HEADER TRANSFERASE 30-SEP-22 8H0N TITLE CRYSTAL STRUCTURE OF THE HUMAN METTL1-WDR4 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA (GUANINE-N(7)-)-METHYLTRANSFERASE NON-CATALYTIC COMPND 3 SUBUNIT WDR4; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: PROTEIN WUHO HOMOLOG,HWH,WD REPEAT-CONTAINING PROTEIN 4; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TRNA (GUANINE-N(7)-)-METHYLTRANSFERASE; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: METHYLTRANSFERASE-LIKE PROTEIN 1,MRNA (GUANINE-N(7)-)- COMPND 11 METHYLTRANSFERASE,MIRNA (GUANINE-N(7)-)-METHYLTRANSFERASE,TRNA COMPND 12 (GUANINE(46)-N(7))-METHYLTRANSFERASE,TRNA(M7G46)-METHYLTRANSFERASE; COMPND 13 EC: 2.1.1.33,2.1.1.-; COMPND 14 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: WDR4; 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: METTL1, C12ORF1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR X.H.JIN,Z.Y.GUAN,Z.GONG,D.L.ZHANG REVDAT 3 08-NOV-23 8H0N 1 REMARK REVDAT 2 12-JUL-23 8H0N 1 JRNL REVDAT 1 05-JUL-23 8H0N 0 JRNL AUTH X.JIN,Z.GUAN,N.HU,C.HE,P.YIN,Z.GONG,D.ZHANG JRNL TITL STRUCTURAL INSIGHT INTO HOW WDR4 PROMOTES THE TRNA JRNL TITL 2 N7-METHYLGUANOSINE METHYLTRANSFERASE ACTIVITY OF METTL1. JRNL REF CELL DISCOV V. 9 65 2023 JRNL REFN ESSN 2056-5968 JRNL PMID 37369656 JRNL DOI 10.1038/S41421-023-00562-Y REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.68 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 66185 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 3203 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 38.6800 - 5.1100 0.99 2951 130 0.2236 0.2469 REMARK 3 2 5.1100 - 4.0600 1.00 2805 150 0.1723 0.2052 REMARK 3 3 4.0600 - 3.5500 1.00 2781 150 0.1756 0.2137 REMARK 3 4 3.5500 - 3.2200 1.00 2741 161 0.1865 0.2131 REMARK 3 5 3.2200 - 2.9900 1.00 2798 126 0.2013 0.2413 REMARK 3 6 2.9900 - 2.8100 1.00 2737 133 0.1950 0.2209 REMARK 3 7 2.8100 - 2.6700 1.00 2753 154 0.2018 0.2315 REMARK 3 8 2.6700 - 2.5600 1.00 2754 122 0.1939 0.2363 REMARK 3 9 2.5600 - 2.4600 1.00 2728 131 0.1961 0.2395 REMARK 3 10 2.4600 - 2.3700 1.00 2742 142 0.1897 0.2227 REMARK 3 11 2.3700 - 2.3000 1.00 2718 146 0.1876 0.2358 REMARK 3 12 2.3000 - 2.2300 1.00 2709 138 0.1877 0.1827 REMARK 3 13 2.2300 - 2.1800 1.00 2688 163 0.1928 0.2218 REMARK 3 14 2.1800 - 2.1200 1.00 2715 161 0.1947 0.2562 REMARK 3 15 2.1200 - 2.0700 1.00 2745 125 0.1856 0.2430 REMARK 3 16 2.0700 - 2.0300 1.00 2717 123 0.1857 0.2260 REMARK 3 17 2.0300 - 1.9900 1.00 2721 115 0.1888 0.2375 REMARK 3 18 1.9900 - 1.9500 1.00 2751 125 0.1980 0.2183 REMARK 3 19 1.9500 - 1.9200 1.00 2700 122 0.2091 0.2237 REMARK 3 20 1.9200 - 1.8800 1.00 2701 147 0.2187 0.2688 REMARK 3 21 1.8800 - 1.8500 1.00 2712 145 0.2063 0.2613 REMARK 3 22 1.8500 - 1.8300 1.00 2687 158 0.2139 0.2521 REMARK 3 23 1.8300 - 1.8000 0.98 2628 136 0.2100 0.2346 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) : 0.188 