HEADER TRANSFERASE 01-JUL-23 8TCI TITLE CRYSTAL STRUCTURE OF DNMT3C-DNMT3L IN COMPLEX WITH CGG DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (CYTOSINE-5)-METHYLTRANSFERASE 3C; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: UNP RESIDUES 458-740; COMPND 5 SYNONYM: DNMT3C; COMPND 6 EC: 2.1.1.37; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (CYTOSINE-5)-METHYLTRANSFERASE 3-LIKE; COMPND 10 CHAIN: B, C; COMPND 11 FRAGMENT: UNP RESIDUES 181-379; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: (5'-D(P*CP*AP*TP*G)-R(P*(PYO))- COMPND 15 D(P*GP*GP*TP*CP*TP*AP*AP*TP*TP*AP*GP*AP*CP*CP*GP*CP*AP*TP*G)-3'); COMPND 16 CHAIN: E, F; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: DNMT3C, GM14490; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: DNMT3L; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 18 ORGANISM_COMMON: MOUSE; SOURCE 19 ORGANISM_TAXID: 10090 KEYWDS DNA CYTOSINE METHYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.KHUDAVERDYAN,J.SONG REVDAT 2 11-SEP-24 8TCI 1 JRNL REVDAT 1 14-AUG-24 8TCI 0 JRNL AUTH N.KHUDAVERDYAN,J.LU,X.CHEN,G.HERLE,J.SONG JRNL TITL THE STRUCTURE OF DNA METHYLTRANSFERASE DNMT3C REVEALS AN JRNL TITL 2 ACTIVITY-TUNING MECHANISM FOR DNA METHYLATION. JRNL REF J.BIOL.CHEM. V. 300 07633 2024 JRNL REFN ESSN 1083-351X JRNL PMID 39098534 JRNL DOI 10.1016/J.JBC.2024.107633 REMARK 2 REMARK 2 RESOLUTION. 3.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.21_5207: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 23704 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.228 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.530 REMARK 3 FREE R VALUE TEST SET COUNT : 2021 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 44.5600 - 7.6900 0.99 1618 145 0.1840 0.2194 REMARK 3 2 7.6700 - 6.1000 1.00 1614 156 0.2172 0.2379 REMARK 3 3 6.1000 - 5.3300 1.00 1606 147 0.2255 0.2419 REMARK 3 4 5.3300 - 4.8400 0.99 1534 145 0.2056 0.2353 REMARK 3 5 4.8400 - 4.5000 0.99 1615 139 0.1915 0.2360 REMARK 3 6 4.5000 - 4.2300 0.99 1574 153 0.1982 0.2405 REMARK 3 7 4.2300 - 4.0200 0.99 1609 160 0.2283 0.2443 REMARK 3 8 4.0200 - 3.8500 0.99 1580 148 0.2461 0.2957 REMARK 3 9 3.8500 - 3.7000 0.99 1548 144 0.2529 0.2953 REMARK 3 10 3.7000 - 3.5700 1.00 1605 149 0.2633 0.3022 REMARK 3 11 3.5700 - 3.4600 0.99 1610 148 0.2752 0.2891 REMARK 3 12 3.4600 - 3.3600 1.00 1590 154 0.3003 0.3007 REMARK 3 13 3.3600 - 3.2700 0.99 1561 143 0.3053 0.3678 REMARK 3 14 3.2700 - 3.1900 0.63 1019 90 0.3402 0.3405 