PDB Short entry for 2L2L HEADER TRANSFERASE 20-AUG-10 2L2L TITLE SOLUTION STRUCTURE OF THE COILED-COIL COMPLEX BETWEEN MBD2 AND TITLE 2 P66ALPHA COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REPRESSOR P66-ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: P66-ALPHA COILED-COIL DOMAIN (UNP RESIDUES 137-178); COMPND 5 SYNONYM: HP66ALPHA, GATA ZINC FINGER DOMAIN-CONTAINING PROTEIN 2A; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: METHYL-CPG-BINDING DOMAIN PROTEIN 2; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: MBD2 COILED-COIL DOMAIN (UNP RESIDUES 360-393); COMPND 11 SYNONYM: METHYL-CPG-BINDING PROTEIN MBD2, DEMETHYLASE, DMTASE; 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 GENE: GATAD2A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: MBD2; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS DNA METHYLATION, COILED-COIL, NURD, MBD2, P66ALPHA, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.C.WILLIAMS JR.,N.SCARSDALE JR. REVDAT 3 05-FEB-20 2L2L 1 REMARK SEQADV REVDAT 2 24-AUG-11 2L2L 1 JRNL VERSN REVDAT 1 04-MAY-11 2L2L 0 JRNL AUTH M.N.GNANAPRAGASAM,J.N.SCARSDALE,M.L.AMAYA,H.D.WEBB, JRNL AUTH 2 M.A.DESAI,N.M.WALAVALKAR,S.Z.WANG,S.ZU ZHU,G.D.GINDER, JRNL AUTH 3 D.C.WILLIAMS JRNL TITL P66ALPHA-MBD2 COILED-COIL INTERACTION AND RECRUITMENT OF JRNL TITL 2 MI-2 ARE CRITICAL FOR GLOBIN GENE SILENCING BY THE MBD2-NURD JRNL TITL 3 COMPLEX. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 7487 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 21490301 JRNL DOI 10.1073/PNAS.1015341108 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH, X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X- REMARK 3 PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2L2L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-AUG-10. REMARK 100 THE DEPOSITION ID IS D_1000101877. 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 : 0.02 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-99% 13C; U-99% 15N] REMARK 210 P66-ALPHA, 1.0 MM MBD2, 90% H2O/ REMARK 210 10% D2O; 1.0 MM [U-100% 13C; U- REMARK 210 100% 15N] MBD2, 1.0 MM P66-ALPHA, REMARK 210 90% H2O/10% D2O; 1.0 MM [U-100% REMARK 210 13C; U-100% 15N; U-80% 2H] P66- REMARK 210 ALPHA, 1.0 MM [U-100% 13C; U-100% REMARK 210 15N; U-80% 2H] MBD2, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D HNCA; 3D HNCACB; 3D REMARK 210 HBHA(CO)NH; 3D CBCA(CO)NH; 3D REMARK 210 HN(CO)CA; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY; 3D C(CO)NH; 2D 1H-15N REMARK 210 HSQC; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : PIPP REMARK 210 METHOD USED : SIMULATED ANNEALING 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: 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 H2 GLY A 136 H SER A 137 1.33 