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.840 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.67 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.13 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 : 0.006 4356 REMARK 3 ANGLE : 0.849 5909 REMARK 3 CHIRALITY : 0.059 654 REMARK 3 PLANARITY : 0.007 758 REMARK 3 DIHEDRAL : 13.898 1567 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): -23.4212 -2.1997 19.0714 REMARK 3 T TENSOR REMARK 3 T11: 0.1562 T22: 0.1645 REMARK 3 T33: 0.1392 T12: -0.0008 REMARK 3 T13: 0.0104 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 0.1808 L22: 0.8091 REMARK 3 L33: 0.0357 L12: -0.2385 REMARK 3 L13: 0.0557 L23: -0.0763 REMARK 3 S TENSOR REMARK 3 S11: 0.0345 S12: 0.0047 S13: 0.0032 REMARK 3 S21: -0.0258 S22: -0.0413 S23: -0.1159 REMARK 3 S31: -0.0216 S32: -0.0147 S33: 0.0002 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 8H0N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 06-OCT-22. REMARK 100 THE DEPOSITION ID IS D_1300032572. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-19 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 : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66185 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.02884 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.11050 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.570 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: 5IL2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BIS-TRIS, LITHIUM SULPHATE, PEG3350., REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.51500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.95750 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.51500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 47.95750 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL 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 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 281 REMARK 465 ALA A 282 REMARK 465 LYS A 325 REMARK 465 LYS A 326 REMARK 465 SER A 327 REMARK 465 GLN A 328 REMARK 465 GLU A 329 REMARK 465 ASN A 330 REMARK 465 LYS A 331 REMARK 465 GLY A 332 REMARK 465 GLU A 333 REMARK 465 ASP A 334 REMARK 465 ALA A 335 REMARK 465 PRO A 336 REMARK 465 LEU A 337 REMARK 465 ASP A 338 REMARK 465 GLU A 514 REMARK 465 LEU A 515 REMARK 465 VAL A 516 REMARK 465 ASP A 517 REMARK 465 PRO A 518 REMARK 465 GLN A 519 REMARK 465 ALA A 520 REMARK 465 PRO A 521 REMARK 465 GLN A 522 REMARK 465 LYS A 523 REMARK 465 SER A 630 REMARK 465 ALA A 631 REMARK 465 GLY A 632 REMARK 465 ALA A 633 REMARK 465 ASP A 634 REMARK 465 ALA A 635 REMARK 465 SER A 636 REMARK 465 PHE A 637 REMARK 465 SER A 638 REMARK 465 SER A 639 REMARK 465 LEU A 640 REMARK 465 TYR A 641 REMARK 465 LYS A 642 REMARK 465 ALA A 643 REMARK 465 THR A 644 REMARK 465 PHE A 645 REMARK 465 ASP A 646 REMARK 465 ASN A 647 REMARK 465 MET B 0 REMARK 465 ALA B 1 REMARK 465 ASP B 2 REMARK 465 HIS B 3 REMARK 465 THR B 4 