HEADER LIGASE 22-FEB-16 5IAY TITLE NMR STRUCTURE OF UHRF1 TANDEM TUDOR DOMAINS IN A COMPLEX WITH SPACER TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UHRF1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 134-285; COMPND 5 SYNONYM: INVERTED CCAAT BOX-BINDING PROTEIN OF 90 KDA,NUCLEAR PROTEIN COMPND 6 95,NUCLEAR ZINC FINGER PROTEIN NP95,HNP95,RING FINGER PROTEIN 106, COMPND 7 TRANSCRIPTION FACTOR ICBP90,UBIQUITIN-LIKE PHD AND RING FINGER COMPND 8 DOMAIN-CONTAINING PROTEIN 1,HUHRF1,UBIQUITIN-LIKE-CONTAINING PHD AND COMPND 9 RING FINGER DOMAINS PROTEIN 1; COMPND 10 EC: 6.3.2.-; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: UHRF1 TANDEM TUDOR DOMAINS; COMPND 13 MOL_ID: 2; COMPND 14 MOLECULE: SPACER; COMPND 15 CHAIN: B; COMPND 16 ENGINEERED: YES; COMPND 17 OTHER_DETAILS: UHRF1(642-658) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UHRF1, ICBP90, NP95, RNF106; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UHRF1, TTD, SPACER, LIGASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.FANG,J.CHENG,J.WANG,Q.ZHANG,M.LIU,R.GONG,P.WANG,X.ZHANG,Y.FENG, AUTHOR 2 W.LAN,Z.GONG,C.TANG,J.WONG,H.YANG,C.CAO,Y.XU REVDAT 2 01-MAY-24 5IAY 1 COMPND REMARK REVDAT 1 20-APR-16 5IAY 0 JRNL AUTH J.FANG,J.CHENG,J.WANG,Q.ZHANG,M.LIU,R.GONG,P.WANG,X.ZHANG, JRNL AUTH 2 Y.FENG,W.LAN,Z.GONG,C.TANG,J.WONG,H.YANG,C.CAO,Y.XU JRNL TITL HEMI-METHYLATED DNA OPENS A CLOSED CONFORMATION OF UHRF1 TO JRNL TITL 2 FACILITATE ITS HISTONE RECOGNITION JRNL REF NAT COMMUN V. 7 11197 2016 JRNL REFN ESSN 2041-1723 JRNL PMID 27045799 JRNL DOI 10.1038/NCOMMS11197 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5IAY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218553. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 297.15 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-13C; U-15N] TTD, 1.2 REMARK 210 MM SPACER, 90% H2O/10% D2O; 1.0 REMARK 210 MM [U-15N] SPACER, TTD, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HSQC; 2D 1H-15N HSQC; REMARK 210 3D HNCA; 3D HNCO; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HN(CO)CA; 3D HCCH- REMARK 210 TOCSY; MQ-CCH-TOCSY; 3D 1H-13C REMARK 210 NOESY ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N NOESY; REMARK 210 HBCBCGCDHD; HBCBCGCDCEHE; W2 X- REMARK 210 FILTER TOCSY; W1,W2 X-FILTER REMARK 210 NOESY; 13C-FILER HSQC-NOESY; 3D REMARK 210 1H-15N TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, NMRPIPE, VNMR, TALOS 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 HG1 THR A 249 H ALA A 252 1.32 REMARK 500 O ASP A 145 H GLY A 149 1.56 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 ARG A 166 -76.53 -150.94 REMARK 500 1 SER A 171 80.09 161.93 REMARK 500 1 ALA A 177 -44.85 170.75 REMARK 500 1 GLU A 234 -167.35 -116.61 REMARK 500 1 TRP A 238 96.18 -55.23 REMARK 500 1 THR A 251 26.22 -141.93 REMARK 500 1 ASP A 263 -36.45 -141.06 REMARK 500 1 LEU A 266 39.13 -141.85 REMARK 500 2 ARG A 166 -52.03 -149.90 REMARK 500 2 ASP A 167 22.91 -170.03 REMARK 500 2 THR A 173 -3.71 60.02 REMARK 500 2 ALA A 177 -58.98 -168.40 REMARK 500 2 GLU A 234 -168.39 -119.17 REMARK 500 2 TRP A 238 97.47 -58.66 REMARK 500 2 ASP A 263 -43.15 -137.29 REMARK 500 2 LEU A 266 39.02 -141.52 REMARK 500 3 ARG A 166 -74.73 -155.70 