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 A 137 69.73 36.93 REMARK 500 1 LYS A 172 83.95 33.04 REMARK 500 1 GLU A 173 -118.69 33.51 REMARK 500 1 ALA A 174 20.72 -152.14 REMARK 500 1 THR A 175 -90.97 36.48 REMARK 500 1 LYS B 211 21.12 -75.50 REMARK 500 2 SER A 137 77.14 -168.85 REMARK 500 2 ALA A 174 9.81 54.17 REMARK 500 2 THR A 175 -79.86 60.93 REMARK 500 2 ALA A 176 107.58 52.80 REMARK 500 2 LYS B 211 24.02 38.00 REMARK 500 2 ALA B 212 -135.53 34.96 REMARK 500 3 SER A 137 154.93 59.02 REMARK 500 3 GLN A 171 106.96 -39.10 REMARK 500 3 LYS A 172 54.74 38.68 REMARK 500 3 ALA A 176 -165.08 -172.23 REMARK 500 3 ALA B 240 179.15 -47.38 REMARK 500 3 ASP B 241 -70.95 56.86 REMARK 500 3 LEU B 243 92.55 84.24 REMARK 500 4 GLU A 173 63.15 36.18 REMARK 500 4 ALA A 176 -45.30 -163.38 REMARK 500 4 GLN A 177 22.17 38.76 REMARK 500 4 ALA B 240 51.27 18.99 REMARK 500 4 LEU B 243 33.10 38.39 REMARK 500 5 SER A 137 51.85 -152.83 REMARK 500 5 LYS A 172 -83.29 -91.59 REMARK 500 5 GLN A 177 76.46 36.84 REMARK 500 5 LYS B 211 -103.60 36.24 REMARK 500 5 PHE B 213 75.19 -151.01 REMARK 500 5 ALA B 240 -116.10 -49.05 REMARK 500 5 ILE B 242 -85.45 -165.62 REMARK 500 6 SER A 137 92.89 -27.37 REMARK 500 6 GLN A 169 -73.64 -69.65 REMARK 500 6 GLN A 171 -164.99 54.11 REMARK 500 6 GLU A 173 149.38 -36.76 REMARK 500 6 ALA A 176 -42.98 -161.80 REMARK 500 6 ALA B 212 -160.24 37.49 REMARK 500 6 ALA B 240 44.27 22.73 REMARK 500 6 ILE B 242 -36.79 -145.10 REMARK 500 6 LEU B 243 -75.91 -79.62 REMARK 500 7 ALA A 176 -108.74 178.24 REMARK 500 7 GLN A 177 -89.02 56.18 REMARK 500 7 PHE B 213 98.71 41.48 REMARK 500 8 ALA A 174 -149.27 71.45 REMARK 500 8 ALA A 176 -153.85 -151.01 REMARK 500 8 ASP B 241 28.86 44.38 REMARK 500 8 ILE B 242 -5.91 58.54 REMARK 500 9 SER A 137 153.09 70.65 REMARK 500 9 GLN A 171 -33.87 66.12 REMARK 500 9 GLU A 173 -45.16 -142.46 REMARK 500 REMARK 500 THIS ENTRY HAS 135 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17138 RELATED DB: BMRB DBREF 2L2L A 137 178 UNP Q86YP4 P66A_HUMAN 137 178 DBREF 2L2L B 211 244 UNP Q9UBB5 MBD2_HUMAN 360 393 SEQADV 2L2L GLY A 136 UNP Q86YP4 EXPRESSION TAG SEQADV 2L2L GLY B 209 UNP Q9UBB5 EXPRESSION TAG SEQADV 2L2L SER B 210 UNP Q9UBB5 EXPRESSION TAG SEQRES 1 A 43 GLY SER PRO GLU GLU ARG GLU ARG MET ILE LYS GLN LEU SEQRES 2 A 43 LYS GLU GLU LEU ARG LEU GLU GLU ALA LYS LEU VAL LEU SEQRES 3 A 43 LEU LYS LYS LEU ARG GLN SER GLN ILE GLN LYS GLU ALA SEQRES 4 A 43 THR ALA GLN LYS SEQRES 1 B 36 GLY SER LYS ALA PHE ILE VAL THR ASP GLU ASP ILE ARG SEQRES 2 B 36 LYS GLN GLU GLU ARG VAL GLN GLN VAL ARG LYS LYS LEU SEQRES 3 B 36 GLU GLU ALA LEU MET ALA ASP ILE LEU SER HELIX 1 1 SER A 137 GLN A 169 1 33 HELIX 2 2 THR B 216 ALA B 240 1 25 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