REMARK 465 LEU B 5 REMARK 465 ARG B 6 REMARK 465 THR B 29 REMARK 465 GLN B 30 REMARK 465 ASN B 31 REMARK 465 GLN B 32 REMARK 465 SER B 33 REMARK 465 HIS B 34 REMARK 465 ASP B 35 REMARK 465 ASP B 36 REMARK 465 PRO B 37 REMARK 465 LYS B 38 REMARK 465 ASP B 39 REMARK 465 LYS B 40 REMARK 465 LYS B 41 REMARK 465 GLU B 42 REMARK 465 LYS B 43 REMARK 465 ARG B 44 REMARK 465 ALA B 45 REMARK 465 GLN B 46 REMARK 465 HIS B 243 REMARK 465 HIS B 244 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 GLN A 292 CG CD OE1 NE2 REMARK 470 VAL A 595 CG1 CG2 REMARK 470 TYR B 7 CD1 CD2 CE1 CE2 CZ OH REMARK 470 VAL B 9 CB CG1 CG2 REMARK 470 GLU B 13 CD OE1 OE2 REMARK 470 GLU B 18 CG CD OE1 OE2 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 A 733 O HOH A 888 1.59 REMARK 500 O HOH A 826 O HOH A 879 1.87 REMARK 500 O HOH A 818 O HOH A 887 1.91 REMARK 500 O ALA A 567 O HOH A 701 1.99 REMARK 500 O HOH B 473 O HOH B 562 2.01 REMARK 500 OG SER A 487 O HOH A 702 2.02 REMARK 500 NZ LYS B 214 O HOH B 301 2.02 REMARK 500 O HOH A 851 O HOH A 859 2.03 REMARK 500 O HOH A 885 O HOH A 918 2.03 REMARK 500 O HOH A 815 O HOH A 884 2.09 REMARK 500 OG1 THR B 207 O HOH B 302 2.12 REMARK 500 O HOH B 466 O HOH B 477 2.13 REMARK 500 O HOH A 774 O HOH A 837 2.14 REMARK 500 O ALA A 592 O HOH A 703 2.15 REMARK 500 OD1 ASP A 361 O HOH A 704 2.17 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 B 463 O HOH B 526 2555 1.93 REMARK 500 O HOH A 763 O HOH B 516 3445 1.96 REMARK 500 O HOH A 855 O HOH B 507 3445 2.04 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 309 -136.45 60.88 REMARK 500 ALA A 322 60.84 -69.64 REMARK 500 SER A 426 143.34 -172.17 REMARK 500 ALA A 456 76.66 -160.24 REMARK 500 GLU A 609 -168.35 -173.74 REMARK 500 SER A 610 146.55 -176.06 REMARK 500 ASP B 134 107.92 -38.78 REMARK 500 HIS B 136 39.87 -97.24 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 B 580 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH B 581 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH B 582 DISTANCE = 7.10 ANGSTROMS DBREF 8H0N A 281 647 UNP P57081 WDR4_HUMAN 1 367 DBREF 8H0N B 0 236 UNP Q9UBP6 TRMB_HUMAN 30 265 SEQADV 8H0N SER B 107 UNP Q9UBP6 CYS 136 CONFLICT SEQADV 8H0N SER B 179 UNP Q9UBP6 CYS 208 CONFLICT SEQADV 8H0N LEU B 237 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N GLU B 238 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N HIS B 239 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N HIS B 240 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N HIS B 241 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N HIS B 242 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N HIS B 243 UNP Q9UBP6 EXPRESSION TAG SEQADV 8H0N HIS B 244 UNP Q9UBP6 EXPRESSION TAG SEQRES 1 A 367 MET ALA GLY SER VAL GLY LEU ALA LEU CYS GLY GLN THR SEQRES 2 A 367 LEU VAL VAL ARG GLY GLY SER ARG PHE LEU ALA THR SER SEQRES 3 A 367 ILE ALA SER SER ASP ASP ASP SER LEU PHE ILE TYR