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.460 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 8747 REMARK 3 ANGLE : 0.562 12102 REMARK 3 CHIRALITY : 0.040 1336 REMARK 3 PLANARITY : 0.005 1398 REMARK 3 DIHEDRAL : 18.905 3302 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 16.3682 -2.9605 15.6081 REMARK 3 T TENSOR REMARK 3 T11: 0.5137 T22: 0.5447 REMARK 3 T33: 0.4954 T12: 0.0032 REMARK 3 T13: 0.0135 T23: 0.0051 REMARK 3 L TENSOR REMARK 3 L11: 0.0874 L22: 2.7803 REMARK 3 L33: 1.5530 L12: 0.0482 REMARK 3 L13: 0.0180 L23: 2.0200 REMARK 3 S TENSOR REMARK 3 S11: 0.0114 S12: -0.0063 S13: 0.0182 REMARK 3 S21: -0.0052 S22: -0.2488 S23: 0.3707 REMARK 3 S31: -0.0194 S32: -0.2366 S33: 0.2271 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8TCI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1000275662. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAY-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23776 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.190 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.19000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.99900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 6U8P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% V/V TACSIMATE, PH 8.0, 0.1 M TRIS, REMARK 280 PH 8.5, 16% W/V PEG3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 94.75450 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 457 REMARK 465 ILE B 330 REMARK 465 ARG B 331 REMARK 465 SER B 332 REMARK 465 ARG B 333 REMARK 465 HIS B 334 REMARK 465 TRP B 335 REMARK 465 SER B 353 REMARK 465 LYS B 354 REMARK 465 LEU B 355 REMARK 465 ALA B 356 REMARK 465 ALA B 357 REMARK 465 ILE C 330 REMARK 465 ARG C 331 REMARK 465 SER C 332 REMARK 465 ARG C 333 REMARK 465 HIS C 334 REMARK 465 TRP C 335 REMARK 465 SER C 353 REMARK 465 LYS C 354 REMARK 465 LEU C 355 REMARK 465 ALA C 356 REMARK 465 ALA C 357 REMARK 465 LYS C 358 REMARK 465 SER D 457 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 458 CG CD CE NZ REMARK 470 ARG A 460 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 510 CE NZ REMARK 470 VAL A 512 CG1 CG2 REMARK 470 ASP A 513 CG OD1 OD2 REMARK 470 LYS A 549 CG CD CE NZ REMARK 470 GLU A 574 CG CD OE1 OE2 REMARK 470 MET A 607 CG SD CE REMARK 470 LYS A 637 CG CD CE NZ REMARK 470 LYS A 640 CG CD CE NZ REMARK 470 LYS A 656 CG CD CE NZ REMARK 470 LYS A 672 CG CD CE NZ REMARK 470 LYS A 683 CG CD CE NZ REMARK 470 ARG A 727 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 734 CG CD CE NZ REMARK 470 LYS