HEADER RNA BINDING PROTEIN 15-OCT-24 9H36 TITLE CRYSTAL STRUCTURE OF THE YTHDC2 YTH DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3'-5' RNA HELICASE YTHDC2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: YTH DOMAIN-CONTAINING PROTEIN 2,HYTHDC2; COMPND 5 EC: 3.6.4.13; COMPND 6 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: YTHDC2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS YTHDC2, READER, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.K.BEDI,A.CAFLISCH REVDAT 1 30-OCT-24 9H36 0 JRNL AUTH R.K.BEDI,A.CAFLISCH JRNL TITL CRYSTAL STRUCTURE OF THE YTHDC2 YTH DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21.1_5286 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) : 2.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.75 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 13242 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.248 REMARK 3 R VALUE (WORKING SET) : 0.247 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.850 REMARK 3 FREE R VALUE TEST SET COUNT : 642 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 45.7500 - 4.4800 1.00 2681 132 0.2140 0.2153 REMARK 3 2 4.4800 - 3.5600 1.00 2513 137 0.2414 0.2435 REMARK 3 3 3.5600 - 3.1100 1.00 2489 132 0.3380 0.3609 REMARK 3 4 3.1100 - 2.8200 1.00 2474 115 0.3522 0.3670 REMARK 3 5 2.8200 - 2.6200 1.00 2443 126 0.4218 0.4246 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) : 0.432 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.386 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 105.5 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 107.6 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 : 0.013 2025 REMARK 3 ANGLE : 1.146 2754 REMARK 3 CHIRALITY : 0.061 297 REMARK 3 PLANARITY : 0.010 355 REMARK 3 DIHEDRAL : 18.011 678 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 9H36 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1292142508. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-24 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 : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13260 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.620 REMARK 200 RESOLUTION RANGE LOW (A) : 101.915 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 38.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.67 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 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM AMMONIUM SULFATE, 25 % PEG REMARK 280 3350, 100 MM TRIS PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 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 REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 69.25067 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 34.62533 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 0.00000 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 69.25067 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 34.62533 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 69.25067 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 34.62533 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 69.25067 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 34.62533 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: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLY A 1284 REMARK 465 GLN A 1358 REMARK 465 ASP A 1359 REMARK 465 TRP A 1360 REMARK 465 GLY A 1361 REMARK 465 SER A 1362 REMARK 465 LEU A 1423 REMARK 465 GLY A 1424 REMARK 465 GLY B 1284 REMARK 465 GLU B 1355 REMARK 465 LYS B 1356 REMARK 465 SER B 1357 REMARK 465 GLN B 1358 REMARK 465 ASP B 1359 REMARK 465 TRP B 1360 REMARK 465 GLY B 1361 REMARK 465 LEU B 1423 REMARK 465 GLY B 1424 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 ASN A1285 CG OD1 ND2 REMARK 470 MET A1286 CG SD CE REMARK 470 GLU A1302 CG CD OE1 OE2 REMARK 470 ARG A1322 CG CD NE CZ NH1 NH2 REMARK 470 SER A1328 OG REMARK 470 GLN A1337 CG CD OE1 NE2 REMARK 470 GLU A1355 CG CD OE1 OE2 REMARK 470 LYS A1356 CG CD CE NZ REMARK 470 SER A1357 OG REMARK 470 GLN A1382 CG CD OE1 NE2 REMARK 470 HIS A1385 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A1396 CG CD CE NZ REMARK 470 ARG A1401 CG CD NE CZ NH1 NH2 REMARK 470 LEU A1409 CG CD1 CD2 REMARK 470 GLN A1416 CG CD OE1 NE2 REMARK 470 ARG A1420 CG CD NE CZ NH1 NH2 REMARK 470 ASN B1285 CG OD1 ND2 REMARK 470 LYS B1294 CG CD CE NZ REMARK 470 LEU B1298 CG CD1 CD2 REMARK 470 GLU B1302 CG CD OE1 OE2 REMARK 470 GLN B1306 CG CD OE1 NE2 REMARK 470 SER B1315 OG REMARK 470 ARG B1318 CG CD NE CZ NH1 NH2 REMARK 470 LYS B1319 CG CD CE NZ REMARK 470 ARG B1322 CG CD NE CZ NH1 NH2 REMARK 470 GLU B1326 CG CD OE1 OE2 REMARK 470 SER B1328 OG REMARK 470 GLN B1337 CG CD OE1 NE2 REMARK 470 ARG B1354 CG CD NE CZ NH1 NH2 REMARK 470 SER B1362 OG REMARK 470 GLU B1372 CG CD OE1 OE2 REMARK 470 ARG B1375 CG CD NE CZ NH1 NH2 REMARK 470 LEU B1379 CG CD1 CD2 REMARK 470 GLN B1382 CG CD OE1 NE2 REMARK 470 LEU B1387 CG CD1 CD2 REMARK 470 LEU B1388 CG CD1 CD2 REMARK 470 ASN B1389 CG OD1 ND2 REMARK 470 ASP B1393 CG OD1 OD2 REMARK 470 LYS B1395 CG CD CE NZ REMARK 470 LYS B1396 CG CD CE NZ REMARK 470 GLN B1398 CG CD OE1 NE2 REMARK 470 ILE B1399 CG1 CG2 CD1 REMARK 470 ARG B1401 CG CD NE CZ NH1 NH2 REMARK 470 LEU B1406 CG CD1 CD2 REMARK 470 LEU B1409 CG CD1 CD2 REMARK 470 GLU B1412 CG CD OE1 OE2 REMARK 470 GLN B1413 CG CD OE1 NE2 REMARK 470 GLN B1416 CG CD OE1 NE2 REMARK 470 GLU B1419 CG CD OE1 OE2 REMARK 470 ARG B1420 CG CD NE CZ NH1 NH2 REMARK 470 LEU B1421 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A1354 CB ARG A1354 CG 0.204 REMARK 500 ARG A1354 CG ARG A1354 CD 0.159 REMARK 500 SER A1357 CA SER A1357 CB 0.093 REMARK 500 SER A1357 C SER A1357 O 0.185 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 MET A1286 111.18 -30.43 REMARK 500 GLN A1343 39.06 -92.61 REMARK 500 ARG A1354 55.68 -115.31 REMARK 500 LYS A1356 -2.65 -56.06 REMARK 500 ASN A1394 29.76 42.63 REMARK 500 GLN B1337 -90.88 25.70 REMARK 500 SER B1339 -86.10 31.64 REMARK 500 GLN B1343 30.58 -74.98 REMARK 500 ALA B1384 21.73 -140.17 REMARK 500 ASN B1394 38.63 11.40 REMARK 500 ILE B1399 96.46 -67.18 REMARK 500 ARG B1420 43.47 -75.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS A 1356 SER A 1357 -146.