HEADER HYDROLASE 14-APR-06 2CKA TITLE SOLUTION STRUCTURES OF THE BRK DOMAINS OF THE HUMAN CHROMO HELICASE TITLE 2 DOMAIN 7 AND 8, REVEALS STRUCTURAL SIMILARITY WITH GYF DOMAIN TITLE 3 SUGGESTING A ROLE IN PROTEIN INTERACTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 8; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BRK DOMAIN, RESIDUES 2012-2085; COMPND 5 SYNONYM: ATP-DEPENDENT HELICASE CHD8, CHD-8, HELICASE WITH SNF2 COMPND 6 DOMAIN 1; COMPND 7 EC: 3.6.1.-; COMPND 8 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: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHISLIC; SOURCE 10 OTHER_DETAILS: SELF MADE CDNA LIBRARY OF MULTIPLE HUMAN CARCINOMA SOURCE 11 CELL LINES KEYWDS BRK DOMAIN, TRANSCRIPTION ELONGATION, CHROMATIN REMODELING, PROTEIN- KEYWDS 2 PROTEIN INTERACTION, TRANSCRIPTION, HYDROLASE, HELICASE, NUCLEAR KEYWDS 3 PROTEIN, CHROMATIN REGULATOR EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.AB,R.N.DE JONG,T.DIERCKS,J.XIAOYUN,M.DANIELS,R.KAPTEIN,G.E.FOLKERS REVDAT 5 19-JUN-24 2CKA 1 REMARK REVDAT 4 14-JUN-23 2CKA 1 REMARK REVDAT 3 15-JAN-20 2CKA 1 REMARK REVDAT 2 24-FEB-09 2CKA 1 VERSN REVDAT 1 08-MAY-07 2CKA 0 JRNL AUTH E.AB,R.N.DE JONG,T.DIERCKS,J.XIAOYUN,M.DANIELS,R.KAPTEIN, JRNL AUTH 2 G.E.FOLKERS JRNL TITL SOLUTION STRUCTURES OF THE BRK DOMAINS OF THE HUMAN CHROMO JRNL TITL 2 HELICASE DOMAIN 7 AND 8, REVEALS STRUCTURAL SIMILARITY WITH JRNL TITL 3 GYF DOMAIN SUGGESTING A ROLE IN PROTEIN INTERACTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS, GROSSE- REMARK 3 KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ, RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: EFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE REMARK 4 REMARK 4 2CKA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-APR-06. REMARK 100 THE DEPOSITION ID IS D_1290028380. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : 1.0 ATM REMARK 210 SAMPLE CONTENTS : 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCO; HNCACO; HNCACB; CBCACONH; REMARK 210 HBHACONH; HNCAHA; CCCONH; CCH- REMARK 210 COSY; HCCH- TOCSY; HNH-NOESY; REMARK 210 HCH- NOESY; CNH-NOESY; HH- NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY REMARK 210 METHOD USED : CANDID IN CYANA REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED CHD8 2012-2085 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 MET A 1991 REMARK 465 GLY A 1992 REMARK 465 SER A 1993 REMARK 465 SER A 1994 REMARK 465 HIS A 1995 REMARK 465 HIS A 1996 REMARK 465 HIS A 1997 REMARK 465 HIS A 1998 REMARK 465 HIS A 1999 REMARK 465 HIS A 2000 REMARK 465 SER A 2001 REMARK 465 SER A 2002 REMARK 465 HIS A 2003 REMARK 465 MET A 2004 REMARK 465 LEU A 2005 REMARK 465 VAL A 2006 REMARK 465 PRO A 2007 REMARK 465 ARG A 2008 REMARK 465 GLY A 2009 REMARK 465 SER A 2010 REMARK 465 LEU A 2011 REMARK 465 LYS A 2012 REMARK 465 LYS A 2013 REMARK 465 LEU A 2014 REMARK 465 VAL A 2015 REMARK 465 GLU A 2016 REMARK 465 LEU A 2017 REMARK 465 GLU A 2018 REMARK 465 VAL A 2019 REMARK 465 GLU A 2020 REMARK 465 CYS A 2021 REMARK 465 MET A 2022 REMARK 465 GLU A 2023 REMARK 465 GLU A 2024 REMARK 465 PRO A 2025 REMARK 465 ASN A 2026 REMARK 465 HIS A 2027 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 OD1 ASP A 2043 HG1 THR A 2045 1.58 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 ASP A2029 -160.08 -160.63 REMARK 500 1 LEU A2032 -31.83 70.33 REMARK 500 2 ASP A2029 -59.80 -147.16 REMARK 500 2 LEU A2032 -30.33 72.87 REMARK 500 2 ARG A2081 80.26 45.97 REMARK 500 3 ASP A2029 -53.10 -176.64 REMARK 500 3 ASP A2043 67.52 -162.07 REMARK 500 3 HIS A2065 80.43 56.34 REMARK 500 3 GLU A2067 32.81 70.13 REMARK 500 3 LYS A2083 118.72 72.62 REMARK 500 4 VAL A2030 -58.02 75.29 REMARK 500 4 LEU A2032 -22.02 75.52 REMARK 500 4 ARG A2081 178.81 56.07 REMARK 500 5 LEU A2032 -39.13 72.30 REMARK 500 6 ASP A2029 -58.76 69.13 REMARK 500 6 LEU A2032 -34.43 72.52 REMARK 500 6 ARG A2081 -163.56 65.59 REMARK 500 7 ASP A2029 -40.50 165.65 REMARK 500 7 LEU A2032 -23.33 73.01 REMARK 500 7 ARG A2081 -78.79 -73.36 REMARK 500 7 ARG A2082 -160.99 51.07 REMARK 500 8 ASP A2029 -92.85 66.06 REMARK 500 8 LEU A2032 -44.04 69.10 REMARK 500 9 ASP A2029 -163.99 66.21 REMARK 500 9 LEU A2032 -39.77 69.89 REMARK 500 9 ARG A2081 -62.86 71.35 REMARK 500 10 LEU A2032 -10.46 68.27 REMARK 500 10 ARG A2081 88.67 63.25 REMARK 500 10 GLN A2084 92.43 65.19 REMARK 500 11 LEU A2032 -27.70 71.56 REMARK 500 11 ASP A2043 90.46 75.78 REMARK 500 11 LYS A2083 -179.43 63.79 REMARK 500 12 ASP A2029 114.63 68.15 REMARK 500 12 LEU A2032 -24.55 68.87 REMARK 500 12 HIS A2065 85.09 37.67 REMARK 500 12 GLU A2067 24.56 -165.96 REMARK 500 13 LEU A2032 -14.90 178.28 REMARK 500 13 HIS A2065 82.55 58.32 REMARK 500 13 GLU A2067 35.33 72.15 REMARK 500 14 LEU A2032 -15.13 73.20 REMARK 500 14 ARG A2081 -68.85 63.41 REMARK 500 14 LYS A2083 -51.30 -158.48 REMARK 500 14 GLN A2084 109.82 68.59 REMARK 500 15 LEU A2032 -20.17 -170.17 REMARK 500 15 HIS A2065 87.65 -151.84 REMARK 500 15 ARG A2081 -73.31 70.56 REMARK 500 15 ARG A2082 22.77 -170.70 REMARK 500 15 LYS A2083 -70.14 -77.61 REMARK 500 16 ASP A2029 -45.82 -142.75 REMARK 500 16 LEU A2032 -52.83 68.05 REMARK 500 REMARK 500 THIS ENTRY HAS 68 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 3 ARG A2054 0.07 SIDE CHAIN REMARK 500 3 ARG A2073 0.08 SIDE CHAIN REMARK 500 5 ARG A2054 0.09 SIDE CHAIN REMARK 500 9 ARG A2055 0.07 SIDE CHAIN REMARK 500 12 ARG A2055 0.08 SIDE CHAIN REMARK 500 13 ARG A2054 0.07 SIDE CHAIN REMARK 500 15 ARG A2055 0.09 SIDE CHAIN REMARK 500 18 ARG A2055 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2DL6 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE FIRST BRK DOMAIN FROM HUMANCHROMODOMAIN- REMARK 900 HELICASE-DNA-BINDING PROTEIN 8 REMARK 900 RELATED ID: 15098 RELATED DB: BMRB DBREF 2CKA A 1991 2011 PDB 2CKA 2CKA 1991 2011 DBREF 2CKA A 2012 2085 UNP Q9HCK8 CHD8_HUMAN 2012 2085 SEQRES 1 A 95 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER HIS SEQRES 2 A 95 MET LEU VAL PRO ARG GLY SER LEU LYS LYS LEU VAL GLU SEQRES 3 A 95 LEU GLU VAL GLU CYS MET GLU GLU PRO ASN HIS LEU ASP SEQRES 4 A 95 VAL ASP LEU GLU THR ARG ILE PRO VAL ILE ASN LYS VAL SEQRES 5 A 95 ASP GLY THR LEU LEU VAL GLY GLU ASP ALA PRO ARG ARG SEQRES 6 A 95 ALA GLU LEU GLU MET TRP LEU GLN GLY HIS PRO GLU PHE SEQRES 7 A 95 ALA VAL ASP PRO ARG PHE LEU ALA TYR MET GLU ASP ARG SEQRES 8 A 95 ARG LYS GLN LYS HELIX 1 1 ARG A 2054 HIS A 2065 1 12 HELIX 2 2 ASP A 2071 ARG A 2081 1 11 SHEET 1 AA 3 LEU A2046 LEU A2047 0 SHEET 2 AA 3 VAL A2038 ASN A2040 -1 O VAL A2038 N LEU A2047 SHEET 3 AA 3 PHE A2068 VAL A2070 -1 O ALA A2069 N ILE A2039 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