HEADER RNA BINDING PROTEIN 25-FEB-22 7Z26 TITLE CRYSTAL STRUCTURE OF YTHDF2 YTH DOMAIN IN COMPLEX WITH M6A RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: YTH DOMAIN-CONTAINING FAMILY PROTEIN 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CLL-ASSOCIATED ANTIGEN KW-14,HIGH-GLUCOSE-REGULATED PROTEIN COMPND 5 8,RENAL CARCINOMA ANTIGEN NY-REN-2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RNA (5'-R(P*(6MZ)P*CP*U)-3'); COMPND 9 CHAIN: D, E; COMPND 10 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: YTHDF2, HGRG8; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS EPITRANSCRIPTOMIC READER, M6A READER, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR F.NAI,R.NACHAWATI,Y.LI,A.CAFLISCH REVDAT 4 07-FEB-24 7Z26 1 REMARK REVDAT 3 14-JUN-23 7Z26 1 REMARK REVDAT 2 28-SEP-22 7Z26 1 JRNL REVDAT 1 16-MAR-22 7Z26 0 JRNL AUTH F.NAI,R.NACHAWATI,F.ZALESAK,X.WANG,Y.LI,A.CAFLISCH JRNL TITL FRAGMENT LIGANDS OF THE M 6 A-RNA READER YTHDF2. JRNL REF ACS MED.CHEM.LETT. V. 13 1500 2022 JRNL REFN ISSN 1948-5875 JRNL PMID 36110386 JRNL DOI 10.1021/ACSMEDCHEMLETT.2C00303 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20_4459 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 33316 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1667 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 40.3400 - 4.3400 1.00 2678 142 0.1893 0.2237 REMARK 3 2 4.3400 - 3.4500 1.00 2657 141 0.1679 0.1852 REMARK 3 3 3.4500 - 3.0100 1.00 2644 139 0.1856 0.2256 REMARK 3 4 3.0100 - 2.7400 1.00 2649 140 0.2055 0.2413 REMARK 3 5 2.7400 - 2.5400 1.00 2613 137 0.2084 0.2428 REMARK 3 6 2.5400 - 2.3900 1.00 2646 139 0.2061 0.2463 REMARK 3 7 2.3900 - 2.2700 1.00 2625 138 0.2030 0.2680 REMARK 3 8 2.2700 - 2.1700 1.00 2641 138 0.2111 0.2202 REMARK 3 9 2.1700 - 2.0900 1.00 2614 137 0.2195 0.2636 REMARK 3 10 2.0900 - 2.0200 1.00 2640 140 0.2359 0.2719 REMARK 3 11 2.0200 - 1.9500 1.00 2634 138 0.2601 0.2836 REMARK 3 12 1.9500 - 1.9000 0.99 2608 138 0.2742 0.3245 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) : 0.217 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.933 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.61 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.72 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 : 0.008 2605 REMARK 3 ANGLE : 1.058 3553 REMARK 3 CHIRALITY : 0.064 375 REMARK 3 PLANARITY : 0.007 436 REMARK 3 DIHEDRAL : 12.422 389 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 7Z26 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1292121388. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-AUG-21 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 : SLS REMARK 200 BEAMLINE : X06DA 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33384 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 40.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.060 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.9700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PHASER REMARK 200 STARTING MODEL: 4RDN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.025 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 CITRATE TRIBASIC PH 5.2, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.18000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 38.09000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.13500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 19.04500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 95.22500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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, D 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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 MET A 386 REMARK 465 GLY A 387 REMARK 465 SER A 388 REMARK 465 SER A 389 REMARK 465 TYR A 390 REMARK 465 HIS A 391 REMARK 465 HIS A 392 REMARK 465 HIS A 393 REMARK 465 HIS A 394 REMARK 465 HIS A 395 REMARK 465 HIS A 396 REMARK 465 SER A 397 REMARK 465 SER A 398 REMARK 465 HIS A 549 REMARK 465 THR A 550 REMARK 465 THR A 551 REMARK 465 SER A 552 REMARK 465 MET B 386 REMARK 465 GLY B 387 REMARK 465 SER B 388 REMARK 465 SER B 389 REMARK 465 TYR B 390 REMARK 465 HIS B 391 REMARK 465 HIS B 392 REMARK 