B 200 CD CE NZ REMARK 470 LYS B 201 CG CD CE NZ REMARK 470 SER B 213 OG REMARK 470 ASP B 214 CG OD1 OD2 REMARK 470 LEU B 248 CG CD1 CD2 REMARK 470 HIS B 250 CG ND1 CD2 CE1 NE2 REMARK 470 THR B 251 OG1 CG2 REMARK 470 CYS B 252 SG REMARK 470 ASP B 253 CG OD1 OD2 REMARK 470 ARG B 254 CG CD NE CZ NH1 NH2 REMARK 470 SER B 276 OG REMARK 470 ARG B 278 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 313 CG ND1 CD2 CE1 NE2 REMARK 470 LEU B 317 CG CD1 CD2 REMARK 470 GLN B 318 CG CD OE1 NE2 REMARK 470 GLU B 342 CG CD OE1 OE2 REMARK 470 TRP B 359 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 359 CZ3 CH2 REMARK 470 LYS B 362 CG CD CE NZ REMARK 470 ARG C 186 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 201 CD CE NZ REMARK 470 HIS C 250 CG ND1 CD2 CE1 NE2 REMARK 470 CYS C 252 SG REMARK 470 LYS C 273 CG CD CE NZ REMARK 470 ARG C 278 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 292 CG CD CE NZ REMARK 470 LEU C 317 CG CD1 CD2 REMARK 470 GLN C 318 CG CD OE1 NE2 REMARK 470 GLU C 342 CG CD OE1 OE2 REMARK 470 GLN C 348 CG CD OE1 NE2 REMARK 470 GLN C 351 CG CD OE1 NE2 REMARK 470 TRP C 359 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP C 359 CZ3 CH2 REMARK 470 THR C 361 OG1 CG2 REMARK 470 LYS C 362 CG CD CE NZ REMARK 470 ASN C 366 CG OD1 ND2 REMARK 470 LYS D 458 CG CD CE NZ REMARK 470 ARG D 460 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 484 CG CD CE NZ REMARK 470 LYS D 510 CG CD CE NZ REMARK 470 ASP D 513 CG OD1 OD2 REMARK 470 LYS D 549 CG CD CE NZ REMARK 470 GLU D 574 CG CD OE1 OE2 REMARK 470 ASP D 576 CG OD1 OD2 REMARK 470 LYS D 612 CG CD CE NZ REMARK 470 LYS D 637 CG CD CE NZ REMARK 470 LYS D 672 CG CD CE NZ REMARK 470 LYS D 683 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OG SER B 194 O GLU B 197 2.15 REMARK 500 NH1 ARG A 548 OE2 GLU A 590 2.16 REMARK 500 O LEU B 206 NH2 ARG B 372 2.17 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 ASP A 513 -149.09 69.27 REMARK 500 ASP A 576 31.60 -95.96 REMARK 500 SER A 614 -167.32 -122.11 REMARK 500 ARG A 618 73.09 -165.60 REMARK 500 SER A 650 -0.57 71.68 REMARK 500 GLN A 674 76.53 57.58 REMARK 500 PHE B 196 -44.69 -142.88 REMARK 500 HIS B 250 45.51 -87.63 REMARK 500 CYS B 252 102.45 -167.08 REMARK 500 ASN B 287 53.15 -96.80 REMARK 500 PHE C 196 -55.26 69.20 REMARK 500 GLU C 202 -53.38 -127.07 REMARK 500 GLN C 217 16.82 49.04 REMARK 500 ASP C 226 56.20 -110.20 REMARK 500 TRP C 235 2.65 -69.83 REMARK 500 PRO C 247 -171.14 -65.35 REMARK 500 ASN C 287 49.29 -98.18 REMARK 