HEADER TRANSFERASE 11-OCT-99 1D2H TITLE CRYSTAL STRUCTURE OF R175K MUTANT GLYCINE N-METHYLTRANSFERASE TITLE 2 COMPLEXED WITH S-ADENOSYLHOMOCYSTEINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCINE N-METHYLTRANSFERASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: WHOLE ENZYME; COMPND 5 EC: 2.1.1.20; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 TISSUE: LIVER; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS METHYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.HUANG,J.KOMOTO,F.TAKUSAGAWA,K.KONISHI,Y.TAKATA REVDAT 7 07-FEB-24 1D2H 1 REMARK REVDAT 6 03-NOV-21 1D2H 1 REMARK SEQADV REVDAT 5 04-OCT-17 1D2H 1 REMARK REVDAT 4 24-FEB-09 1D2H 1 VERSN REVDAT 3 01-APR-03 1D2H 1 JRNL REVDAT 2 24-APR-00 1D2H 1 JRNL REVDAT 1 25-OCT-99 1D2H 0 JRNL AUTH Y.HUANG,J.KOMOTO,K.KONISHI,Y.TAKATA,H.OGAWA,T.GOMI, JRNL AUTH 2 M.FUJIOKA,F.TAKUSAGAWA JRNL TITL MECHANISMS FOR AUTO-INHIBITION AND FORCED PRODUCT RELEASE IN JRNL TITL 2 GLYCINE N-METHYLTRANSFERASE: CRYSTAL STRUCTURES OF JRNL TITL 3 WILD-TYPE, MUTANT R175K AND S-ADENOSYLHOMOCYSTEINE-BOUND JRNL TITL 4 R175K ENZYMES. JRNL REF J.MOL.BIOL. V. 298 149 2000 JRNL REFN ISSN 0022-2836 JRNL PMID 10756111 JRNL DOI 10.1006/JMBI.2000.3637 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.5 REMARK 3 NUMBER OF REFLECTIONS : 25574 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2557 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 7880 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 104 REMARK 3 SOLVENT ATOMS : 508 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.00 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1D2H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-OCT-99. REMARK 100 THE DEPOSITION ID IS D_1000009732. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-99 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25574 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.19000 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: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG-4000, PH 5.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 113.55000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 170.32500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 56.77500 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 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 VAL A 1 REMARK 465 ASP A 2 REMARK 465 SER A 3 REMARK 465 VAL A 4 REMARK 465 TYR A 5 REMARK 465 ARG A 6 REMARK 465 THR A 7 REMARK 465 ARG A 8 REMARK 465 SER A 9 REMARK 