HEADER TRANSFERASE 15-APR-20 6WKB TITLE HUMAN S-ADENOSYLMETHIONINE SYNTHETASE CO-CRYSTALLIZED WITH UPPNHP AND TITLE 2 MET COMPND MOL_ID: 1; COMPND 2 MOLECULE: S-ADENOSYLMETHIONINE SYNTHASE ISOFORM TYPE-2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ADOMET SYNTHASE 2,METHIONINE ADENOSYLTRANSFERASE 2,MAT 2, COMPND 5 METHIONINE ADENOSYLTRANSFERASE II,MAT-II; COMPND 6 EC: 2.5.1.6; 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: MAT2A, AMS2, MATA2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS S-ADENOSYLMETHIONINE SYNTHETASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.L.TAN,C.J.JACKSON REVDAT 2 18-OCT-23 6WKB 1 REMARK REVDAT 1 21-APR-21 6WKB 0 JRNL AUTH P.LAURINO,C.J.JACKSON,L.L.TAN JRNL TITL S-ADENOSYLMETHIONINE SYNTHETASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.17.1_3660: ???) 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) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 38107 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 1967 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 47.2000 - 6.1400 1.00 2859 126 0.2033 0.2365 REMARK 3 2 6.1400 - 4.8800 1.00 2644 172 0.1920 0.2054 REMARK 3 3 4.8800 - 4.2600 1.00 2617 142 0.1657 0.1997 REMARK 3 4 4.2600 - 3.8700 1.00 2601 147 0.1893 0.2536 REMARK 3 5 3.8700 - 3.5900 1.00 2589 127 0.2141 0.2465 REMARK 3 6 3.5900 - 3.3800 1.00 2567 150 0.2390 0.3116 REMARK 3 7 3.3800 - 3.2100 1.00 2557 132 0.2596 0.3665 REMARK 3 8 3.2100 - 3.0700 0.99 2560 126 0.2663 0.3152 REMARK 3 9 3.0700 - 2.9500 1.00 2548 138 0.2992 0.4372 REMARK 3 10 2.9500 - 2.8500 1.00 2525 150 0.3183 0.4182 REMARK 3 11 2.8500 - 2.7600 1.00 2532 144 0.3262 0.3920 REMARK 3 12 2.7600 - 2.6800 1.00 2550 119 0.3491 0.3572 REMARK 3 13 2.6800 - 2.6100 0.99 2520 136 0.3807 0.4166 REMARK 3 14 2.6100 - 2.5500 0.99 2471 158 0.4113 0.4310 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.820 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 75.41 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 : 0.001 6240 REMARK 3 ANGLE : 0.475 8447 REMARK 3 CHIRALITY : 0.043 941 REMARK 3 PLANARITY : 0.003 1094 REMARK 3 DIHEDRAL : 15.785 2297 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 15 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2597 -39.3159 32.2277 REMARK 3 T TENSOR REMARK 3 T11: 0.7551 T22: 0.6191 REMARK 3 T33: 0.5289 T12: 0.0677 REMARK 3 T13: 0.0814 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 2.9562 L22: 1.9908 REMARK 3 L33: 2.7139 L12: 1.4900 REMARK 3 L13: 0.1240 L23: -1.1116 REMARK 3 S TENSOR REMARK 3 S11: -0.1310 S12: -0.3291 S13: 0.1787 REMARK 3 S21: -0.0023 S22: -0.1170 S23: 0.2352 REMARK 3 S31: -0.3646 S32: 0.1050 S33: 0.0831 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 79 THROUGH 170 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.9341 -37.9607 29.5279 REMARK 3 T TENSOR REMARK 3 T11: 0.9561 T22: 0.5811 REMARK 3 T33: 0.7393 T12: -0.0068 