500 PRO C 370 -9.79 -58.79 REMARK 500 GLU C 373 0.63 -68.14 REMARK 500 ASP D 513 -148.42 66.51 REMARK 500 ARG D 618 85.16 -156.28 REMARK 500 REMARK 500 REMARK: NULL DBREF 8TCI A 458 740 UNP P0DOY1 DNM3C_MOUSE 458 740 DBREF 8TCI B 181 379 UNP Q9UJW3 DNM3L_HUMAN 181 379 DBREF 8TCI C 181 379 UNP Q9UJW3 DNM3L_HUMAN 181 379 DBREF 8TCI D 458 740 UNP P0DOY1 DNM3C_MOUSE 458 740 DBREF 8TCI E 1 24 PDB 8TCI 8TCI 1 24 DBREF 8TCI F 1 24 PDB 8TCI 8TCI 1 24 SEQADV 8TCI SER A 457 UNP P0DOY1 EXPRESSION TAG SEQADV 8TCI SER D 457 UNP P0DOY1 EXPRESSION TAG SEQRES 1 A 284 SER LYS ARG ARG PRO ILE ARG VAL LEU SER LEU PHE ASP SEQRES 2 A 284 GLY ILE ALA THR GLY TYR LEU VAL LEU LYS GLU LEU GLY SEQRES 3 A 284 ILE LYS VAL GLU LYS TYR ILE ALA SER GLU VAL CYS ALA SEQRES 4 A 284 GLU SER ILE ALA VAL GLY THR VAL LYS HIS GLU GLY GLN SEQRES 5 A 284 ILE LYS TYR VAL ASP ASP ILE ARG ASN ILE THR LYS GLU SEQRES 6 A 284 HIS ILE ASP GLU TRP GLY PRO PHE ASP LEU VAL ILE GLY SEQRES 7 A 284 GLY SER PRO CYS ASN ASP LEU SER CYS VAL ASN PRO VAL SEQRES 8 A 284 ARG LYS GLY LEU PHE GLU GLY THR GLY ARG LEU PHE PHE SEQRES 9 A 284 GLU PHE TYR ARG LEU LEU ASN TYR SER CYS PRO GLU GLU SEQRES 10 A 284 GLU ASP ASP ARG PRO PHE PHE TRP MET PHE GLU ASN VAL SEQRES 11 A 284 VAL ALA MET GLU VAL GLY ASP LYS ARG ASP ILE SER ARG SEQRES 12 A 284 PHE LEU GLU CYS ASN PRO VAL MET ILE ASP ALA ILE LYS SEQRES 13 A 284 VAL SER ALA ALA HIS ARG ALA ARG TYR PHE TRP GLY ASN SEQRES 14 A 284 LEU PRO GLY MET ASN ARG PRO VAL MET ALA SER LYS ASN SEQRES 15 A 284 ASP LYS LEU GLU LEU GLN ASP CYS LEU GLU PHE SER ARG SEQRES 16 A 284 THR ALA LYS LEU LYS LYS VAL GLN THR ILE THR THR LYS SEQRES 17 A 284 SER ASN SER ILE ARG GLN GLY LYS ASN GLN LEU PHE PRO SEQRES 18 A 284 VAL VAL MET ASN GLY LYS ASP ASP VAL LEU TRP CYS THR SEQRES 19 A 284 GLU LEU GLU ARG ILE PHE GLY PHE PRO GLU HIS TYR THR SEQRES 20 A 284 ASP VAL SER ASN MET GLY ARG GLY ALA ARG GLN LYS LEU SEQRES 21 A 284 LEU GLY ARG SER TRP SER VAL PRO VAL ILE ARG HIS LEU SEQRES 22 A 284 PHE ALA PRO LEU LYS ASP HIS PHE ALA CYS GLU SEQRES 1 B 199 THR VAL PRO VAL TRP ARG ARG GLN PRO VAL ARG VAL LEU SEQRES 2 B 199 SER LEU PHE GLU ASP ILE LYS LYS GLU LEU THR SER LEU SEQRES 3 B 199 GLY PHE LEU GLU SER GLY SER ASP PRO GLY GLN LEU LYS SEQRES 4 B 199 HIS VAL VAL ASP VAL THR ASP THR VAL ARG LYS ASP VAL SEQRES 5 B 199 GLU GLU TRP GLY PRO PHE ASP LEU VAL TYR GLY ALA THR SEQRES 6 B 199 PRO PRO LEU GLY HIS THR CYS ASP ARG PRO PRO SER TRP SEQRES 7 B 199 TYR LEU PHE GLN PHE HIS ARG LEU LEU GLN TYR ALA ARG SEQRES 