465 LEU A 10 REMARK 465 GLY A 11 REMARK 465 VAL A 12 REMARK 465 ALA A 13 REMARK 465 ALA A 14 REMARK 465 GLU A 15 REMARK 465 GLY A 16 REMARK 465 ILE A 17 REMARK 465 PRO A 18 REMARK 465 ASP A 19 REMARK 465 GLN A 20 REMARK 465 TYR A 21 REMARK 465 ALA A 22 REMARK 465 ASP A 23 REMARK 465 GLY A 24 REMARK 465 GLU A 25 REMARK 465 ALA A 26 REMARK 465 ALA A 27 REMARK 465 ARG A 28 REMARK 465 VAL A 29 REMARK 465 TRP A 30 REMARK 465 GLN A 31 REMARK 465 LEU A 32 REMARK 465 TYR A 33 REMARK 465 ILE A 34 REMARK 465 GLY A 35 REMARK 465 ASP A 36 REMARK 465 THR A 37 REMARK 465 ARG A 38 REMARK 465 SER A 39 REMARK 465 ARG A 40 REMARK 465 VAL B 1 REMARK 465 ASP B 2 REMARK 465 SER B 3 REMARK 465 VAL B 4 REMARK 465 TYR B 5 REMARK 465 ARG B 6 REMARK 465 THR B 7 REMARK 465 ARG B 8 REMARK 465 SER B 9 REMARK 465 LEU B 10 REMARK 465 GLY B 11 REMARK 465 VAL B 12 REMARK 465 ALA B 13 REMARK 465 ALA B 14 REMARK 465 GLU B 15 REMARK 465 GLY B 16 REMARK 465 ILE B 17 REMARK 465 PRO B 18 REMARK 465 ASP B 19 REMARK 465 GLN B 20 REMARK 465 TYR B 21 REMARK 465 ALA B 22 REMARK 465 ASP B 23 REMARK 465 GLY B 24 REMARK 465 GLU B 25 REMARK 465 ALA B 26 REMARK 465 ALA B 27 REMARK 465 ARG B 28 REMARK 465 VAL B 29 REMARK 465 TRP B 30 REMARK 465 GLN B 31 REMARK 465 LEU B 32 REMARK 465 TYR B 33 REMARK 465 ILE B 34 REMARK 465 GLY B 35 REMARK 465 ASP B 36 REMARK 465 THR B 37 REMARK 465 ARG B 38 REMARK 465 SER B 39 REMARK 465 ARG B 40 REMARK 465 VAL C 1 REMARK 465 ASP C 2 REMARK 465 SER C 3 REMARK 465 VAL C 4 REMARK 465 TYR C 5 REMARK 465 ARG C 6 REMARK 465 THR C 7 REMARK 465 ARG C 8 REMARK 465 SER C 9 REMARK 465 LEU C 10 REMARK 465 GLY C 11 REMARK 465 VAL C 12 REMARK 465 ALA C 13 REMARK 465 ALA C 14 REMARK 465 GLU C 15 REMARK 465 GLY C 16 REMARK 465 ILE C 17 REMARK 465 PRO C 18 REMARK 465 ASP C 19 REMARK 465 GLN C 20 REMARK 465 TYR C 21 REMARK 465 ALA C 22 REMARK 465 ASP C 23 REMARK 465 GLY C 24 REMARK 465 GLU C 25 REMARK 465 ALA C 26 REMARK 465 ALA C 27 REMARK 465 ARG C 28 REMARK 465 VAL C 29 REMARK 465 TRP C 30 REMARK 465 GLN C 31 REMARK 465 LEU C 32 REMARK 465 TYR C 33 REMARK 465 ILE C 34 REMARK 465 GLY C 35 REMARK 465 ASP C 36 REMARK 465 THR C 37 REMARK 465 ARG C 38 REMARK 465 SER C 39 REMARK 465 ARG C 40 REMARK 465 VAL D 1 REMARK 465 ASP D 2 REMARK 465 SER D 3 REMARK 465 VAL D 4 REMARK 465 TYR D 5 REMARK 465 ARG D 6 REMARK 465 THR D 7 REMARK 465 ARG D 8 REMARK 465 SER D 9 REMARK 465 LEU D 10 REMARK 465 GLY D 11 REMARK 465 VAL D 12 REMARK 465 ALA D 13 REMARK 465 ALA D 14 REMARK 465 GLU D 15 