REMARK 3 T13: 0.0213 T23: -0.0154 REMARK 3 L TENSOR REMARK 3 L11: 4.3264 L22: 1.6273 REMARK 3 L33: 2.7402 L12: 1.2330 REMARK 3 L13: -1.2190 L23: -0.9692 REMARK 3 S TENSOR REMARK 3 S11: -0.1207 S12: -0.5567 S13: 0.6214 REMARK 3 S21: 0.0037 S22: -0.0657 S23: -0.1053 REMARK 3 S31: -0.6889 S32: 0.2693 S33: 0.1449 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 171 THROUGH 253 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.0008 -52.2320 9.7375 REMARK 3 T TENSOR REMARK 3 T11: 1.2028 T22: 1.1278 REMARK 3 T33: 0.6919 T12: -0.2931 REMARK 3 T13: 0.2379 T23: -0.0954 REMARK 3 L TENSOR REMARK 3 L11: 5.3837 L22: 1.7540 REMARK 3 L33: 4.3577 L12: -0.9449 REMARK 3 L13: -0.8533 L23: 0.7841 REMARK 3 S TENSOR REMARK 3 S11: -0.8240 S12: 1.0263 S13: -0.8273 REMARK 3 S21: 0.0274 S22: 0.0639 S23: 0.2840 REMARK 3 S31: 1.0015 S32: -0.8337 S33: 0.7810 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 254 THROUGH 395 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.9989 -34.6091 24.5938 REMARK 3 T TENSOR REMARK 3 T11: 1.0581 T22: 0.8100 REMARK 3 T33: 0.7709 T12: -0.2119 REMARK 3 T13: 0.1012 T23: 0.0137 REMARK 3 L TENSOR REMARK 3 L11: 3.4662 L22: 2.6128 REMARK 3 L33: 3.3272 L12: -0.8619 REMARK 3 L13: -0.6859 L23: 0.2159 REMARK 3 S TENSOR REMARK 3 S11: -0.1009 S12: 0.1562 S13: 0.6330 REMARK 3 S21: 0.0122 S22: 0.1900 S23: -0.5287 REMARK 3 S31: -0.7136 S32: 0.7061 S33: -0.1110 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 16 THROUGH 104 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2243 -56.8826 45.4525 REMARK 3 T TENSOR REMARK 3 T11: 0.5922 T22: 0.8594 REMARK 3 T33: 0.6304 T12: -0.2057 REMARK 3 T13: 0.1176 T23: 0.1403 REMARK 3 L TENSOR REMARK 3 L11: 1.3801 L22: 0.9513 REMARK 3 L33: 1.4654 L12: -0.6743 REMARK 3 L13: 0.5938 L23: 0.3793 REMARK 3 S TENSOR REMARK 3 S11: 0.0640 S12: -0.0488 S13: -0.0339 REMARK 3 S21: 0.0865 S22: 0.0008 S23: -0.0436 REMARK 3 S31: -0.1203 S32: -0.1202 S33: -0.0212 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 105 THROUGH 138 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.0581 -65.9733 26.0571 REMARK 3 T TENSOR REMARK 3 T11: 0.9450 T22: 1.4864 REMARK 3 T33: 0.7701 T12: -0.0034 REMARK 3 T13: -0.0665 T23: -0.1134 REMARK 3 L TENSOR REMARK 3 L11: 3.3994 L22: 3.5653 REMARK 3 L33: 8.8895 L12: -3.4836 REMARK 3 L13: -5.0688 L23: 4.8569 REMARK 3 S TENSOR REMARK 3 S11: 0.2392 S12: 1.3441 S13: -0.6296 REMARK 3 S21: -0.2547 S22: -1.1758 S23: 1.7081 REMARK 3 S31: 0.0039 S32: -2.8903 S33: 0.7483 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 139 THROUGH 395 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.6805 -55.6171 34.6832 REMARK 3 T TENSOR REMARK 3 T11: 0.6077 T22: 0.9393 REMARK 3 T33: 0.7429 T12: -0.2861 REMARK 3 T13: 0.1155 T23: 0.0863 REMARK 3 L TENSOR REMARK 3 L11: 1.6880 L22: 2.0617 REMARK 3 L33: 3.0156 L12: -0.0645 REMARK 3 L13: -0.4534 L23: -0.0247 REMARK 3 S TENSOR REMARK 3 S11: -0.0963 S12: 0.3549 S13: 0.1182 REMARK 3 S21: -0.2795 S22: 0.2317 S23: -0.1530 REMARK 3 S31: -0.2071 S32: 0.5310 S33: -0.1996 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 6WKB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-APR-20. REMARK 100 THE DEPOSITION ID IS D_1000246458. