HEADER OXIDOREDUCTASE 25-MAR-11 2YDY TITLE CRYSTAL STRUCTURE OF HUMAN S-ADENOSYLMETHIONINE SYNTHETASE 2, BETA TITLE 2 SUBUNIT IN ORTHORHOMBIC CRYSTAL FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHIONINE ADENOSYLTRANSFERASE 2 SUBUNIT BETA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 17-323; COMPND 5 SYNONYM: DTDP-4-KETO-6-DEOXY-D-GLUCOSE 4-REDUCTASE, METHIONINE COMPND 6 ADENOSYLTRANSFERASE II BETA, MAT II BETA S-ADENOSYLMETHIONINE COMPND 7 SYNTHETASE 2\,BETA SUBUNIT, MAT2B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PNIC-CTHF KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.W.YUE,N.SHAFQAT,J.R.C.MUNIZ,A.C.W.PIKE,A.CHAIKUAD,C.K.ALLERSTON, AUTHOR 2 O.GILEADI,F.VON DELFT,K.L.KAVANAGH,C.H.ARROWSMITH,A.M.EDWARDS, AUTHOR 3 J.WEIGELT,C.BOUNTRA,U.OPPERMANN REVDAT 4 09-OCT-24 2YDY 1 REMARK LINK REVDAT 3 24-JAN-18 2YDY 1 JRNL REVDAT 2 24-JUL-13 2YDY 1 JRNL REMARK VERSN REVDAT 1 20-APR-11 2YDY 0 JRNL AUTH N.SHAFQAT,J.R.C.MUNIZ,E.S.PILKA,E.PAPAGRIGORIOU,F.VON DELFT, JRNL AUTH 2 U.OPPERMANN,W.W.YUE JRNL TITL INSIGHT INTO S-ADENOSYLMETHIONINE BIOSYNTHESIS FROM THE JRNL TITL 2 CRYSTAL STRUCTURES OF THE HUMAN METHIONINE JRNL TITL 3 ADENOSYLTRANSFERASE CATALYTIC AND REGULATORY SUBUNITS. JRNL REF BIOCHEM.J. V. 452 27 2013 JRNL REFN ISSN 0264-6021 JRNL PMID 23425511 JRNL DOI 10.1042/BJ20121580 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.8.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 12589 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 641 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.46 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2915 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.1867 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2754 REMARK 3 BIN R VALUE (WORKING SET) : 0.1846 REMARK 3 BIN FREE R VALUE : 0.2214 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.52 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 161 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2010 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 80 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.56770 REMARK 3 B22 (A**2) : 3.17420 REMARK 3 B33 (A**2) : -10.74190 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.250 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2076 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 2823 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 946 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 51 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 304 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2076 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 272 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 2416 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 0.97 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.79 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.78 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 28 - 48) REMARK 3 ORIGIN FOR THE GROUP (A): -17.7109 -19.8354 4.8810 REMARK 3 T TENSOR REMARK 3 T11: -0.0608 T22: -0.1319 REMARK 3 T33: 0.0794 