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B1502 DISTANCE = 7.62 ANGSTROMS DBREF 9H36 A 1285 1424 UNP Q9H6S0 YTDC2_HUMAN 1285 1424 DBREF 9H36 B 1285 1424 UNP Q9H6S0 YTDC2_HUMAN 1285 1424 SEQADV 9H36 GLY A 1284 UNP Q9H6S0 EXPRESSION TAG SEQADV 9H36 GLY B 1284 UNP Q9H6S0 EXPRESSION TAG SEQRES 1 A 141 GLY ASN MET PRO VAL ARG TYR PHE ILE MET LYS SER SER SEQRES 2 A 141 ASN LEU ARG ASN LEU GLU ILE SER GLN GLN LYS GLY ILE SEQRES 3 A 141 TRP SER THR THR PRO SER ASN GLU ARG LYS LEU ASN ARG SEQRES 4 A 141 ALA PHE TRP GLU SER SER ILE VAL TYR LEU VAL PHE SER SEQRES 5 A 141 VAL GLN GLY SER GLY HIS PHE GLN GLY PHE SER ARG MET SEQRES 6 A 141 SER SER GLU ILE GLY ARG GLU LYS SER GLN ASP TRP GLY SEQRES 7 A 141 SER ALA GLY LEU GLY GLY VAL PHE LYS VAL GLU TRP ILE SEQRES 8 A 141 ARG LYS GLU SER LEU PRO PHE GLN PHE ALA HIS HIS LEU SEQRES 9 A 141 LEU ASN PRO TRP ASN ASP ASN LYS LYS VAL GLN ILE SER SEQRES 10 A 141 ARG ASP GLY GLN GLU LEU GLU PRO LEU VAL GLY GLU GLN SEQRES 11 A 141 LEU LEU GLN LEU TRP GLU ARG LEU PRO LEU GLY SEQRES 1 B 141 GLY ASN MET PRO VAL ARG TYR PHE ILE MET LYS SER SER SEQRES 2 B 141 ASN LEU ARG ASN LEU GLU ILE SER GLN GLN LYS GLY ILE SEQRES 3 B 141 TRP SER THR THR PRO SER ASN GLU ARG LYS LEU ASN ARG SEQRES 4 B 141 ALA PHE TRP GLU SER SER ILE VAL TYR LEU VAL PHE SER SEQRES 5 B 141 VAL GLN GLY SER GLY HIS PHE GLN GLY PHE SER ARG MET SEQRES 6 B 141 SER SER GLU ILE GLY ARG GLU LYS SER GLN ASP TRP GLY SEQRES 7 B 141 SER ALA GLY LEU GLY GLY VAL PHE LYS VAL GLU TRP ILE SEQRES 8 B 141 ARG LYS GLU SER LEU PRO PHE GLN PHE ALA HIS HIS LEU SEQRES 9 B 141 LEU ASN PRO TRP ASN ASP ASN LYS LYS VAL GLN ILE SER SEQRES 10 B 141 ARG ASP GLY GLN GLU LEU GLU PRO LEU VAL GLY GLU GLN SEQRES 11 B 141 LEU LEU GLN LEU TRP GLU ARG LEU PRO LEU GLY FORMUL 3 HOH *5(H2 O) HELIX 1 AA1 ASN A 1297 GLY A 1308 1 12 HELIX 2 AA2 THR A 1313 SER A 1327 1 15 HELIX 3 AA3 GLN A 1382 HIS A 1385 5 4 HELIX 4 AA4 ASN A 1389 ASP A 1393 5 5 HELIX 5 AA5 GLU A 1407 LEU A 1417 1 11 HELIX 6 AA6 TRP A 1418 LEU A 1421 5 4 HELIX 7 AA7 ASN B 1297 GLY B 1308 1 12 HELIX 8 AA8 THR B 1313 SER B 1327 1 15 HELIX 9 AA9 GLN B 1382 HIS B 1385 5 4 HELIX 10 AB1 PRO B 1390 ASP B 1393 5 4 HELIX 11 AB2 GLU B 1407 LEU B 1417 1 11 HELIX 12 AB3 TRP B 1418 LEU B 1421 5 4 SHEET 1 AA1 6 ILE A1309 SER A1311 0 SHEET 2 AA1 6 VAL A1368 ARG A1375 -1 O PHE A1369 N TRP A1310 SHEET 3 AA1 6 PHE A1345 MET A1348 -1 N ARG A1347 O GLU A1372 SHEET 4 AA1 6 ILE A1329 VAL A1336 -1 N LEU A1332 O SER A1346 SHEET 5 AA1 6 VAL A1288 SER A1295 1 N MET A1293 O VAL A1333 SHEET 6 AA1 6 GLN A1404 LEU A1406 -1 O GLN A1404 N ILE A1292 SHEET 1 AA2 2 HIS A1341 PHE A1342 0 SHEET 2 AA2 2 LEU A1379 PRO A1380 -1 O LEU A1379 N PHE A1342 SHEET 1 AA3 6 ILE B1309 TRP B1310 0 SHEET 2 AA3 6 PHE B1369 ARG B1375 -1 O PHE B1369 N TRP B1310 SHEET 3 AA3 6 PHE B1345 MET B1348 -1 N PHE B1345 O ILE B1374 SHEET 4 AA3 6 ILE B1329 VAL B1336 -1 N VAL B1330 O MET B1348 SHEET 5 AA3 6 VAL B1288 SER B1295 1 N MET B1293 O VAL B1333 SHEET 6 AA3 6 GLN B1404 LEU B1406 -1 O GLN B1404 N ILE B1292 SHEET 1 AA4 2 HIS B1341 PHE B1342 0 SHEET 2 AA4 2 LEU B1379 PRO B1380 -1 O LEU B1379 N PHE B1342 SHEET 1 AA5 2 LEU B1388 ASN B1389 0 SHEET 2 AA5 2 LYS B1395 LYS B1396 -1 O LYS B1395 N ASN B1389 CRYST1 117.681 117.681 103.876 90.00 90.00 120.00 P 62 2 2 24 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 0.008498 0.004906 0.000000 0.00000 SCALE2 0.000000 0.009812 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009627 0.00000