ASP SEQRES 4 A 367 CYS SER ALA ALA GLU LYS LYS SER GLN GLU ASN LYS GLY SEQRES 5 A 367 GLU ASP ALA PRO LEU ASP GLN GLY SER GLY ALA ILE LEU SEQRES 6 A 367 ALA SER THR PHE SER LYS SER GLY SER TYR PHE ALA LEU SEQRES 7 A 367 THR ASP ASP SER LYS ARG LEU ILE LEU PHE ARG THR LYS SEQRES 8 A 367 PRO TRP GLN CYS LEU SER VAL ARG THR VAL ALA ARG ARG SEQRES 9 A 367 CYS THR ALA LEU THR PHE ILE ALA SER GLU GLU LYS VAL SEQRES 10 A 367 LEU VAL ALA ASP LYS SER GLY ASP VAL TYR SER PHE SER SEQRES 11 A 367 VAL LEU GLU PRO HIS GLY CYS GLY ARG LEU GLU LEU GLY SEQRES 12 A 367 HIS LEU SER MET LEU LEU ASP VAL ALA VAL SER PRO ASP SEQRES 13 A 367 ASP ARG PHE ILE LEU THR ALA ASP ARG ASP GLU LYS ILE SEQRES 14 A 367 ARG VAL SER TRP ALA ALA ALA PRO HIS SER ILE GLU SER SEQRES 15 A 367 PHE CYS LEU GLY HIS THR GLU PHE VAL SER ARG ILE SER SEQRES 16 A 367 VAL VAL PRO THR GLN PRO GLY LEU LEU LEU SER SER SER SEQRES 17 A 367 GLY ASP GLY THR LEU ARG LEU TRP GLU TYR ARG SER GLY SEQRES 18 A 367 ARG GLN LEU HIS CYS CYS HIS LEU ALA SER LEU GLN GLU SEQRES 19 A 367 LEU VAL ASP PRO GLN ALA PRO GLN LYS PHE ALA ALA SER SEQRES 20 A 367 ARG ILE ALA PHE TRP CYS GLN GLU ASN CYS VAL ALA LEU SEQRES 21 A 367 LEU CYS ASP GLY THR PRO VAL VAL TYR ILE PHE GLN LEU SEQRES 22 A 367 ASP ALA ARG ARG GLN GLN LEU VAL TYR ARG GLN GLN LEU SEQRES 23 A 367 ALA PHE GLN HIS GLN VAL TRP ASP VAL ALA PHE GLU GLU SEQRES 24 A 367 THR GLN GLY LEU TRP VAL LEU GLN ASP CYS GLN GLU ALA SEQRES 25 A 367 PRO LEU VAL LEU TYR ARG PRO VAL GLY ASP GLN TRP GLN SEQRES 26 A 367 SER VAL PRO GLU SER THR VAL LEU LYS LYS VAL SER GLY SEQRES 27 A 367 VAL LEU ARG GLY ASN TRP ALA MET LEU GLU GLY SER ALA SEQRES 28 A 367 GLY ALA ASP ALA SER PHE SER SER LEU TYR LYS ALA THR SEQRES 29 A 367 PHE ASP ASN SEQRES 1 B 244 MET ALA ASP HIS THR LEU ARG TYR PRO VAL LYS PRO GLU SEQRES 2 B 244 GLU MET ASP TRP SER GLU LEU TYR PRO GLU PHE PHE ALA SEQRES 3 B 244 PRO LEU THR GLN ASN GLN SER HIS ASP ASP PRO LYS ASP SEQRES 4 B 244 LYS LYS GLU LYS ARG ALA GLN ALA GLN VAL GLU PHE ALA SEQRES 5 B 244 ASP ILE GLY CYS GLY TYR GLY GLY LEU LEU VAL GLU LEU SEQRES 6 B 244 SER PRO LEU PHE PRO ASP THR LEU ILE LEU GLY LEU GLU SEQRES 7 B 244 ILE ARG VAL LYS VAL SER ASP TYR VAL GLN ASP ARG ILE SEQRES 8 B 244 ARG ALA LEU ARG ALA ALA PRO ALA GLY GLY PHE GLN ASN SEQRES 9 B 244 ILE ALA SER LEU ARG SER ASN ALA MET LYS HIS LEU PRO SEQRES 10 B 244 ASN PHE PHE TYR LYS GLY GLN LEU THR LYS MET PHE PHE SEQRES 11 B 244 LEU PHE PRO ASP PRO HIS PHE LYS ARG THR LYS HIS LYS SEQRES 12 B 244 TRP ARG ILE ILE SER PRO THR LEU LEU ALA GLU TYR ALA SEQRES 13 B 244 TYR VAL LEU ARG VAL GLY GLY LEU VAL TYR THR ILE THR SEQRES 14 B 244 ASP VAL LEU GLU LEU HIS ASP TRP MET SER THR HIS PHE SEQRES 15 B 244 GLU GLU HIS PRO LEU PHE GLU ARG VAL PRO LEU GLU ASP SEQRES 16 B 244 LEU SER GLU ASP PRO VAL VAL GLY HIS LEU GLY THR SER SEQRES 17 B 244 THR GLU GLU GLY LYS LYS VAL LEU ARG ASN GLY GLY LYS SEQRES 18 B 244 ASN PHE PRO ALA