T12: -0.0092 REMARK 3 T13: -0.0362 T23: -0.0257 REMARK 3 L TENSOR REMARK 3 L11: 0.0005 L22: 3.1999 REMARK 3 L33: 0.8672 L12: 2.8468 REMARK 3 L13: 2.1433 L23: -0.6620 REMARK 3 S TENSOR REMARK 3 S11: 0.0097 S12: 0.0222 S13: -0.1904 REMARK 3 S21: -0.1058 S22: 0.1451 S23: 0.1232 REMARK 3 S31: 0.2067 S32: -0.1814 S33: -0.1547 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 49 - 92) REMARK 3 ORIGIN FOR THE GROUP (A): -14.8985 -26.9276 4.6460 REMARK 3 T TENSOR REMARK 3 T11: -0.0123 T22: -0.1605 REMARK 3 T33: 0.0317 T12: 0.0204 REMARK 3 T13: -0.0375 T23: -0.0765 REMARK 3 L TENSOR REMARK 3 L11: 3.5364 L22: 4.6618 REMARK 3 L33: 1.0606 L12: 0.4361 REMARK 3 L13: 1.2198 L23: 2.7280 REMARK 3 S TENSOR REMARK 3 S11: 0.0265 S12: 0.1153 S13: -0.3759 REMARK 3 S21: 0.0020 S22: -0.0257 S23: 0.0279 REMARK 3 S31: 0.2424 S32: -0.1655 S33: -0.0008 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 93 - 128) REMARK 3 ORIGIN FOR THE GROUP (A): -9.6104 -27.6211 16.7440 REMARK 3 T TENSOR REMARK 3 T11: 0.2954 T22: -0.2005 REMARK 3 T33: 0.1498 T12: 0.0537 REMARK 3 T13: -0.0657 T23: 0.0640 REMARK 3 L TENSOR REMARK 3 L11: 1.6035 L22: 2.1419 REMARK 3 L33: 3.7167 L12: 2.8857 REMARK 3 L13: 0.9991 L23: -2.0764 REMARK 3 S TENSOR REMARK 3 S11: 0.0346 S12: 0.0689 S13: -0.1161 REMARK 3 S21: 0.0517 S22: -0.0012 S23: 0.0152 REMARK 3 S31: 0.0555 S32: 0.0277 S33: -0.0333 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 129 - 170) REMARK 3 ORIGIN FOR THE GROUP (A): -5.5082 -10.2073 21.0202 REMARK 3 T TENSOR REMARK 3 T11: -0.0573 T22: -0.0490 REMARK 3 T33: -0.0107 T12: 0.0055 REMARK 3 T13: -0.0094 T23: 0.0173 REMARK 3 L TENSOR REMARK 3 L11: 2.6067 L22: 2.0805 REMARK 3 L33: 1.0800 L12: -0.5842 REMARK 3 L13: -0.2637 L23: -0.0591 REMARK 3 S TENSOR REMARK 3 S11: 0.0352 S12: -0.3205 S13: -0.2248 REMARK 3 S21: 0.3070 S22: 0.0489 S23: -0.1017 REMARK 3 S31: 0.2557 S32: 0.2572 S33: -0.0841 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 171 - 211) REMARK 3 ORIGIN FOR THE GROUP (A): -21.0781 -5.6405 14.9853 REMARK 3 T TENSOR REMARK 3 T11: -0.0750 T22: -0.0970 REMARK 3 T33: 0.0620 T12: -0.0336 REMARK 3 T13: 0.0291 T23: -0.0192 REMARK 3 L TENSOR REMARK 3 L11: 5.4287 L22: 1.4676 REMARK 3 L33: 1.3664 L12: -2.3465 REMARK 3 L13: 0.6826 L23: -0.2280 REMARK 3 S TENSOR REMARK 3 S11: 0.0901 S12: -0.2115 S13: -0.0527 REMARK 3 S21: 0.1385 S22: 0.0293 S23: -0.0463 REMARK 3 S31: 0.0466 S32: -0.0610 S33: -0.1194 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESIDUE 288 - 292) REMARK 3 ORIGIN FOR THE GROUP (A): -14.6068 -0.6811 12.8514 REMARK 3 T TENSOR REMARK 3 T11: -0.0367 T22: -0.0747 REMARK 3 T33: -0.0108 T12: 0.0070 REMARK 3 T13: 0.0074 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 0.5407 L22: 0.6708 REMARK 3 L33: 0.8932 L12: 0.4782 REMARK 3 L13: 0.2163 L23: 0.0083 REMARK 3 S TENSOR REMARK 3 S11: -0.0111 S12: -0.0328 S13: -0.0231 REMARK 3 S21: 0.0474 S22: 0.0801 S23: 0.0298 REMARK 3 S31: -0.0937 S32: 0.1156 S33: -0.0690 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESIDUE 288 - 292) REMARK 3 ORIGIN FOR THE GROUP (A): -10.6996 