REMARK 500 3 SER A 171 -56.04 -163.73 REMARK 500 3 ALA A 177 -54.46 -175.17 REMARK 500 3 GLU A 234 -168.54 -119.65 REMARK 500 3 TRP A 238 97.32 -57.11 REMARK 500 3 LEU A 266 38.93 -141.44 REMARK 500 3 ALA B 652 140.02 -174.99 REMARK 500 4 ARG A 166 -56.37 -153.25 REMARK 500 4 ASP A 167 19.52 -169.78 REMARK 500 4 ALA A 177 -59.25 -169.60 REMARK 500 4 TRP A 238 96.70 -57.92 REMARK 500 4 ASP A 263 -43.56 -149.68 REMARK 500 4 LEU A 266 38.75 -141.53 REMARK 500 4 ASN A 267 170.47 -52.59 REMARK 500 5 SER A 165 38.88 -85.42 REMARK 500 5 ARG A 166 -1.28 61.82 REMARK 500 5 PRO A 169 136.26 -38.60 REMARK 500 5 CYS A 170 54.37 -103.65 REMARK 500 5 ALA A 177 -56.59 -170.75 REMARK 500 5 GLU A 234 -168.55 -119.58 REMARK 500 5 TRP A 238 97.87 -58.33 REMARK 500 5 ASP A 263 -37.71 -139.63 REMARK 500 5 LEU A 266 38.79 -142.10 REMARK 500 6 ARG A 166 68.54 -150.86 REMARK 500 6 SER A 174 -170.64 43.10 REMARK 500 6 ALA A 177 -97.39 -39.68 REMARK 500 6 ASP A 181 46.79 -75.74 REMARK 500 6 TRP A 238 96.87 -58.87 REMARK 500 6 ASP A 263 -39.49 -138.25 REMARK 500 6 LEU A 266 38.75 -141.58 REMARK 500 7 ARG A 166 -53.51 -153.42 REMARK 500 7 ASP A 167 21.04 -164.82 REMARK 500 7 ALA A 177 -28.54 -153.66 REMARK 500 7 GLU A 234 -167.60 -118.73 REMARK 500 REMARK 500 THIS ENTRY HAS 151 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30019 RELATED DB: BMRB DBREF 5IAY A 134 285 UNP Q96T88 UHRF1_HUMAN 134 285 DBREF 5IAY B 642 657 PDB 5IAY 5IAY 642 657 SEQRES 1 A 152 LEU TYR LYS VAL ASN GLU TYR VAL ASP ALA ARG ASP THR SEQRES 2 A 152 ASN MET GLY ALA TRP PHE GLU ALA GLN VAL VAL ARG VAL SEQRES 3 A 152 THR ARG LYS ALA PRO SER ARG ASP GLU PRO CYS SER SER SEQRES 4 A 152 THR SER ARG PRO ALA LEU GLU GLU ASP VAL ILE TYR HIS SEQRES 5 A 152 VAL LYS TYR ASP ASP TYR PRO GLU ASN GLY VAL VAL GLN SEQRES 6 A 152 MET ASN SER ARG ASP VAL ARG ALA ARG ALA ARG THR ILE SEQRES 7 A 152 ILE LYS TRP GLN ASP LEU GLU VAL GLY GLN VAL VAL MET SEQRES 8 A 152 LEU ASN TYR ASN PRO ASP ASN PRO LYS GLU ARG GLY PHE SEQRES 9 A 152 TRP TYR ASP ALA GLU ILE SER ARG LYS ARG GLU THR ARG SEQRES 10 A 152 THR ALA ARG GLU LEU TYR ALA ASN VAL VAL LEU GLY ASP SEQRES 11 A 152 ASP SER LEU ASN ASP CYS ARG ILE ILE PHE VAL ASP GLU SEQRES 12 A 152 VAL PHE LYS ILE GLU ARG PRO GLY GLU SEQRES 1 B 16 THR GLY LYS GLY LYS TRP LYS ARG LYS SER ALA GLY GLY SEQRES 2 B 16 GLY PRO SER HELIX 1 AA1 LEU A 178 VAL A 182 5 5 HELIX 2 AA2 TYR A 191 GLY A 195 5 5 HELIX 3 AA3 ASN A 200 ARG A 202 5 3 HELIX 4 AA4 LYS A 213 LEU A 217 5 5 SHEET 1 AA1 5 VAL A 197 MET A 199 0 SHEET 2 AA1 5 ILE A 183 TYR A 188 -1 N TYR A 184 O MET A 199 SHEET 3 AA1 5 ALA A 150 THR A 160 -1 N THR A 160 O ILE A 183 SHEET 4 AA1 5 TYR A 140 ASP A 145 -1 N ASP A 145 O ALA A 150 SHEET 5 AA1 5 VAL A 204 ALA A 206 -1 O ARG A 205 N ASP A 142 SHEET 1 AA2 5 SER A 265 ILE A 271 0 SHEET 2 AA2 5 ARG A 253 VAL A 260 -1 N ALA A 257 O CYS A 269 SHEET 3 AA2 5 PHE A 237 GLU A 248 -1 N ARG A 245 O TYR A 256 SHEET 4 AA2 5 VAL A 222 TYR A 227 -1 N LEU A 225 O TYR A 239 SHEET 5 AA2 5 PHE A 278 LYS A 279 -1 O PHE A 278 N MET A 224 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 0.001000 0.000000 0.000000 0.00000 SCALE2 0.000000 0.001000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.001000 0.00000 MODEL 1