ILE PHE ARG ARG ILE GLN ASP PRO VAL SEQRES 19 B 244 LEU GLN LEU GLU HIS HIS HIS HIS HIS HIS FORMUL 3 HOH *500(H2 O) HELIX 1 AA1 ALA A 510 GLN A 513 5 4 HELIX 2 AA2 SER A 610 ASN A 623 1 14 HELIX 3 AA3 TRP A 624 LEU A 627 5 4 HELIX 4 AA4 LYS B 10 MET B 14 5 5 HELIX 5 AA5 ASP B 15 LEU B 19 5 5 HELIX 6 AA6 GLY B 59 SER B 66 1 8 HELIX 7 AA7 ASP B 85 ALA B 97 1 13 HELIX 8 AA8 HIS B 115 PHE B 120 1 6 HELIX 9 AA9 HIS B 136 THR B 140 5 5 HELIX 10 AB1 LYS B 141 ARG B 145 5 5 HELIX 11 AB2 SER B 148 VAL B 158 1 11 HELIX 12 AB3 VAL B 171 HIS B 185 1 15 HELIX 13 AB4 PRO B 192 SER B 197 5 6 HELIX 14 AB5 VAL B 201 LEU B 205 5 5 HELIX 15 AB6 THR B 209 GLY B 219 1 11 HELIX 16 AB7 ASP B 232 HIS B 242 1 11 SHEET 1 AA1 4 VAL A 285 CYS A 290 0 SHEET 2 AA1 4 THR A 293 GLY A 298 -1 O VAL A 295 N ALA A 288 SHEET 3 AA1 4 ARG A 301 SER A 306 -1 O THR A 305 N LEU A 294 SHEET 4 AA1 4 LEU A 315 ASP A 319 -1 O PHE A 316 N ALA A 304 SHEET 1 AA2 4 ILE A 344 PHE A 349 0 SHEET 2 AA2 4 TYR A 355 ASP A 360 -1 O ALA A 357 N THR A 348 SHEET 3 AA2 4 ARG A 364 ARG A 369 -1 O ILE A 366 N LEU A 358 SHEET 4 AA2 4 GLN A 374 THR A 380 -1 O LEU A 376 N LEU A 367 SHEET 1 AA3 4 CYS A 385 PHE A 390 0 SHEET 2 AA3 4 LYS A 396 ASP A 401 -1 O LEU A 398 N THR A 389 SHEET 3 AA3 4 ASP A 405 SER A 410 -1 O ASP A 405 N ASP A 401 SHEET 4 AA3 4 ARG A 419 GLY A 423 -1 O GLU A 421 N VAL A 406 SHEET 1 AA4 4 LEU A 428 VAL A 433 0 SHEET 2 AA4 4 PHE A 439 ASP A 444 -1 O LEU A 441 N ALA A 432 SHEET 3 AA4 4 ILE A 449 TRP A 453 -1 O SER A 452 N ILE A 440 SHEET 4 AA4 4 ALA A 456 CYS A 464 -1 O SER A 462 N VAL A 451 SHEET 1 AA5 4 VAL A 471 VAL A 476 0 SHEET 2 AA5 4 LEU A 483 SER A 488 -1 O LEU A 485 N SER A 475 SHEET 3 AA5 4 THR A 492 GLU A 497 -1 O ARG A 494 N SER A 486 SHEET 4 AA5 4 ARG A 502 HIS A 508 -1 O LEU A 504 N LEU A 495 SHEET 1 AA6 4 ALA A 526 TRP A 532 0 SHEET 2 AA6 4 CYS A 537 CYS A 542 -1 O ALA A 539 N ALA A 530 SHEET 3 AA6 4 VAL A 547 ASP A 554 -1 O PHE A 551 N VAL A 538 SHEET 4 AA6 4 GLN A 559 ALA A 567 -1 O GLN A 564 N ILE A 550 SHEET 1 AA7 4 VAL A 572 GLU A 578 0 SHEET 2 AA7 4 GLY A 582 GLN A 587 -1 O TRP A 584 N ALA A 576 SHEET 3 AA7 4 LEU A 594 VAL A 600 -1 O TYR A 597 N LEU A 583 SHEET 4 AA7 4 GLN A 603 SER A 606 -1 O GLN A 605 N ARG A 598 SHEET 1 AA8 7 ILE B 105 ASN B 111 0 SHEET 2 AA8 7 LEU B 73 GLU B 78 1 N GLY B 76 O LEU B 108 SHEET 3 AA8 7 VAL B 49 ILE B 54 1 N ASP B 53 O LEU B 77 SHEET 4 AA8 7 LEU B 125 LEU B 131 1 O THR B 126 N GLU B 50 SHEET 5 AA8 7 LEU B 159 THR B 169 1 O TYR B 166 N PHE B 130 SHEET 6 AA8 7 PHE B 223 ARG B 229 -1 O ARG B 229 N GLY B 162 SHEET 7 AA8 7 PHE B 188 VAL B 191 -1 N VAL B 191 O ILE B 226 CISPEP 1 LYS A 371 PRO A 372 0 -1.09 CRYST1 84.465 87.030 95.915 90.00 90.00 90.00 P 2 21 21 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 0.011839 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011490 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010426 0.00000