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 - 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38275 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 47.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 39.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 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 : 0.900 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: 5A1I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 3350, 0.1 M BIS-TRIS PH 6.5, REMARK 280 10% ETHYLENE GLYCOL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 292.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 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 REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 -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 0.00000 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 0.00000 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 94.09800 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 94.09800 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 94.09800 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 0.00000 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 0.00000 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 94.09800 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 94.09800 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 94.09800 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: 5800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 1 REMARK 465 ASN A 2 REMARK 465 GLY A 3 REMARK 465 GLN A 4 REMARK 465 LEU A 5 REMARK 465 ASN A 6 REMARK 465 GLY A 7 REMARK 465 PHE A 8 REMARK 465 HIS A 9 REMARK 465 GLU A 10 REMARK 465 ALA A 11 REMARK 465 PHE A 12 REMARK 465 ILE A 13 REMARK 465 GLU A 14 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 GLY B 3 REMARK 465 GLN B 4 REMARK 465 LEU B 5 REMARK 465 ASN B 6 REMARK 465 GLY B 7 REMARK 465 PHE B 8 REMARK 465 HIS B 9 REMARK 465 GLU B 10 REMARK 465 ALA B 11 REMARK 465 PHE B 12 REMARK 465 ILE B 13 REMARK 465 GLU B 14 REMARK 465 GLU B 15 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 51 35.80 -88.42 REMARK 500 ALA A 55 56.95 -140.07 REMARK 500 THR A 62 104.13 -51.33 REMARK 500 GLU A 111 -156.55 -125.21 REMARK 500 VAL A 121 -59.42 -132.01 REMARK 500 ASP A 124 -6.09 71.52 REMARK 500 ILE A 198 -63.45 -95.61 REMARK 500 VAL A 226 -46.49 -132.89 REMARK 500 VAL A 230 -45.10 -132.45 REMARK 500 ASP A 237 -144.42 -122.25 REMARK 500 THR A 270 -96.56 -116.99 REMARK 500 TYR A 335 13.39 56.27 REMARK 500 PRO A 357 7.80 -69.21 REMARK 500 SER A 384 -7.41 118.70 REMARK 500 ASP B 51 36.18 -91.31 REMARK 500 GLU B 111 -158.63 -114.45 REMARK 500 VAL B 121 -70.79 -123.40 REMARK 500 HIS B 122 -144.87 -104.97 REMARK 500 HIS B 122 -22.14 -148.97 REMARK 500 LEU B 123 99.85 61.70 REMARK 500 ASP B 124 44.44 70.09 REMARK 500 ASN B 126 42.06 -105.90 REMARK 500 GLU B 127 -83.13 49.68 REMARK 500 ASP B 129 78.31 -105.85 REMARK 500 ALA B 132 145.55 -171.22 REMARK 500 GLN B 135 -156.78 -106.15 REMARK 500 LEU B 137 -129.08 35.08 REMARK 500 MET B 138 108.92 62.10 REMARK 500 ASP B 191 75.95 -152.38 REMARK 500 PHE B 250 53.90 -158.66 REMARK 500 THR B 270 -99.29 -114.02 REMARK 500 ILE B 322 -72.07 -67.05 REMARK 500 TYR B 335 8.95 58.56 REMARK 500 ASP B 383 -70.12 -56.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue U4P A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MET B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide MED A 402 and U4P B REMARK 800 503 DBREF 6WKB A 1 395 UNP P31153 METK2_HUMAN 1 395 DBREF 6WKB B 1 395 UNP P31153 METK2_HUMAN 1 395 SEQRES 1 A 395 MET ASN GLY GLN LEU ASN GLY PHE HIS GLU ALA PHE ILE SEQRES 2 A 395 GLU GLU GLY THR PHE LEU PHE THR SER GLU SER VAL GLY SEQRES 3 A 395 GLU GLY HIS PRO ASP LYS ILE CYS ASP GLN ILE SER ASP SEQRES 4 A 395 ALA VAL LEU ASP ALA HIS LEU GLN GLN ASP PRO ASP ALA SEQRES 5 A 395 LYS VAL ALA CYS GLU THR VAL ALA LYS THR GLY MET ILE SEQRES 6 A 395 LEU LEU ALA GLY GLU ILE THR SER ARG ALA ALA VAL ASP SEQRES 7 A 395 TYR GLN LYS VAL VAL ARG GLU ALA VAL LYS HIS ILE GLY SEQRES 8 A 395 TYR ASP ASP SER SER LYS GLY PHE ASP TYR LYS THR CYS SEQRES 9 A 395 ASN VAL LEU VAL ALA LEU GLU GLN GLN SER PRO ASP ILE SEQRES 10 A 395 ALA GLN GLY VAL HIS LEU ASP ARG ASN GLU GLU ASP ILE SEQRES 11 A 395 GLY ALA GLY ASP GLN GLY LEU MET PHE GLY TYR ALA THR SEQRES 12 A 395 ASP GLU THR GLU GLU CYS MET PRO LEU THR ILE VAL LEU SEQRES 13 A 395 ALA HIS LYS LEU ASN ALA LYS LEU ALA GLU LEU ARG ARG SEQRES 14 A 395 ASN GLY THR LEU PRO TRP LEU ARG PRO ASP SER LYS THR SEQRES 15 A 395 GLN VAL THR VAL GLN TYR MET GLN ASP ARG GLY ALA VAL SEQRES 16 A 395 LEU PRO ILE ARG VAL HIS THR ILE VAL ILE SER VAL GLN SEQRES 17 A 395 HIS ASP GLU GLU VAL CYS LEU ASP GLU MET ARG ASP ALA SEQRES 18 A 395 LEU LYS GLU LYS VAL ILE LYS ALA VAL VAL PRO ALA LYS SEQRES 19 A 395 TYR LEU ASP GLU ASP THR ILE TYR HIS LEU GLN PRO SER SEQRES 20 A 395 GLY ARG PHE VAL ILE GLY GLY PRO GLN GLY ASP ALA GLY SEQRES 21 A 395 LEU THR GLY ARG LYS ILE ILE VAL ASP THR TYR GLY GLY SEQRES 22 A 395 TRP GLY ALA HIS GLY GLY GLY ALA PHE SER GLY LYS ASP SEQRES 23 A 395 TYR THR LYS VAL ASP ARG SER ALA ALA TYR ALA ALA ARG SEQRES 24 A 395 TRP VAL ALA LYS SER LEU VAL LYS GLY GLY LEU CYS ARG SEQRES 25 A 395 ARG VAL LEU VAL GLN VAL SER TYR ALA ILE GLY VAL SER SEQRES 26 A 395 HIS PRO LEU SER ILE SER ILE PHE HIS TYR GLY THR SER SEQRES 27 A 395 GLN LYS SER GLU ARG GLU LEU LEU GLU ILE VAL LYS LYS SEQRES 28 A 395 ASN PHE ASP LEU ARG PRO GLY VAL ILE VAL ARG ASP LEU SEQRES 29 A 395 ASP LEU LYS LYS PRO ILE TYR GLN