HEADER METAL BINDING PROTEIN 13-MAY-11 2LD1 TITLE STRUCTURES AND CHEMICAL SHIFT ASSIGNMENTS FOR THE ADD DOMAIN OF THE TITLE 2 ATRX PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR ATRX; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ADD DOMAIN, RESIDUES 159-296; COMPND 5 SYNONYM: ATP-DEPENDENT HELICASE ATRX, X-LINKED HELICASE II, X-LINKED COMPND 6 NUCLEAR PROTEIN, XNP, ZNF-HX; COMPND 7 EC: 3.6.4.12; 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 GENE: ATRX, RAD54L, XH2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3 ROSETTA PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET30A KEYWDS HYDROLASE, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 34 AUTHOR D.NEUHAUS,J.YANG REVDAT 1 08-JUN-11 2LD1 0 JRNL AUTH A.ARGENTARO,J.C.YANG,L.CHAPMAN,M.S.KOWALCZYK,R.J.GIBBONS, JRNL AUTH 2 D.R.HIGGS,D.NEUHAUS,D.RHODES JRNL TITL STRUCTURAL CONSEQUENCES OF DISEASE-CAUSING MUTATIONS IN THE JRNL TITL 2 ATRX-DNMT3-DNMT3L (ADD) DOMAIN OF THE CHROMATIN-ASSOCIATED JRNL TITL 3 PROTEIN ATRX. JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 11939 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17609377 JRNL DOI 10.1073/PNAS.0704057104 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.8 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LD1 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAY-11. REMARK 100 THE RCSB ID CODE IS RCSB102247. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.7 REMARK 210 IONIC STRENGTH : 0.5 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6-0.8 MM [U-15N] ADD_DOMAIN_ REMARK 210 163-296, 20 MM [U-2H] TRIS, 1 MM REMARK 210 [U-2H] DTT, 100 UM ZINC CHLORIDE, REMARK 210 0.5 M SODIUM CHLORIDE, 95% H2O/5% REMARK 210 D2O; 0.3-0.4 MM [U-13C; U-15N] REMARK 210 ADD_DOMAIN_163-296, 20 MM [U-2H] REMARK 210 TRIS, 1 MM [U-2H] DTT, 100 UM REMARK 210 ZINC CHLORIDE, 0.5 M SODIUM REMARK 210 CHLORIDE, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-1H NOESY; REMARK 210 3D 1H-15N NOESY; 3D HNHB; 2D 1H- REMARK 210 13C HSQC; 3D HNCACB; 3D HN(CO) REMARK 210 CACB; 3D HNHAHB; 3D HN(CO)HAHB; REMARK 210 3D HCCH-TOCSY; 3D HCCH-COSY; 3D REMARK 210 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 : XWINNMR 3.5, SPARKY, X-PLOR 3.8 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 34 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST 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: 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 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 LEU A 165 84.78 52.96 REMARK 500 1 ASN A 179 93.63 -52.23 REMARK 500 1 HIS A 180 -174.84 50.70 REMARK 500 1 SER A 185 -69.20 -94.86 REMARK 500 1 ILE A 186 159.19 -49.64 REMARK 500 1 SER A 210 129.15 -173.04 REMARK 500 1 SER A 213 -73.45 61.27 REMARK 500 1 GLU A 218 56.62 -151.37 REMARK 500 1 TRP A 222 -59.73 -151.65 REMARK 500 1 ASN A 228 86.50 52.23 REMARK 500 1 PHE A 234 -60.67 -149.66 REMARK 500 1 LEU A 248 25.18 -146.31 REMARK 500 1 ASP A 258 62.16 -168.37 REMARK 500 1 GLU A 259 -66.73 -129.37 REMARK 500 1 ASN A 260 36.51 -152.16 REMARK 500 1 CYS A 265 -148.64 -126.48 REMARK 500 1 PRO A 270 73.21 -68.97 REMARK 500 1 LEU A 273 35.20 -155.86 REMARK 500 1 GLN A 293 60.48 -106.68 REMARK 500 2 ARG A 161 -64.12 -137.85 REMARK 500 2 ASN A 179 92.57 -53.41 REMARK 500 2 HIS A 180 -175.46 50.70 REMARK 500 2 ARG A 211 89.84 51.82 REMARK 500 2 ASP A 214 37.99 -150.52 REMARK 500 2 MET A 216 35.43 -143.74 REMARK 500 2 ASP A 217 103.47 55.17 REMARK 500 2 TRP A 222 -59.75 -150.99 REMARK 500 2 ASN A 228 84.93 52.06 REMARK 500 2 ASP A 233 40.77 -106.77 REMARK 500 2 PHE A 234 -57.78 -152.05 REMARK 500 2 LEU A 248 24.91 -146.08 REMARK 500 2 ASP A 258 64.53 -169.24 REMARK 500 2 GLU A 259 -67.43 -129.68 REMARK 500 2 ASN A 260 37.03 -152.60 REMARK 500 2 CYS A 265 -148.56 -123.96 REMARK 500 2 PRO A 270 73.82 -68.72 REMARK 500 2 LEU A 273 35.79 -156.38 REMARK 500 2 GLN A 293 60.84 -103.15 REMARK 500 3 ARG A 161 -65.01 -136.52 REMARK 500 3 ASP A 163 40.56 -142.50 REMARK 500 3 LEU A 165 -59.83 -143.65 REMARK 500 3 ASN A 179 93.26 -53.57 REMARK 500 3 HIS A 180 -175.39 50.92 REMARK 500 3 SER A 185 -69.48 -91.61 REMARK 500 3 SER A 210 124.22 -171.03 REMARK 500 3 ARG A 211 74.37 52.17 REMARK 500 3 SER A 213 -70.53 64.82 REMARK 500 3 GLU A 218 50.45 -141.37 REMARK 500 3 TRP A 222 -59.71 -150.39 REMARK 500 3 ASN A 228 93.36 52.41 REMARK 500 REMARK 500 THIS ENTRY HAS 636 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 220 SG REMARK 620 2 CYS A 240 SG 107.5 REMARK 620 3 CYS A 243 SG 112.0 106.3 REMARK 620 4 CYS A 223 SG 107.1 109.9 113.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 3 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 232 SG REMARK 620 2 CYS A 265 SG 106.7 REMARK 620 3 CYS A 235 SG 112.6 104.4 REMARK 620 4 CYS A 268 SG 109.2 117.6 106.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 200 SG REMARK 620 2 CYS A 174 SG 103.1 REMARK 620 3 CYS A 171 SG 109.6 112.6 REMARK 620 4 CYS A 197 SG 109.6 110.1 111.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 15001 RELATED DB: BMRB REMARK 900 NMR CHEMICAL SHIFT ASSIGNMENTS FOR ATRX ADD DOMAIN DBREF 2LD1 A 160 296 UNP P46100 ATRX_HUMAN 159 296 SEQADV 2LD1 GLY A 155 UNP P46100 EXPRESSION TAG SEQADV 2LD1 ALA A 156 UNP P46100 EXPRESSION TAG SEQADV 2LD1 MET A 157 UNP P46100 EXPRESSION TAG SEQADV 2LD1 ALA A 158 UNP P46100 EXPRESSION TAG SEQADV 2LD1 ASP A 159 UNP P46100 EXPRESSION TAG SEQADV 2LD1 A UNP P46100 GLU 162 DELETION SEQRES 1 A 142 GLY ALA MET ALA ASP LYS ARG GLY ASP GLY LEU HIS GLY SEQRES 2 A 142 ILE VAL SER CYS THR ALA CYS GLY GLN GLN VAL ASN HIS SEQRES 3 A 142 PHE GLN LYS ASP SER ILE TYR ARG HIS PRO SER LEU GLN SEQRES 4 A 142 VAL LEU ILE CYS LYS ASN CYS PHE LYS TYR TYR MET SER SEQRES 5 A 142 ASP ASP ILE SER ARG ASP SER ASP GLY MET ASP GLU GLN SEQRES 6 A 142 CYS ARG TRP CYS ALA GLU GLY GLY ASN LEU ILE CYS CYS SEQRES 7 A 142 ASP PHE CYS HIS ASN ALA PHE CYS LYS LYS CYS ILE LEU SEQRES 8 A 142 ARG ASN LEU GLY ARG LYS GLU LEU SER THR ILE MET ASP SEQRES 9 A 142 GLU ASN ASN GLN TRP TYR CYS TYR ILE CYS HIS PRO GLU SEQRES 10 A 142 PRO LEU LEU ASP LEU VAL THR ALA CYS ASN SER VAL PHE SEQRES 11 A 142 GLU ASN LEU GLU GLN LEU LEU GLN GLN ASN LYS LYS HET ZN A 1 1 HET ZN A 2 1 HET ZN A 3 1 HETNAM ZN ZINC ION FORMUL 2 ZN 3(ZN 2+) HELIX 1 1 CYS A 197 ASP A 207 1 11 HELIX 2 2 LYS A 241 GLY A 249 1 9 HELIX 3 3 ARG A 250 MET A 257 1 8 HELIX 4 4 LEU A 273 GLN A 293 1 21 SHEET 1 A 2 SER A 170 CYS A 171 0 SHEET 2 A 2 GLN A 176 GLN A 177 -1 O GLN A 176 N CYS A 171 SHEET 1 B 2 TYR A 187 ARG A 188 0 SHEET 2 B 2 LEU A 195 ILE A 196 -1 O ILE A 196 N TYR A 187 SHEET 1 C 2 LEU A 229 CYS A 231 0 SHEET 2 C 2 ALA A 238 CYS A 240 -1 O PHE A 239 N ILE A 230 LINK SG CYS A 220 ZN ZN A 2 1555 1555 2.29 LINK SG CYS A 232 ZN ZN A 3 1555 1555 2.30 LINK SG CYS A 265 ZN ZN A 3 1555 1555 2.30 LINK SG CYS A 240 ZN ZN A 2 1555 1555 2.30 LINK SG CYS A 200 ZN ZN A 1 1555 1555 2.30 LINK SG CYS A 235 ZN ZN A 3 1555 1555 2.30 LINK SG CYS A 174 ZN ZN A 1 1555 1555 2.30 LINK SG CYS A 171 ZN ZN A 1 1555 1555 2.31 LINK SG CYS A 268 ZN ZN A 3 1555 1555 2.31 LINK SG CYS A 197 ZN ZN A 1 1555 1555 2.31 LINK SG CYS A 243 ZN ZN A 2 1555 1555 2.31 LINK SG CYS A 223 ZN ZN A 2 1555 1555 2.31 SITE 1 AC1 4 CYS A 171 CYS A 174 CYS A 197 CYS A 200 SITE 1 AC2 4 CYS A 220 CYS A 223 CYS A 240 CYS A 243 SITE 1 AC3 4 CYS A 232 CYS A 235 CYS A 265 CYS A 268 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