465 HIS B 393 REMARK 465 HIS B 394 REMARK 465 HIS B 395 REMARK 465 HIS B 396 REMARK 465 SER B 397 REMARK 465 SER B 398 REMARK 465 GLY B 399 REMARK 465 HIS B 549 REMARK 465 THR B 550 REMARK 465 THR B 551 REMARK 465 SER B 552 REMARK 465 G D 1 REMARK 465 G D 2 REMARK 465 G E 1 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 GLU A 400 OE2 REMARK 470 LEU A 402 CG CD1 CD2 REMARK 470 GLN A 405 CG CD OE1 NE2 REMARK 470 HIS A 406 CG ND1 CD2 CE1 NE2 REMARK 470 MET A 407 CG SD CE REMARK 470 LYS A 408 CG CD CE NZ REMARK 470 LYS A 440 CE NZ REMARK 470 ARG A 441 CZ NH1 NH2 REMARK 470 LYS A 452 CD CE NZ REMARK 470 ASP A 489 OD1 OD2 REMARK 470 LYS A 490 CG CD CE NZ REMARK 470 LYS A 492 CD CE NZ REMARK 470 ARG A 498 CD NE CZ NH1 NH2 REMARK 470 ILE A 500 CG2 REMARK 470 PHE A 501 CD2 CE1 CE2 CZ REMARK 470 LYS A 503 NZ REMARK 470 ARG A 511 CD NE CZ NH1 NH2 REMARK 470 LYS A 542 NZ REMARK 470 LYS A 548 CG CD CE NZ REMARK 470 GLU B 400 CG CD OE1 OE2 REMARK 470 LEU B 402 CG CD1 CD2 REMARK 470 LYS B 408 CG CD CE NZ REMARK 470 HIS B 409 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 440 CE NZ REMARK 470 ASN B 450 CG OD1 ND2 REMARK 470 LYS B 452 CD CE NZ REMARK 470 LYS B 474 CE NZ REMARK 470 LYS B 492 NZ REMARK 470 ARG B 494 CZ NH1 NH2 REMARK 470 ARG B 498 CZ NH1 NH2 REMARK 470 ARG B 511 NH1 NH2 REMARK 470 ARG B 527 CZ NH1 NH2 REMARK 470 LYS B 548 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 O HOH B 763 O HOH B 766 2.10 REMARK 500 O HOH A 779 O HOH A 790 2.14 REMARK 500 O HOH A 771 O HOH B 732 2.15 REMARK 500 O HOH B 713 O HOH B 771 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 780 O HOH A 782 5555 2.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 C D 4 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES 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 SER A 434 -164.66 -108.96 REMARK 500 ASN A 525 51.99 -101.21 REMARK 500 HIS B 409 -164.23 -107.12 REMARK 500 SER B 434 -168.61 -108.51 REMARK 500 REMARK 500 REMARK: NULL DBREF 7Z26 A 408 552 UNP Q9Y5A9 YTHD2_HUMAN 408 552 DBREF 7Z26 B 408 552 UNP Q9Y5A9 YTHD2_HUMAN 408 552 DBREF 7Z26 D 1 5 PDB 7Z26 7Z26 1 5 DBREF 7Z26 E 1 5 PDB 7Z26 7Z26 1 5 SEQADV 7Z26 MET A 386 UNP Q9Y5A9 INITIATING METHIONINE SEQADV 7Z26 GLY A 387 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER A 388 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER A 389 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 TYR A 390 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 391 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 392 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 393 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 394 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 395 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 396 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER A 397 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER A 398 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 GLY A 399 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 GLU A 400 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 ASN A 401 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 LEU A 402 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 TYR A 403 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 PHE A 404 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 GLN A 405 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS A 406 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 MET A 407 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 MET B 386 UNP Q9Y5A9 INITIATING METHIONINE SEQADV 7Z26 GLY B 387 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER B 388 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER B 389 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 TYR B 390 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 391 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 392 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 393 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 394 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 395 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 396 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER B 397 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 SER B 398 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 GLY B 399 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 GLU B 400 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 ASN B 401 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 LEU B 402 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 TYR B 403 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 PHE B 404 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 GLN B 405 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 HIS B 406 UNP Q9Y5A9 EXPRESSION TAG SEQADV 7Z26 MET B 407 UNP Q9Y5A9 EXPRESSION TAG SEQRES 1 A 167 MET GLY SER SER TYR HIS HIS HIS HIS HIS HIS SER SER SEQRES 2 A 167 GLY GLU ASN LEU TYR PHE GLN HIS MET LYS HIS GLY ARG SEQRES 3 A 167 VAL PHE ILE ILE LYS SER TYR SER GLU ASP ASP ILE HIS SEQRES 4 A 167 ARG SER ILE LYS TYR ASN ILE TRP CYS SER THR GLU HIS SEQRES 5 A 167 GLY ASN LYS ARG LEU ASP ALA ALA TYR ARG SER MET ASN SEQRES 6 A 167 GLY LYS GLY PRO VAL TYR LEU LEU PHE SER VAL ASN GLY SEQRES 7 A 167 SER GLY HIS PHE CYS GLY VAL ALA GLU MET LYS SER ALA SEQRES 8 A 167 VAL ASP TYR ASN THR CYS ALA GLY VAL TRP SER GLN ASP SEQRES 9 A 167 LYS TRP LYS GLY ARG PHE ASP VAL ARG TRP ILE PHE VAL SEQRES 10 A 167 LYS ASP VAL PRO ASN SER GLN LEU ARG HIS ILE ARG LEU SEQRES 11 A 167 GLU ASN ASN GLU ASN LYS PRO VAL THR ASN SER ARG ASP SEQRES 12 A 167 THR GLN GLU VAL PRO LEU GLU LYS ALA LYS GLN VAL LEU SEQRES 13 A 167 LYS ILE ILE ALA SER TYR LYS HIS THR THR SER SEQRES 1 B 167 MET GLY SER SER TYR HIS HIS HIS HIS HIS HIS SER SER SEQRES 2 B 167 GLY GLU ASN LEU TYR PHE GLN HIS MET LYS HIS GLY ARG SEQRES 3 B 167 VAL PHE ILE ILE LYS SER TYR SER GLU ASP ASP ILE HIS SEQRES 4 B 167 ARG SER ILE LYS TYR ASN ILE TRP CYS SER THR GLU HIS SEQRES 5 B 167 GLY ASN LYS ARG LEU ASP ALA ALA TYR ARG SER MET ASN SEQRES 6 B 167 GLY LYS GLY PRO VAL TYR LEU LEU PHE SER VAL ASN GLY SEQRES 7 B 167 SER GLY HIS PHE CYS GLY VAL ALA GLU MET LYS SER ALA SEQRES 8 B 167 VAL ASP TYR ASN THR CYS ALA GLY VAL TRP SER GLN ASP SEQRES 9 B 167 LYS TRP LYS GLY ARG PHE ASP VAL ARG TRP ILE PHE VAL SEQRES 10 B 167 LYS ASP VAL PRO ASN SER GLN LEU ARG HIS ILE ARG LEU SEQRES 11 B 167 GLU ASN ASN GLU ASN LYS PRO VAL THR ASN SER ARG ASP SEQRES 12 B 167 THR GLN GLU VAL PRO LEU GLU LYS ALA LYS GLN VAL LEU SEQRES 13 B 167 LYS ILE ILE ALA SER TYR LYS HIS THR THR SER SEQRES 1 D 5 G G 6MZ C U SEQRES 1 E 5 G G 6MZ C U HET 6MZ D 3 23 HET 6MZ E 3 23 HET SO4 A 601 5 HET SO4 B 601 5 HET GOL B 602 6 HETNAM 6MZ N6-METHYLADENOSINE-5'-MONOPHOSPHATE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 6MZ 2(C11 H16 N5 O7 P) FORMUL 5 SO4 2(O4 S 2-) FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *175(H2 O) HELIX 1 AA1 SER A 419 ASN A 430 1 12 HELIX 2 AA2 THR A 435 ASN A 450 1 16 HELIX 3 AA3 SER A 508 LEU A 510 5 3 HELIX 4 AA4 PRO A 522 SER A 526 5 5 HELIX 5 AA5 PRO A 533 TYR A 547 1 15 HELIX 6 AA6 SER B 419 ASN B 430 1 12 HELIX 7 AA7 THR B 435 ASN B 450 1 16 HELIX 8 AA8 SER B 508 LEU B 510 5 3 HELIX 9 AA9 PRO B 522 SER B 526 5 5 HELIX 10 AB1 PRO B 533 TYR B 547 1 15 SHEET 1 AA1 6 ILE A 431 TRP A 432 0 SHEET 2 AA1 6 PHE A 495 PRO A 506 -1 O PHE A 495 N TRP A 432 SHEET 3 AA1 6 HIS A 466 MET A 473 -1 N VAL A 470 O ILE A 500 SHEET 4 AA1 6 VAL A 455 VAL A 461 -1 N LEU A 457 O ALA A 471 SHEET 5 AA1 6 ARG A 411 SER A 417 1 N ILE A 415 O LEU A 458 SHEET 6 AA1 6 GLU A 531 VAL A 532 -1 O VAL A 532 N VAL A 412 SHEET 1 AA2 6 ILE B 431 TRP B 432 0 SHEET 2 AA2 6 PHE B 495 PRO B 506 -1 O PHE B 495 N TRP B 432 SHEET 3 AA2 6 HIS B 466 MET B 473 -1 N VAL B 470 O ILE B 500 SHEET 4 AA2 6 VAL B 455 VAL B 461 -1 N LEU B 457 O ALA B 471 SHEET 5 AA2 6 ARG B 411 SER B 417 1 N PHE B 413 O LEU B 458 SHEET 6 AA2 6 GLU B 531 VAL B 532 -1 O VAL B 532 N VAL B 412 LINK O3' 6MZ D 3 P C D 4 1555 1555 1.62 LINK O3' G E 2 P 6MZ E 3 1555 1555 1.61 LINK O3' 6MZ E 3 P C E 4 1555 1555 1.62 CRYST1 80.690 80.690 114.270 90.00 90.00 120.00 P 65 12 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 0.012393 0.007155 0.000000 0.00000 SCALE2 0.000000 0.014310 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008751 0.00000