ARG THR ALA ALA TYR SEQRES 30 A 395 GLY HIS PHE GLY ARG ASP SER PHE PRO TRP GLU VAL PRO SEQRES 31 A 395 LYS LYS LEU LYS TYR SEQRES 1 B 395 MET ASN GLY GLN LEU ASN GLY PHE HIS GLU ALA PHE ILE SEQRES 2 B 395 GLU GLU GLY THR PHE LEU PHE THR SER GLU SER VAL GLY SEQRES 3 B 395 GLU GLY HIS PRO ASP LYS ILE CYS ASP GLN ILE SER ASP SEQRES 4 B 395 ALA VAL LEU ASP ALA HIS LEU GLN GLN ASP PRO ASP ALA SEQRES 5 B 395 LYS VAL ALA CYS GLU THR VAL ALA LYS THR GLY MET ILE SEQRES 6 B 395 LEU LEU ALA GLY GLU ILE THR SER ARG ALA ALA VAL ASP SEQRES 7 B 395 TYR GLN LYS VAL VAL ARG GLU ALA VAL LYS HIS ILE GLY SEQRES 8 B 395 TYR ASP ASP SER SER LYS GLY PHE ASP TYR LYS THR CYS SEQRES 9 B 395 ASN VAL LEU VAL ALA LEU GLU GLN GLN SER PRO ASP ILE SEQRES 10 B 395 ALA GLN GLY VAL HIS LEU ASP ARG ASN GLU GLU ASP ILE SEQRES 11 B 395 GLY ALA GLY ASP GLN GLY LEU MET PHE GLY TYR ALA THR SEQRES 12 B 395 ASP GLU THR GLU GLU CYS MET PRO LEU THR ILE VAL LEU SEQRES 13 B 395 ALA HIS LYS LEU ASN ALA LYS LEU ALA GLU LEU ARG ARG SEQRES 14 B 395 ASN GLY THR LEU PRO TRP LEU ARG PRO ASP SER LYS THR SEQRES 15 B 395 GLN VAL THR VAL GLN TYR MET GLN ASP ARG GLY ALA VAL SEQRES 16 B 395 LEU PRO ILE ARG VAL HIS THR ILE VAL ILE SER VAL GLN SEQRES 17 B 395 HIS ASP GLU GLU VAL CYS LEU ASP GLU MET ARG ASP ALA SEQRES 18 B 395 LEU LYS GLU LYS VAL ILE LYS ALA VAL VAL PRO ALA LYS SEQRES 19 B 395 TYR LEU ASP GLU ASP THR ILE TYR HIS LEU GLN PRO SER SEQRES 20 B 395 GLY ARG PHE VAL ILE GLY GLY PRO GLN GLY ASP ALA GLY SEQRES 21 B 395 LEU THR GLY ARG LYS ILE ILE VAL ASP THR TYR GLY GLY SEQRES 22 B 395 TRP GLY ALA HIS GLY GLY GLY ALA PHE SER GLY LYS ASP SEQRES 23 B 395 TYR THR LYS VAL ASP ARG SER ALA ALA TYR ALA ALA ARG SEQRES 24 B 395 TRP VAL ALA LYS SER LEU VAL LYS GLY GLY LEU CYS ARG SEQRES 25 B 395 ARG VAL LEU VAL GLN VAL SER TYR ALA ILE GLY VAL SER SEQRES 26 B 395 HIS PRO LEU SER ILE SER ILE PHE HIS TYR GLY THR SER SEQRES 27 B 395 GLN LYS SER GLU ARG GLU LEU LEU GLU ILE VAL LYS LYS SEQRES 28 B 395 ASN PHE ASP LEU ARG PRO GLY VAL ILE VAL ARG ASP LEU SEQRES 29 B 395 ASP LEU LYS LYS PRO ILE TYR GLN ARG THR ALA ALA TYR SEQRES 30 B 395 GLY HIS PHE GLY ARG ASP SER PHE PRO TRP GLU VAL PRO SEQRES 31 B 395 LYS LYS LEU LYS TYR HET U4P A 401 16 HET MED A 402 9 HET EDO B 501 4 HET MET B 502 9 HET U4P B 503 16 HETNAM U4P 5'-DEOXYURIDINE HETNAM MED D-METHIONINE HETNAM EDO 1,2-ETHANEDIOL HETNAM MET METHIONINE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 U4P 2(C9 H12 N2 O5) FORMUL 4 MED C5 H11 N O2 S FORMUL 5 EDO C2 H6 O2 FORMUL 6 MET C5 H11 N O2 S FORMUL 8 HOH *28(H2 O) HELIX 1 AA1 HIS A 29 GLN A 47 1 19 HELIX 2 AA2 ASP A 78 GLY A 91 1 14 HELIX 3 AA3 SER A 95 GLY A 98 5 4 HELIX 4 AA4 SER A 114 GLN A 119 1 6 HELIX 5 AA5 ASN A 126 ILE A 130 5 5 HELIX 6 AA6 PRO A 151 GLY A 171 1 21 HELIX 7 AA7 CYS A 214 LYS A 225 1 12 HELIX 8 AA8 GLY A 253 GLY A 257 5 5 HELIX 9 AA9 LYS A 265 THR A 270 1 6 HELIX 10 AB1 LYS A 289 GLY