8 B 199 PRO LYS PRO GLY SER PRO ARG PRO PHE PHE TRP MET PHE SEQRES 9 B 199 VAL ASP ASN LEU VAL LEU ASN LYS GLU ASP LEU ASP VAL SEQRES 10 B 199 ALA SER ARG PHE LEU GLU MET GLU PRO VAL THR ILE PRO SEQRES 11 B 199 ASP VAL HIS GLY GLY SER LEU GLN ASN ALA VAL ARG VAL SEQRES 12 B 199 TRP SER ASN ILE PRO ALA ILE ARG SER ARG HIS TRP ALA SEQRES 13 B 199 LEU VAL SER GLU GLU GLU LEU SER LEU LEU ALA GLN ASN SEQRES 14 B 199 LYS GLN SER SER LYS LEU ALA ALA LYS TRP PRO THR LYS SEQRES 15 B 199 LEU VAL LYS ASN CYS PHE LEU PRO LEU ARG GLU TYR PHE SEQRES 16 B 199 LYS TYR PHE SER SEQRES 1 C 199 THR VAL PRO VAL TRP ARG ARG GLN PRO VAL ARG VAL LEU SEQRES 2 C 199 SER LEU PHE GLU ASP ILE LYS LYS GLU LEU THR SER LEU SEQRES 3 C 199 GLY PHE LEU GLU SER GLY SER ASP PRO GLY GLN LEU LYS SEQRES 4 C 199 HIS VAL VAL ASP VAL THR ASP THR VAL ARG LYS ASP VAL SEQRES 5 C 199 GLU GLU TRP GLY PRO PHE ASP LEU VAL TYR GLY ALA THR SEQRES 6 C 199 PRO PRO LEU GLY HIS THR CYS ASP ARG PRO PRO SER TRP SEQRES 7 C 199 TYR LEU PHE GLN PHE HIS ARG LEU LEU GLN TYR ALA ARG SEQRES 8 C 199 PRO LYS PRO GLY SER PRO ARG PRO PHE PHE TRP MET PHE SEQRES 9 C 199 VAL ASP ASN LEU VAL LEU ASN LYS GLU ASP LEU ASP VAL SEQRES 10 C 199 ALA SER ARG PHE LEU GLU MET GLU PRO VAL THR ILE PRO SEQRES 11 C 199 ASP VAL HIS GLY GLY SER LEU GLN ASN ALA VAL ARG VAL SEQRES 12 C 199 TRP SER ASN ILE PRO ALA ILE ARG SER ARG HIS TRP ALA SEQRES 13 C 199 LEU VAL SER GLU GLU GLU LEU SER LEU LEU ALA GLN ASN SEQRES 14 C 199 LYS GLN SER SER LYS LEU ALA ALA LYS TRP PRO THR LYS SEQRES 15 C 199 LEU VAL LYS ASN CYS PHE LEU PRO LEU ARG GLU TYR PHE SEQRES 16 C 199 LYS TYR PHE SER SEQRES 1 D 284 SER LYS ARG ARG PRO ILE ARG VAL LEU SER LEU PHE ASP SEQRES 2 D 284 GLY ILE ALA THR GLY TYR LEU VAL LEU LYS GLU LEU GLY SEQRES 3 D 284 ILE LYS VAL GLU LYS TYR ILE ALA SER GLU VAL CYS ALA SEQRES 4 D 284 GLU SER ILE ALA VAL GLY THR VAL LYS HIS GLU GLY GLN SEQRES 5 D 284 ILE LYS TYR VAL ASP ASP ILE ARG ASN ILE THR LYS GLU SEQRES 6 D 284 HIS ILE ASP GLU TRP GLY PRO PHE ASP LEU VAL ILE GLY SEQRES 7 D 284 GLY SER PRO CYS ASN ASP LEU SER CYS VAL ASN PRO VAL SEQRES 8 D 284 ARG LYS GLY LEU PHE GLU GLY THR GLY ARG LEU PHE PHE SEQRES 9 D 284 GLU PHE TYR ARG LEU LEU ASN TYR SER CYS PRO GLU GLU SEQRES 10 D 284 GLU ASP ASP ARG PRO PHE PHE TRP MET PHE GLU ASN VAL SEQRES 11 D 284 VAL ALA MET GLU VAL GLY ASP LYS ARG ASP ILE SER ARG SEQRES 12 D 284 PHE LEU GLU CYS ASN PRO VAL MET ILE ASP ALA ILE LYS SEQRES 13 D 284 VAL SER ALA ALA HIS ARG ALA ARG TYR PHE TRP GLY ASN SEQRES 14 