1.2732 26.0404 REMARK 3 T TENSOR REMARK 3 T11: -0.0050 T22: -0.0293 REMARK 3 T33: 0.0275 T12: -0.0269 REMARK 3 T13: -0.0148 T23: -0.0579 REMARK 3 L TENSOR REMARK 3 L11: 0.0264 L22: 0.1014 REMARK 3 L33: 0.5257 L12: -0.5856 REMARK 3 L13: 0.4563 L23: -0.0633 REMARK 3 S TENSOR REMARK 3 S11: -0.0011 S12: -0.1139 S13: -0.0368 REMARK 3 S21: 0.0314 S22: 0.0083 S23: 0.0078 REMARK 3 S31: -0.0104 S32: 0.0050 S33: -0.0072 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESIDUE 293 - 324) REMARK 3 ORIGIN FOR THE GROUP (A): -15.4651 -1.6366 5.8918 REMARK 3 T TENSOR REMARK 3 T11: -0.0387 T22: 0.0236 REMARK 3 T33: 0.0088 T12: -0.0019 REMARK 3 T13: 0.0043 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 0.0454 L22: 0.9873 REMARK 3 L33: 0.6245 L12: -0.2720 REMARK 3 L13: 0.4203 L23: 0.2982 REMARK 3 S TENSOR REMARK 3 S11: -0.0204 S12: 0.1535 S13: 0.1016 REMARK 3 S21: -0.1671 S22: 0.0727 S23: -0.0994 REMARK 3 S31: -0.1711 S32: 0.0412 S33: -0.0523 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: IDEAL-DIST CONTACT TERM CONTACT SETUP. REMARK 3 RESIDUE TYPES WITHOUT CCP4 ATOM TYPE IN LIBRARY=SO4 CL. NUMBER REMARK 3 OF ATOMS WITH PROPER CCP4 ATOM TYPE=2099. NUMBER WITH APPROX REMARK 3 DEFAULT CCP4 ATOM TYPE=15. NUMBER TREATED BY BAD NON-BONDED REMARK 3 CONTACTS=1. REMARK 4 REMARK 4 2YDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-MAR-11. REMARK 100 THE DEPOSITION ID IS D_1290047825. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-10 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 : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15419 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.170 REMARK 200 RESOLUTION RANGE LOW (A) : 61.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.400 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.17 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.91000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.56000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.56000 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 1.000000 0.000000 0.000000 20.49000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.88500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 20.49000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.88500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 61.56000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 20.49000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.88500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 61.56000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 20.49000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.88500 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CL CL A1328 LIES ON A SPECIAL POSITION. 