A 308 1 20 HELIX 11 AB2 SER A 341 LYS A 351 1 11 HELIX 12 AB3 GLY A 358 ASP A 365 1 8 HELIX 13 AB4 TYR A 371 ALA A 376 5 6 HELIX 14 AB5 PHE A 385 VAL A 389 5 5 HELIX 15 AB6 HIS B 29 ASP B 49 1 21 HELIX 16 AB7 ASP B 78 GLY B 91 1 14 HELIX 17 AB8 SER B 95 GLY B 98 5 4 HELIX 18 AB9 SER B 114 GLY B 120 1 7 HELIX 19 AC1 ASN B 126 ILE B 130 5 5 HELIX 20 AC2 PRO B 151 ASN B 170 1 20 HELIX 21 AC3 CYS B 214 LYS B 225 1 12 HELIX 22 AC4 VAL B 226 VAL B 231 1 6 HELIX 23 AC5 PRO B 232 LEU B 236 5 5 HELIX 24 AC6 GLY B 253 GLY B 257 5 5 HELIX 25 AC7 LYS B 265 THR B 270 1 6 HELIX 26 AC8 LYS B 289 GLY B 308 1 20 HELIX 27 AC9 ARG B 343 PHE B 353 1 11 HELIX 28 AD1 ARG B 356 LEU B 364 1 9 HELIX 29 AD2 ILE B 370 ALA B 375 1 6 HELIX 30 AD3 PHE B 385 VAL B 389 5 5 SHEET 1 AA1 4 THR A 17 VAL A 25 0 SHEET 2 AA1 4 LEU A 176 ASP A 191 -1 O TYR A 188 N PHE A 18 SHEET 3 AA1 4 ALA A 194 HIS A 209 -1 O THR A 202 N THR A 185 SHEET 4 AA1 4 ILE A 241 LEU A 244 1 O ILE A 241 N HIS A 201 SHEET 1 AA2 4 ASN A 105 GLU A 111 0 SHEET 2 AA2 4 MET A 64 THR A 72 1 N LEU A 67 O ALA A 109 SHEET 3 AA2 4 LYS A 53 LYS A 61 -1 N GLU A 57 O ALA A 68 SHEET 4 AA2 4 GLY A 260 LEU A 261 -1 O GLY A 260 N ALA A 60 SHEET 1 AA3 2 ASP A 93 ASP A 94 0 SHEET 2 AA3 2 PHE A 99 ASP A 100 -1 O PHE A 99 N ASP A 94 SHEET 1 AA4 3 GLY A 136 THR A 143 0 SHEET 2 AA4 3 ARG A 313 TYR A 320 -1 O VAL A 316 N GLY A 140 SHEET 3 AA4 3 SER A 329 PHE A 333 -1 O PHE A 333 N LEU A 315 SHEET 1 AA5 4 THR B 17 VAL B 25 0 SHEET 2 AA5 4 LEU B 176 ASP B 191 -1 O TYR B 188 N PHE B 18 SHEET 3 AA5 4 ALA B 194 HIS B 209 -1 O GLN B 208 N ASP B 179 SHEET 4 AA5 4 ILE B 241 LEU B 244 1 O HIS B 243 N ILE B 203 SHEET 1 AA6 4 ASN B 105 GLU B 111 0 SHEET 2 AA6 4 MET B 64 THR B 72 1 N LEU B 67 O ALA B 109 SHEET 3 AA6 4 LYS B 53 LYS B 61 -1 N GLU B 57 O ALA B 68 SHEET 4 AA6 4 GLY B 260 LEU B 261 -1 O GLY B 260 N ALA B 60 SHEET 1 AA7 2 ASP B 93 ASP B 94 0 SHEET 2 AA7 2 PHE B 99 ASP B 100 -1 O PHE B 99 N ASP B 94 SHEET 1 AA8 3 PHE B 139 THR B 143 0 SHEET 2 AA8 3 ARG B 313 SER B 319 -1 O VAL B 316 N GLY B 140 SHEET 3 AA8 3 SER B 329 PHE B 333 -1 O SER B 329 N SER B 319 LINK C5'BU4P A 401 SD BMET B 502 1555 1555 1.84 LINK SD MED A 402 C5' U4P B 503 1555 1555 1.84 SITE 1 AC1 8 HIS A 29 PRO A 30 ASP A 179 SER A 247 SITE 2 AC1 8 PHE A 250 ASP B 116 ILE B 117 MET B 502 SITE 1 AC2 1 GLN B 112 SITE 1 AC3 6 ASP A 258 U4P A 401 GLU B 70 GLN B 113 SITE 2 AC3 6 ILE B 117 ASP B 134 SITE 1 AC4 18 ALA A 55 GLU A 70 GLN A 113 ILE A 117 SITE 2 AC4 18 GLY A 133 ASP A 134 ASP A 144 LYS A 234 SITE 3 AC4 18 HIS B 29 PRO B 30 ASP B 179 LYS B 181 SITE 4 AC4 18 SER B 247 ARG B 249 PHE B 250 GLY B 257 SITE 5 AC4 18 ASP B 258 HOH B 605 CRYST1 144.191 144.191 188.196 90.00 90.00 120.00 P 63 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 0.006935 0.004004 0.000000 0.00000 SCALE2 0.000000 0.008008 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005314 0.00000