REMARK 465 GLY D 16 REMARK 465 ILE D 17 REMARK 465 PRO D 18 REMARK 465 ASP D 19 REMARK 465 GLN D 20 REMARK 465 TYR D 21 REMARK 465 ALA D 22 REMARK 465 ASP D 23 REMARK 465 GLY D 24 REMARK 465 GLU D 25 REMARK 465 ALA D 26 REMARK 465 ALA D 27 REMARK 465 ARG D 28 REMARK 465 VAL D 29 REMARK 465 TRP D 30 REMARK 465 GLN D 31 REMARK 465 LEU D 32 REMARK 465 TYR D 33 REMARK 465 ILE D 34 REMARK 465 GLY D 35 REMARK 465 ASP D 36 REMARK 465 THR D 37 REMARK 465 ARG D 38 REMARK 465 SER D 39 REMARK 465 ARG D 40 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 2368 O HOH D 4381 2.16 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 GLY A 268 N - CA - C ANGL. DEV. = -15.9 DEGREES REMARK 500 GLY B 268 N - CA - C ANGL. DEV. = -18.1 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 ALA A 42 -49.15 -28.97 REMARK 500 HIS A 58 -53.97 -132.31 REMARK 500 VAL A 63 23.27 -75.88 REMARK 500 ALA A 64 64.67 -167.24 REMARK 500 VAL A 69 -72.97 -23.67 REMARK 500 VAL A 75 -70.68 -44.47 REMARK 500 PRO A 105 -34.64 -38.34 REMARK 500 TRP A 110 140.77 -37.82 REMARK 500 ALA A 115 160.39 172.78 REMARK 500 LEU A 118 3.83 -69.88 REMARK 500 THR A 119 16.73 -164.98 REMARK 500 ASP A 121 -76.61 -34.55 REMARK 500 LYS A 147 3.57 -59.91 REMARK 500 ASP A 149 -179.93 -67.67 REMARK 500 ALA A 156 -71.10 -45.93 REMARK 500 PRO A 166 127.76 -37.90 REMARK 500 ASN A 176 84.18 -62.21 REMARK 500 ILE A 192 -22.25 -39.79 REMARK 500 TYR A 194 -169.67 -170.69 REMARK 500 SER A 196 -164.47 -73.57 REMARK 500 ASP A 197 47.16 -144.15 REMARK 500 ASN A 211 -7.59 84.29 REMARK 500 ALA A 213 101.52 -53.75 REMARK 500 PRO A 225 -18.38 -40.14 REMARK 500 ALA A 227 -7.62 -158.64 REMARK 500 ARG A 229 -76.39 -127.03 REMARK 500 ALA A 232 154.90 -36.55 REMARK 500 PRO A 244 86.33 -58.60 REMARK 500 ALA A 248 -78.27 -43.27 REMARK 500 ARG A 261 95.31 -61.84 REMARK 500 ASP A 269 -72.76 0.91 REMARK 500 PHE A 270 -0.61 -154.73 REMARK 500 PRO A 275 154.26 -39.05 REMARK 500 LEU B 48 -82.84 -41.96 REMARK 500 HIS B 58 -34.81 -130.78 REMARK 500 ALA B 64 39.49 -164.62 REMARK 500 CYS B 65 -29.16 -37.85 REMARK 500 GLU B 77 8.73 -61.54 REMARK 500 LYS B 96 -71.11 -58.55 REMARK 500 ARG B 101 29.32 -71.59 REMARK 500 LYS B 103 48.54 -88.28 REMARK 500 LYS B 109 57.57 -106.73 REMARK 500 ILE B 112 94.31 -162.09 REMARK 500 ALA B 115 162.71 179.40 REMARK 500 THR B 119 23.55 -158.25 REMARK 500 CYS B 135 55.65 -140.82 REMARK 500 ASN B 138 26.58 47.33 REMARK 500 GLN B 150 32.38 -70.29 REMARK 500 VAL B 171 73.47 -101.34 REMARK 500 PRO B 188 -168.45 -79.23 REMARK 500 REMARK 500 THIS ENTRY HAS 132 RAMACHANDRAN OUTLIERS. 