D 284 LEU PRO GLY MET ASN ARG PRO VAL MET ALA SER LYS ASN SEQRES 15 D 284 ASP LYS LEU GLU LEU GLN ASP CYS LEU GLU PHE SER ARG SEQRES 16 D 284 THR ALA LYS LEU LYS LYS VAL GLN THR ILE THR THR LYS SEQRES 17 D 284 SER ASN SER ILE ARG GLN GLY LYS ASN GLN LEU PHE PRO SEQRES 18 D 284 VAL VAL MET ASN GLY LYS ASP ASP VAL LEU TRP CYS THR SEQRES 19 D 284 GLU LEU GLU ARG ILE PHE GLY PHE PRO GLU HIS TYR THR SEQRES 20 D 284 ASP VAL SER ASN MET GLY ARG GLY ALA ARG GLN LYS LEU SEQRES 21 D 284 LEU GLY ARG SER TRP SER VAL PRO VAL ILE ARG HIS LEU SEQRES 22 D 284 PHE ALA PRO LEU LYS ASP HIS PHE ALA CYS GLU SEQRES 1 E 24 DC DA DT DG PYO DG DG DT DC DT DA DA DT SEQRES 2 E 24 DT DA DG DA DC DC DG DC DA DT DG SEQRES 1 F 24 DC DA DT DG PYO DG DG DT DC DT DA DA DT SEQRES 2 F 24 DT DA DG DA DC DC DG DC DA DT DG HET PYO E 5 19 HET PYO F 5 19 HET SAH A 801 26 HET SAH D 801 26 HETNAM PYO 1-(BETA-D-RIBOFURANOSYL)-PYRIMIDIN-2-ONE-5'-PHOSPHATE HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 5 PYO 2(C9 H13 N2 O8 P) FORMUL 7 SAH 2(C14 H20 N6 O5 S) HELIX 1 AA1 ALA A 472 LEU A 481 1 10 HELIX 2 AA2 CYS A 494 HIS A 505 1 12 HELIX 3 AA3 ASP A 514 ILE A 518 5 5 HELIX 4 AA4 THR A 519 GLY A 527 1 9 HELIX 5 AA5 GLU A 553 ARG A 557 5 5 HELIX 6 AA6 LEU A 558 CYS A 570 1 13 HELIX 7 AA7 GLU A 590 GLU A 602 1 13 HELIX 8 AA8 ASP A 609 VAL A 613 5 5 HELIX 9 AA9 GLU A 642 LEU A 647 1 6 HELIX 10 AB1 SER A 665 ARG A 669 5 5 HELIX 11 AB2 TRP A 688 GLY A 697 1 10 HELIX 12 AB3 GLY A 709 ARG A 719 1 11 HELIX 13 AB4 SER A 722 ALA A 731 1 10 HELIX 14 AB5 PRO A 732 HIS A 736 5 5 HELIX 15 AB6 ILE B 199 THR B 204 1 6 HELIX 16 AB7 SER B 205 GLY B 207 5 3 HELIX 17 AB8 ASP B 223 THR B 227 5 5 HELIX 18 AB9 VAL B 228 GLY B 236 1 9 HELIX 19 AC1 PRO B 255 ARG B 271 1 17 HELIX 20 AC2 ASN B 291 GLU B 303 1 13 HELIX 21 AC3 SER B 339 LYS B 350 1 12 HELIX 22 AC4 PRO B 360 LEU B 369 1 10 HELIX 23 AC5 PRO B 370 TYR B 374 5 5 HELIX 24 AC6 PRO C 183 ARG C 187 5 5 HELIX 25 AC7 VAL C 228 TRP C 235 1 8 HELIX 26 AC8 PRO C 255 ARG C 271 1 17 HELIX 27 AC9 ASN C 291 GLU C 303 1 13 HELIX 28 AD1 SER C 339 LYS C 350 1 12 HELIX 29 AD2 PRO C 360 LEU C 369 1 10 HELIX 30 AD3 PRO C 370 TYR C 374 5 5 HELIX 31 AD4 ALA D 472 LEU D 481 1 10 HELIX 32 AD5 CYS D 494 HIS D 505 1 12 HELIX 33 AD6 ASP D 514 ILE D 518 5 5 HELIX 34 AD7 THR D 519 GLY D 527 1 9 HELIX 35 AD8 ARG D 557 CYS D 570 1 14 HELIX 36 AD9 GLU D 590 GLU D 602 1 13 HELIX 37 AE1 ILE D 611 VAL D 613 5 3 HELIX 38 AE2 GLU D 642 CYS D 646 5 5 HELIX 39 AE3 LYS D 664 ARG D 669 5 6 HELIX 