HEADER TRANSFERASE 09-DEC-23 8V9U TITLE SOLUTION NMR STRUCTURE OF HUMAN DNMT1 N-TERMINAL ALPHA-HELICAL DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (CYTOSINE-5)-METHYLTRANSFERASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DNMT1,CXXC-TYPE ZINC FINGER PROTEIN 9,DNA METHYLTRANSFERASE COMPND 5 HSAI,DNA MTASE HSAI,M.HSAI,MCMT; COMPND 6 EC: 2.1.1.37; COMPND 7 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: DNMT1, AIM, CXXC9, DNMT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PTEV KEYWDS DNMT1, DNA METHYLATION, EPIGENETICS, GENE EXPRESSION, TRANSCRIPTION, KEYWDS 2 DNA DAMAGE REPAIR, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR Q.HU,M.V.BOTUYAN,G.MER REVDAT 2 15-MAY-24 8V9U 1 REMARK REVDAT 1 28-FEB-24 8V9U 0 JRNL AUTH Q.HU,M.V.BOTUYAN,G.MER JRNL TITL SOLUTION NMR STRUCTURE OF HUMAN DNMT1 N-TERMINAL JRNL TITL 2 ALPHA-HELICAL DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN 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 8V9U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-DEC-23. REMARK 100 THE DEPOSITION ID IS D_1000279785. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1 MM [U-13C; U-15N] DNMT1, 20 MM REMARK 210 MES/BIS-TRIS, 50 MM SODIUM REMARK 210 CHLORIDE, 90% H2O/10% D2O; 1 MM REMARK 210 [U-13C; U-15N] DNMT1, 20 MM MES/ REMARK 210 BIS-TRIS, 50 MM SODIUM CHLORIDE, REMARK 210 100% D2O; 1 MM [U-15N] DNMT1, 20 REMARK 210 MM MES/BIS-TRIS, 50 MM SODIUM REMARK 210 CHLORIDE, 90% H2O/10% D2O; 1 MM REMARK 210 [U-15N] DNMT1, 20 MM MES/BIS- REMARK 210 TRIS, 50 MM SODIUM CHLORIDE, 5 % REMARK 210 PENTAETHYLENE GLYCOL MONODODECYL REMARK 210 ETHER (C12E5), 95 % N-HEXANOL, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCO; 3D HN(CA)CO; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HCCH-COSY; 3D REMARK 210 HCCH-TOCSY; 3D HBHA(CO)NH; 3D 1H- REMARK 210 13C NOESY; 3D 1H-15N NOESY; 2D REMARK 210 1H-15N IPAP HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, SPARKY, NMRPIPE, REMARK 210 TALOS+, X-PLOR NIH REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 MET A 15 77.99 -150.90 REMARK 500 1 ALA A 17 32.80 -160.50 REMARK 500 1 SER A 35 92.17 73.84 REMARK 500 1 LEU A 36 -163.00 -77.08 REMARK 500 2 MET A 15 86.60 58.41 REMARK 500 2 LEU A 20 162.98 -44.14 REMARK 500 2 SER A 35 91.41 70.87 REMARK 500 2 LEU A 36 -152.28 -89.88 REMARK 500 3 SER A 35 118.63 71.29 REMARK 500 4 LEU A 20 144.27 -35.41 REMARK 500 4 SER A 35 105.60 64.49 REMARK 500 5 MET A 15 157.52 -47.77 REMARK 500 5 LEU A 20 160.15 57.91 REMARK 500 5 SER A 35 109.69 70.35 REMARK 500 6 MET A 15 168.99 59.76 REMARK 500 6 ALA A 17 109.51 -53.68 REMARK 500 6 LEU A 20 150.67 -42.42 REMARK 500 6 SER A 35 109.74 -13.41 REMARK 500 6 SER A 91 179.35 -55.37 REMARK 500 7 ILE A 18 -35.98 -134.85 REMARK 500 7 SER A 35 112.68 70.52 REMARK 500 8 LEU A 20 144.38 66.62 REMARK 500 8 SER A 35 112.87 63.36 REMARK 500 9 ALA A 17 87.90 -159.24 REMARK 500 9 SER A 35 104.77 48.63 REMARK 500 9 LEU A 36 -99.53 -102.13 REMARK 500 10 SER A 19 175.16 -55.95 REMARK 500 10 SER A 35 102.49 62.18 REMARK 500 11 ALA A 17 -69.36 -168.29 REMARK 500 11 SER A 35 96.21 70.22 REMARK 500 12 MET A 15 72.05 -161.79 REMARK 500 12 ALA A 17 -176.57 -67.26 REMARK 500 12 SER A 35 110.73 68.21 REMARK 500 13 LEU A 20 156.96 -44.76 REMARK 500 13 SER A 35 112.47 64.43 REMARK 500 14 LEU A 20 150.59 -48.01 REMARK 500 14 SER A 35 107.06 68.09 REMARK 500 15 ALA A 17 168.70 63.78 REMARK 500 15 SER A 19 149.06 -170.76 REMARK 500 15 SER A 35 102.77 63.86 REMARK 500 15 THR A 37 174.53 -59.61 REMARK 500 16 LEU A 20 153.97 -47.94 REMARK 500 16 SER A 35 114.44 66.63 REMARK 500 16 SER A 91 -179.32 -56.57 REMARK 500 17 ALA A 17 114.52 61.06 REMARK 500 17 LEU A 20 159.84 -43.33 REMARK 500 17 SER A 35 83.40 74.36 REMARK 500 17 LEU A 36 -154.54 -87.14 REMARK 500 18 MET A 15 73.81 58.19 REMARK 500 18 SER A 19 -62.33 -152.77 REMARK 500 REMARK 500 THIS ENTRY HAS 84 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 31134 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF HUMAN DNMT1 N-TERMINAL ALPHA-HELICAL REMARK 900 DOMAIN DBREF 8V9U A 16 93 UNP P26358 DNMT1_HUMAN 16 93 SEQADV 8V9U GLY A 13 UNP P26358 EXPRESSION TAG SEQADV 8V9U HIS A 14 UNP P26358 EXPRESSION TAG SEQADV 8V9U MET A 15 UNP P26358 EXPRESSION TAG SEQRES 1 A 81 GLY HIS MET PRO ALA ILE SER LEU PRO ASP ASP VAL ARG SEQRES 2 A 81 ARG ARG LEU LYS ASP LEU GLU ARG ASP SER LEU THR GLU SEQRES 3 A 81 LYS GLU CYS VAL LYS GLU LYS LEU ASN LEU LEU HIS GLU SEQRES 4 A 81 PHE LEU GLN THR GLU ILE LYS ASN GLN LEU CYS ASP LEU SEQRES 5 A 81 GLU THR LYS LEU ARG LYS GLU GLU LEU SER GLU GLU GLY SEQRES 6 A 81 TYR LEU ALA LYS VAL LYS SER LEU LEU ASN LYS ASP LEU SEQRES 7 A 81 SER LEU GLU HELIX 1 AA1 PRO A 21 SER A 35 1 15 HELIX 2 AA2 THR A 37 GLU A 51 1 15 HELIX 3 AA3 GLN A 54 LYS A 70 1 17 HELIX 4 AA4 SER A 74 GLU A 93 1 20 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