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 SAH A 1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH B 2301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH C 3301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH D 4301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1D2C RELATED DB: PDB REMARK 900 1D2C CONTAINS THE WILD TYPE ENZYME. REMARK 900 RELATED ID: 1D2G RELATED DB: PDB REMARK 900 1D2G CONTAINS THE R175K MUTANT ENZYME. REMARK 900 RELATED ID: 1XVA RELATED DB: PDB REMARK 900 1XVA CONTAINS THE WILD TYPE ENZYME COMPLEXED WITH S- REMARK 900 ADENOSYLMETHIONINE. DBREF 1D2H A 1 292 UNP P13255 GNMT_RAT 2 293 DBREF 1D2H B 1 292 UNP P13255 GNMT_RAT 2 293 DBREF 1D2H C 1 292 UNP P13255 GNMT_RAT 2 293 DBREF 1D2H D 1 292 UNP P13255 GNMT_RAT 2 293 SEQADV 1D2H LYS A 89 UNP P13255 ARG 175 ENGINEERED MUTATION SEQADV 1D2H LYS B 89 UNP P13255 ARG 175 ENGINEERED MUTATION SEQADV 1D2H LYS C 89 UNP P13255 ARG 175 ENGINEERED MUTATION SEQADV 1D2H LYS D 89 UNP P13255 ARG 175 ENGINEERED MUTATION SEQRES 1 A 292 VAL ASP SER VAL TYR ARG THR ARG SER LEU GLY VAL ALA SEQRES 2 A 292 ALA GLU GLY ILE PRO ASP GLN TYR ALA ASP GLY GLU ALA SEQRES 3 A 292 ALA ARG VAL TRP GLN LEU TYR ILE GLY ASP THR ARG SER SEQRES 4 A 292 ARG THR ALA GLU TYR LYS ALA TRP LEU LEU GLY LEU LEU SEQRES 5 A 292 ARG GLN HIS GLY CYS HIS ARG VAL LEU ASP VAL ALA CYS SEQRES 6 A 292 GLY THR GLY VAL ASP SER ILE MET LEU VAL GLU GLU GLY SEQRES 7 A 292 PHE SER VAL THR SER VAL ASP ALA SER ASP LYS MET LEU SEQRES 8 A 292 LYS TYR ALA LEU LYS GLU ARG TRP ASN ARG ARG LYS GLU SEQRES 9 A 292 PRO ALA PHE ASP LYS TRP VAL ILE GLU GLU ALA ASN TRP SEQRES 10 A 292 LEU THR LEU ASP LYS ASP VAL PRO ALA GLY ASP GLY PHE SEQRES 11 A 292 ASP ALA VAL ILE CYS LEU GLY ASN SER PHE ALA HIS LEU SEQRES 12 A 292 PRO ASP SER LYS GLY ASP GLN SER GLU HIS ARG LEU ALA SEQRES 13 A 292 LEU LYS ASN ILE ALA SER MET VAL ARG PRO GLY GLY LEU SEQRES 14 A 292 LEU VAL ILE ASP HIS LYS ASN TYR ASP TYR ILE LEU SER SEQRES 15 A 292 THR GLY CYS ALA PRO PRO GLY LYS ASN ILE TYR TYR LYS SEQRES 16 A 292 SER ASP LEU THR LYS ASP ILE THR THR SER VAL LEU THR SEQRES 17 A 292 VAL ASN ASN LYS ALA HIS MET VAL THR LEU ASP TYR THR SEQRES 18 A 292 VAL GLN VAL PRO GLY ALA GLY ARG ASP GLY ALA PRO GLY SEQRES 19 A 292 PHE SER LYS PHE ARG LEU SER TYR TYR PRO HIS CYS LEU SEQRES 20 A 292 ALA SER PHE THR GLU LEU VAL GLN GLU ALA PHE GLY GLY SEQRES 21 A 292 ARG CYS GLN HIS SER VAL