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 MSE A 27 REMARK 465 PHE A 60 REMARK 465 ARG A 61 REMARK 465 ARG A 62 REMARK 465 ALA A 63 REMARK 465 ARG A 64 REMARK 465 PRO A 65 REMARK 465 LYS A 66 REMARK 465 PHE A 67 REMARK 465 GLU A 68 REMARK 465 GLN A 69 REMARK 465 VAL A 70 REMARK 465 ASN A 71 REMARK 465 LEU A 72 REMARK 465 LEU A 73 REMARK 465 ASP A 74 REMARK 465 SER A 75 REMARK 465 ASN A 76 REMARK 465 ALA A 77 REMARK 465 ALA A 95 REMARK 465 GLU A 96 REMARK 465 ARG A 97 REMARK 465 ARG A 98 REMARK 465 PRO A 99 REMARK 465 ASP A 100 REMARK 465 VAL A 101 REMARK 465 VAL A 102 REMARK 465 GLU A 103 REMARK 465 ASN A 104 REMARK 465 GLN A 105 REMARK 465 PRO A 106 REMARK 465 ASP A 107 REMARK 465 ALA A 108 REMARK 465 ALA A 109 REMARK 465 SER A 110 REMARK 465 GLN A 111 REMARK 465 LEU A 112 REMARK 465 ASN A 113 REMARK 465 ASP A 325 REMARK 465 LYS A 326 REMARK 465 ARG A 327 REMARK 465 TRP A 328 REMARK 465 ARG A 329 REMARK 465 GLN A 330 REMARK 465 THR A 331 REMARK 465 VAL A 332 REMARK 465 PHE A 333 REMARK 465 HIS A 334 REMARK 465 ALA A 335 REMARK 465 GLU A 336 REMARK 465 ASN A 337 REMARK 465 LEU A 338 REMARK 465 TYR A 339 REMARK 465 PHE A 340 REMARK 465 GLN A 341 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 VAL A 78 CG1 CG2 REMARK 470 HIS A 79 CG ND1 CD2 CE1 NE2 REMARK 470 HIS A 80 CG ND1 CD2 CE1 NE2 REMARK 470 VAL A 114 CG1 CG2 REMARK 470 ASP A 115 CG OD1 OD2 REMARK 470 LYS A 161 CD CE NZ REMARK 470 LYS A 168 CE NZ REMARK 470 LYS A 209 CG CD CE NZ 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 135 -169.47 -122.80 REMARK 500 TYR A 138 3.63 -69.94 REMARK 500 PRO A 183 -153.06 -93.81 REMARK 500 ALA A 293 36.86 -90.87 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 SO4 A 1325 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1326 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1327 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YDX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN S-ADENOSYLMETHIONINE SYNTHETASE 2, BETA REMARK 900 SUBUNIT DBREF 2YDY A 28 334 UNP Q9NZL9 MAT2B_HUMAN 17 323 SEQADV 2YDY MSE A 27 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY ALA A 335 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY GLU A 336 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY ASN A 337 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY LEU A 338 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY TYR A 339 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY PHE A 340 UNP Q9NZL9 EXPRESSION TAG SEQADV 2YDY GLN A 341 UNP Q9NZL9 EXPRESSION TAG SEQRES 1 A 315 MSE ASN ARG ARG VAL LEU VAL THR GLY ALA THR GLY LEU SEQRES 2 A 315 LEU GLY ARG ALA VAL HIS LYS GLU PHE GLN GLN ASN ASN SEQRES 3 A 315 TRP HIS ALA VAL GLY CYS GLY PHE ARG ARG ALA ARG PRO SEQRES 4 A 315 LYS PHE GLU GLN VAL ASN LEU LEU ASP SER ASN ALA VAL SEQRES 5 A 315 HIS HIS ILE ILE HIS ASP PHE GLN PRO HIS VAL ILE VAL SEQRES 6 A 315 HIS CYS ALA ALA GLU ARG ARG PRO ASP VAL VAL GLU ASN SEQRES 7 A 315 GLN PRO ASP ALA ALA SER GLN LEU ASN VAL ASP ALA SER SEQRES 8 A 315 GLY ASN LEU ALA LYS GLU ALA ALA ALA VAL GLY ALA PHE SEQRES 9 A 315 LEU ILE TYR ILE SER SER ASP TYR VAL PHE ASP GLY THR SEQRES 10 A 315 ASN PRO PRO TYR ARG GLU GLU ASP ILE PRO ALA PRO LEU SEQRES 11 A 315 ASN LEU TYR GLY LYS THR LYS LEU ASP GLY GLU LYS ALA SEQRES 12 A 315 VAL LEU GLU ASN ASN LEU GLY ALA ALA VAL LEU ARG ILE SEQRES 13 A 315 PRO ILE LEU TYR GLY GLU VAL GLU LYS LEU GLU GLU SER