.7 DEGREES REMARK 500 1 ARG A 52 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 1 LYS A 53 CA - CB - CG ANGL. DEV. = -16.8 DEGREES REMARK 500 1 VAL A 55 CB - CA - C ANGL. DEV. = -13.0 DEGREES REMARK 500 1 VAL A 55 CA - CB - CG1 ANGL. DEV. = 10.5 DEGREES REMARK 500 1 LYS A 61 CA - CB - CG ANGL. DEV. = -14.2 DEGREES REMARK 500 1 ARG A 65 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 ARG A 70 NH1 - CZ - NH2 ANGL. DEV. = 8.5 DEGREES REMARK 500 1 ARG A 70 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 1 ARG A 70 NE - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 1 LEU A 72 CB - CG - CD1 ANGL. DEV. = -15.0 DEGREES REMARK 500 1 LEU A 75 CB - CG - CD1 ANGL. DEV. = 13.0 DEGREES REMARK 500 1 PHE A 89 CB - CG - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 1 PHE A 89 CB - CG - CD1 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 GLN A 104 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 1 ARG A 111 N - CA - CB ANGL. DEV. = -14.5 DEGREES REMARK 500 1 ARG A 111 NE - CZ - NH2 ANGL. DEV. = -4.4 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 TYR A 22 54.66 -105.73 REMARK 500 1 SER A 25 -178.65 57.23 REMARK 500 1 PRO A 39 -173.28 -64.75 REMARK 500 1 LYS A 53 81.65 112.31 REMARK 500 1 ARG A 70 -0.18 -144.54 REMARK 500 2 TYR A 22 58.69 -107.31 REMARK 500 2 SER A 25 -176.47 59.72 REMARK 500 2 PRO A 39 -175.63 -60.70 REMARK 500 2 ARG A 52 79.95 -66.17 REMARK 500 2 LYS A 53 95.73 59.94 REMARK 500 2 HIS A 67 44.48 70.73 REMARK 500 3 TYR A 22 60.92 -115.97 REMARK 500 3 SER A 25 -175.83 60.00 REMARK 500 3 GLN A 30 -165.28 -174.88 REMARK 500 3 PRO A 39 170.12 -56.76 REMARK 500 3 LYS A 53 82.85 64.04 REMARK 500 4 TYR A 22 56.52 -106.39 REMARK 500 4 SER A 25 173.03 63.16 REMARK 500 4 PRO A 39 174.36 -57.64 REMARK 500 4 LYS A 53 86.62 62.90 REMARK 500 5 TYR A 22 53.52 -103.68 REMARK 500 5 SER A 25 -177.86 58.91 REMARK 500 5 ARG A 52 39.22 -90.50 REMARK 500 5 LYS A 53 53.44 -164.23 REMARK 500 5 ARG A 70 -51.07 -127.55 REMARK 500 6 TYR A 22 40.04 -93.85 REMARK 500 6 SER A 25 -177.99 63.06 REMARK 500 6 PHE A 35 57.42 -111.84 REMARK 500 6 PRO A 39 -176.08 -60.85 REMARK 500 6 ARG A 52 81.32 -69.67 REMARK 500 6 LYS A 53 81.62 58.19 REMARK 500 6 HIS A 67 60.77 65.38 REMARK 500 6 SER A 94 147.85 -170.76 REMARK 500 7 TYR A 22 44.09 -96.69 REMARK 500 7 SER A 25 -174.19 64.70 REMARK 500 7 ARG A 52 32.92 -87.66 REMARK 500 7 LYS A 53 54.11 -151.12 REMARK 500 7 ARG A 70 -44.55 -167.64 REMARK 500 8 TYR A 22 33.51 -90.86 REMARK 500 8 SER A 25 -178.68 57.75 REMARK 500 8 GLN A 30 -178.30 -170.98 REMARK 500 8 ARG A 52 33.54 -88.29 REMARK 500 8 LYS A 53 52.36 -149.88 REMARK 500 8 ARG A 70 -44.66 -132.08 REMARK 500 8 SER A 94 145.33 -173.63 REMARK 500 9 SER A 25 179.17 60.63 REMARK 500 9 PHE A 35 60.46 -112.41 REMARK 500 9 ARG A 52 33.38 -88.56 REMARK 500 9 LYS A 53 60.12 -170.68 REMARK 500 10 TYR A 22 59.96 -108.29 REMARK 500 REMARK 500 THIS ENTRY HAS 58 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 52 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2H60 A 2 120 UNP P51532 SMCA4_HUMAN 1452 1570 SEQADV 2H60 MET A 1 UNP P51532 INITIATING METHIONINE SEQADV 2H60 LEU A 121 UNP P51532 EXPRESSION TAG SEQADV 2H60 GLU A 122 UNP P51532 EXPRESSION TAG SEQADV 2H60 HIS A 123 UNP P51532 EXPRESSION TAG SEQADV 2H60 HIS A 124 UNP P51532 EXPRESSION TAG SEQADV 2H60 HIS A 125 UNP P51532 EXPRESSION TAG SEQADV 2H60 HIS A 126 UNP P51532 EXPRESSION TAG SEQADV 2H60 HIS A 127 UNP P51532 EXPRESSION TAG SEQADV 2H60 HIS A 128 UNP P51532 EXPRESSION TAG SEQRES 1 A 128 MET SER PRO ASN PRO PRO ASN LEU THR LYS LYS MET LYS SEQRES 2 A 128 LYS ILE VAL ASP ALA VAL ILE LYS TYR LYS ASP SER SER SEQRES 3 A 128 SER GLY ARG GLN LEU SER GLU VAL PHE ILE GLN LEU PRO SEQRES 4 A 128 SER ARG LYS GLU LEU PRO GLU TYR TYR GLU LEU ILE ARG SEQRES 5 A 128 LYS PRO VAL ASP PHE LYS LYS ILE LYS GLU ARG ILE ARG SEQRES 6 A 128 ASN HIS LYS TYR ARG SER LEU ASN ASP LEU GLU LYS ASP SEQRES 7 A 128 VAL MET LEU LEU CYS GLN ASN ALA GLN THR PHE ASN LEU SEQRES 8 A 128 GLU GLY SER LEU ILE TYR GLU ASP SER ILE VAL LEU GLN SEQRES 9 A 128 SER VAL PHE THR SER VAL ARG GLN LYS ILE GLU LYS GLU SEQRES 10 A 128 ASP ASP SER LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 LYS A 11 TYR A 22 1 12 HELIX 2 2 GLN A 30 ILE A 36 5 7 HELIX 3 3 LEU A 44 ILE A 51 1 8 HELIX 4 4 ASP A 56 ARG A 65 1 10 HELIX 5 5 SER A 71 ASN A 90 1 20 HELIX 6 6 SER A 94 GLU A 115 1 22 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