LEU GLY ASP PHE LYS PRO TYR SEQRES 22 A 292 ARG PRO GLY GLN ALA TYR VAL PRO CYS TYR PHE ILE HIS SEQRES 23 A 292 VAL LEU LYS LYS THR GLY SEQRES 1 B 292 VAL ASP SER VAL TYR ARG THR ARG SER LEU GLY VAL ALA SEQRES 2 B 292 ALA GLU GLY ILE PRO ASP GLN TYR ALA ASP GLY GLU ALA SEQRES 3 B 292 ALA ARG VAL TRP GLN LEU TYR ILE GLY ASP THR ARG SER SEQRES 4 B 292 ARG THR ALA GLU TYR LYS ALA TRP LEU LEU GLY LEU LEU SEQRES 5 B 292 ARG GLN HIS GLY CYS HIS ARG VAL LEU ASP VAL ALA CYS SEQRES 6 B 292 GLY THR GLY VAL ASP SER ILE MET LEU VAL GLU GLU GLY SEQRES 7 B 292 PHE SER VAL THR SER VAL ASP ALA SER ASP LYS MET LEU SEQRES 8 B 292 LYS TYR ALA LEU LYS GLU ARG TRP ASN ARG ARG LYS GLU SEQRES 9 B 292 PRO ALA PHE ASP LYS TRP VAL ILE GLU GLU ALA ASN TRP SEQRES 10 B 292 LEU THR LEU ASP LYS ASP VAL PRO ALA GLY ASP GLY PHE SEQRES 11 B 292 ASP ALA VAL ILE CYS LEU GLY ASN SER PHE ALA HIS LEU SEQRES 12 B 292 PRO ASP SER LYS GLY ASP GLN SER GLU HIS ARG LEU ALA SEQRES 13 B 292 LEU LYS ASN ILE ALA SER MET VAL ARG PRO GLY GLY LEU SEQRES 14 B 292 LEU VAL ILE ASP HIS LYS ASN TYR ASP TYR ILE LEU SER SEQRES 15 B 292 THR GLY CYS ALA PRO PRO GLY LYS ASN ILE TYR TYR LYS SEQRES 16 B 292 SER ASP LEU THR LYS ASP ILE THR THR SER VAL LEU THR SEQRES 17 B 292 VAL ASN ASN LYS ALA HIS MET VAL THR LEU ASP TYR THR SEQRES 18 B 292 VAL GLN VAL PRO GLY ALA GLY ARG ASP GLY ALA PRO GLY SEQRES 19 B 292 PHE SER LYS PHE ARG LEU SER TYR TYR PRO HIS CYS LEU SEQRES 20 B 292 ALA SER PHE THR GLU LEU VAL GLN GLU ALA PHE GLY GLY SEQRES 21 B 292 ARG CYS GLN HIS SER VAL LEU GLY ASP PHE LYS PRO TYR SEQRES 22 B 292 ARG PRO GLY GLN ALA TYR VAL PRO CYS TYR PHE ILE HIS SEQRES 23 B 292 VAL LEU LYS LYS THR GLY SEQRES 1 C 292 VAL ASP SER VAL TYR ARG THR ARG SER LEU GLY VAL ALA SEQRES 2 C 292 ALA GLU GLY ILE PRO ASP GLN TYR ALA ASP GLY GLU ALA SEQRES 3 C 292 ALA ARG VAL TRP GLN LEU TYR ILE GLY ASP THR ARG SER SEQRES 4 C 292 ARG THR ALA GLU TYR LYS ALA TRP LEU LEU GLY LEU LEU SEQRES 5 C 292 ARG GLN HIS GLY CYS HIS ARG VAL LEU ASP VAL ALA CYS SEQRES 6 C 292 GLY THR GLY VAL ASP SER ILE MET LEU VAL GLU GLU GLY SEQRES 7 C 292 PHE SER VAL THR SER VAL ASP ALA SER ASP LYS MET LEU SEQRES 8 C 292 LYS TYR ALA LEU LYS GLU ARG TRP ASN ARG ARG LYS GLU SEQRES 9 C 292 PRO ALA PHE ASP LYS TRP VAL ILE GLU GLU ALA ASN TRP SEQRES 10 C 292 LEU THR LEU ASP LYS ASP VAL PRO ALA GLY ASP GLY PHE SEQRES 11 C 292 ASP ALA VAL ILE CYS LEU GLY ASN SER PHE ALA HIS LEU SEQRES 12 C 292 PRO ASP SER LYS GLY ASP GLN SER GLU HIS ARG LEU ALA SEQRES 13 C 292 