SEQRES 14 A 315 ALA VAL THR VAL MSE PHE ASP LYS VAL GLN PHE SER ASN SEQRES 15 A 315 LYS SER ALA ASN MSE ASP HIS TRP GLN GLN ARG PHE PRO SEQRES 16 A 315 THR HIS VAL LYS ASP VAL ALA THR VAL CYS ARG GLN LEU SEQRES 17 A 315 ALA GLU LYS ARG MSE LEU ASP PRO SER ILE LYS GLY THR SEQRES 18 A 315 PHE HIS TRP SER GLY ASN GLU GLN MSE THR LYS TYR GLU SEQRES 19 A 315 MSE ALA CYS ALA ILE ALA ASP ALA PHE ASN LEU PRO SER SEQRES 20 A 315 SER HIS LEU ARG PRO ILE THR ASP SER PRO VAL LEU GLY SEQRES 21 A 315 ALA GLN ARG PRO ARG ASN ALA GLN LEU ASP CYS SER LYS SEQRES 22 A 315 LEU GLU THR LEU GLY ILE GLY GLN ARG THR PRO PHE ARG SEQRES 23 A 315 ILE GLY ILE LYS GLU SER LEU TRP PRO PHE LEU ILE ASP SEQRES 24 A 315 LYS ARG TRP ARG GLN THR VAL PHE HIS ALA GLU ASN LEU SEQRES 25 A 315 TYR PHE GLN MODRES 2YDY MSE A 200 MET SELENOMETHIONINE MODRES 2YDY MSE A 213 MET SELENOMETHIONINE MODRES 2YDY MSE A 239 MET SELENOMETHIONINE MODRES 2YDY MSE A 256 MET SELENOMETHIONINE MODRES 2YDY MSE A 261 MET SELENOMETHIONINE HET MSE A 200 8 HET MSE A 213 8 HET MSE A 239 8 HET MSE A 256 8 HET MSE A 261 8 HET SO4 A1325 5 HET SO4 A1326 5 HET SO4 A1327 5 HET CL A1328 1 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 SO4 3(O4 S 2-) FORMUL 5 CL CL 1- FORMUL 6 HOH *80(H2 O) HELIX 1 1 GLY A 38 GLN A 50 1 13 HELIX 2 2 VAL A 78 GLN A 86 1 9 HELIX 3 3 VAL A 114 VAL A 127 1 14 HELIX 4 4 TYR A 138 PHE A 140 5 3 HELIX 5 5 ASN A 157 ASN A 174 1 18 HELIX 6 6 LYS A 191 SER A 195 5 5 HELIX 7 7 VAL A 197 VAL A 199 5 3 HELIX 8 8 MSE A 200 PHE A 206 1 7 HELIX 9 9 VAL A 224 LEU A 240 1 17 HELIX 10 10 THR A 257 PHE A 269 1 13 HELIX 11 11 CYS A 297 LEU A 303 1 7 HELIX 12 12 PRO A 310 TRP A 320 1 11 HELIX 13 13 PRO A 321 LEU A 323 5 3 SHEET 1 AA 6 HIS A 54 CYS A 58 0 SHEET 2 AA 6 ARG A 30 THR A 34 1 O VAL A 31 N VAL A 56 SHEET 3 AA 6 VAL A 89 HIS A 92 1 O VAL A 89 N LEU A 32 SHEET 4 AA 6 PHE A 130 SER A 136 1 O PHE A 130 N ILE A 90 SHEET 5 AA 6 ALA A 178 ILE A 182 1 O ALA A 178 N TYR A 133 SHEET 6 AA 6 GLY A 246 HIS A 249 1 O GLY A 246 N VAL A 179 SHEET 1 AB 2 LEU A 185 TYR A 186 0 SHEET 2 AB 2 THR A 222 HIS A 223 1 O THR A 222 N TYR A 186 SHEET 1 AC 2 ALA A 211 ASP A 214 0 SHEET 2 AC 2 LEU A 276 ILE A 279 1 O ARG A 277 N MSE A 213 LINK C VAL A 199 N MSE A 200 1555 1555 1.34 LINK C MSE A 200 N PHE A 201 1555 1555 1.36 LINK C ASN A 212 N MSE A 213 1555 1555 1.34 LINK C MSE A 213 N ASP A 214 1555 1555 1.36 LINK C ARG A 238 N MSE A 239 1555 1555 1.35 LINK C MSE A 239 N LEU A 240 1555 1555 1.35 LINK C GLN A 255 N MSE A 256 1555 1555 1.34 LINK C MSE A 256 N THR A 257 1555 1555 1.33 LINK C GLU A 260 N MSE A 261 1555 1555 1.34 LINK C MSE A 261 N ALA A 262 1555 1555 1.36 CISPEP 1 PRO A 145 PRO A 146 0 -2.32 SITE 1 AC1 3 GLN A 255 ARG A 291 ASN A 292 SITE 1 AC2 2 ARG A 232 GLN A 233 SITE 1 AC3 4 TYR A 138 ALA A 196 ARG A 219 LYS A 258 CRYST1 40.980 111.770 123.120 90.00 90.00 90.00 C 2 2 21 8 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 0.024402 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008947 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008122 0.00000