40 AE4 TRP D 688 PHE D 696 1 9 HELIX 41 AE5 GLY D 709 SER D 720 1 12 HELIX 42 AE6 SER D 722 ALA D 731 1 10 HELIX 43 AE7 PRO D 732 HIS D 736 5 5 SHEET 1 AA1 7 LYS A 510 TYR A 511 0 SHEET 2 AA1 7 VAL A 485 SER A 491 1 N ALA A 490 O LYS A 510 SHEET 3 AA1 7 ILE A 462 LEU A 467 1 N SER A 466 O ILE A 489 SHEET 4 AA1 7 LEU A 531 GLY A 534 1 O LEU A 531 N ARG A 463 SHEET 5 AA1 7 PHE A 580 VAL A 586 1 O MET A 582 N VAL A 532 SHEET 6 AA1 7 ARG A 620 GLY A 624 -1 O TRP A 623 N PHE A 583 SHEET 7 AA1 7 VAL A 606 ILE A 608 -1 N ILE A 608 O ARG A 620 SHEET 1 AA2 3 ARG A 651 ALA A 653 0 SHEET 2 AA2 3 VAL A 678 MET A 680 -1 O VAL A 679 N THR A 652 SHEET 3 AA2 3 LYS A 683 ASP A 685 -1 O ASP A 685 N VAL A 678 SHEET 1 AA3 6 LEU B 218 HIS B 220 0 SHEET 2 AA3 6 VAL B 192 SER B 194 1 N VAL B 192 O LYS B 219 SHEET 3 AA3 6 LEU B 240 ALA B 244 1 O TYR B 242 N LEU B 193 SHEET 4 AA3 6 PHE B 281 ASP B 286 1 O MET B 283 N VAL B 241 SHEET 5 AA3 6 SER B 316 SER B 325 -1 O TRP B 324 N PHE B 284 SHEET 6 AA3 6 VAL B 307 HIS B 313 -1 N HIS B 313 O SER B 316 SHEET 1 AA4 6 LEU C 218 VAL C 221 0 SHEET 2 AA4 6 VAL C 192 LEU C 195 1 N SER C 194 O LYS C 219 SHEET 3 AA4 6 LEU C 240 ALA C 244 1 O TYR C 242 N LEU C 195 SHEET 4 AA4 6 PHE C 281 ASP C 286 1 O MET C 283 N GLY C 243 SHEET 5 AA4 6 SER C 316 SER C 325 -1 O TRP C 324 N PHE C 284 SHEET 6 AA4 6 VAL C 307 HIS C 313 -1 N ILE C 309 O VAL C 321 SHEET 1 AA5 7 LYS D 510 TYR D 511 0 SHEET 2 AA5 7 VAL D 485 SER D 491 1 N ALA D 490 O LYS D 510 SHEET 3 AA5 7 ILE D 462 LEU D 467 1 N SER D 466 O ILE D 489 SHEET 4 AA5 7 LEU D 531 GLY D 534 1 O ILE D 533 N LEU D 467 SHEET 5 AA5 7 PHE D 580 VAL D 586 1 O GLU D 584 N GLY D 534 SHEET 6 AA5 7 ALA D 619 GLY D 624 -1 O TRP D 623 N PHE D 583 SHEET 7 AA5 7 VAL D 606 ASP D 609 -1 N VAL D 606 O PHE D 622 SHEET 1 AA6 3 ARG D 651 ALA D 653 0 SHEET 2 AA6 3 VAL D 678 MET D 680 -1 O VAL D 679 N THR D 652 SHEET 3 AA6 3 LYS D 683 ASP D 685 -1 O ASP D 685 N VAL D 678 LINK SG CYS A 538 C6 PYO F 5 1555 1555 1.84 LINK SG CYS D 538 C6 PYO E 5 1555 1555 1.85 LINK O3' DG E 4 P PYO E 5 1555 1555 1.61 LINK O3' PYO E 5 P DG E 6 1555 1555 1.61 LINK O3' DG F 4 P PYO F 5 1555 1555 1.61 LINK O3' PYO F 5 P DG F 6 1555 1555 1.61 CISPEP 1 GLY A 527 PRO A 528 0 1.50 CISPEP 2 GLY D 527 PRO D 528 0 -1.86 CRYST1 63.088 189.509 62.864 90.00 90.07 90.00 P 1 21 1 4 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 0.015851 0.000000 0.000019 0.00000 SCALE2 0.000000 0.005277 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015907 0.00000