LEU LYS ASN ILE ALA SER MET VAL ARG PRO GLY GLY LEU SEQRES 14 C 292 LEU VAL ILE ASP HIS LYS ASN TYR ASP TYR ILE LEU SER SEQRES 15 C 292 THR GLY CYS ALA PRO PRO GLY LYS ASN ILE TYR TYR LYS SEQRES 16 C 292 SER ASP LEU THR LYS ASP ILE THR THR SER VAL LEU THR SEQRES 17 C 292 VAL ASN ASN LYS ALA HIS MET VAL THR LEU ASP TYR THR SEQRES 18 C 292 VAL GLN VAL PRO GLY ALA GLY ARG ASP GLY ALA PRO GLY SEQRES 19 C 292 PHE SER LYS PHE ARG LEU SER TYR TYR PRO HIS CYS LEU SEQRES 20 C 292 ALA SER PHE THR GLU LEU VAL GLN GLU ALA PHE GLY GLY SEQRES 21 C 292 ARG CYS GLN HIS SER VAL LEU GLY ASP PHE LYS PRO TYR SEQRES 22 C 292 ARG PRO GLY GLN ALA TYR VAL PRO CYS TYR PHE ILE HIS SEQRES 23 C 292 VAL LEU LYS LYS THR GLY SEQRES 1 D 292 VAL ASP SER VAL TYR ARG THR ARG SER LEU GLY VAL ALA SEQRES 2 D 292 ALA GLU GLY ILE PRO ASP GLN TYR ALA ASP GLY GLU ALA SEQRES 3 D 292 ALA ARG VAL TRP GLN LEU TYR ILE GLY ASP THR ARG SER SEQRES 4 D 292 ARG THR ALA GLU TYR LYS ALA TRP LEU LEU GLY LEU LEU SEQRES 5 D 292 ARG GLN HIS GLY CYS HIS ARG VAL LEU ASP VAL ALA CYS SEQRES 6 D 292 GLY THR GLY VAL ASP SER ILE MET LEU VAL GLU GLU GLY SEQRES 7 D 292 PHE SER VAL THR SER VAL ASP ALA SER ASP LYS MET LEU SEQRES 8 D 292 LYS TYR ALA LEU LYS GLU ARG TRP ASN ARG ARG LYS GLU SEQRES 9 D 292 PRO ALA PHE ASP LYS TRP VAL ILE GLU GLU ALA ASN TRP SEQRES 10 D 292 LEU THR LEU ASP LYS ASP VAL PRO ALA GLY ASP GLY PHE SEQRES 11 D 292 ASP ALA VAL ILE CYS LEU GLY ASN SER PHE ALA HIS LEU SEQRES 12 D 292 PRO ASP SER LYS GLY ASP GLN SER GLU HIS ARG LEU ALA SEQRES 13 D 292 LEU LYS ASN ILE ALA SER MET VAL ARG PRO GLY GLY LEU SEQRES 14 D 292 LEU VAL ILE ASP HIS LYS ASN TYR ASP TYR ILE LEU SER SEQRES 15 D 292 THR GLY CYS ALA PRO PRO GLY LYS ASN ILE TYR TYR LYS SEQRES 16 D 292 SER ASP LEU THR LYS ASP ILE THR THR SER VAL LEU THR SEQRES 17 D 292 VAL ASN ASN LYS ALA HIS MET VAL THR LEU ASP TYR THR SEQRES 18 D 292 VAL GLN VAL PRO GLY ALA GLY ARG ASP GLY ALA PRO GLY SEQRES 19 D 292 PHE SER LYS PHE ARG LEU SER TYR TYR PRO HIS CYS LEU SEQRES 20 D 292 ALA SER PHE THR GLU LEU VAL GLN GLU ALA PHE GLY GLY SEQRES 21 D 292 ARG CYS GLN HIS SER VAL LEU GLY ASP PHE LYS PRO TYR SEQRES 22 D 292 ARG PRO GLY GLN ALA TYR VAL PRO CYS TYR PHE ILE HIS SEQRES 23 D 292 VAL LEU LYS LYS THR GLY HET SAH A1301 26 HET SAH B2301 26 HET SAH C3301 26 HET SAH D4301 26 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 5 SAH 4(C14 H20 N6 O5 S) FORMUL 9 HOH *508(H2 O) HELIX 1 1 THR A 41 HIS A 55 1 15 HELIX 2 2 GLY A 68 PHE A 79 1 12 HELIX 3 3 SER A 87 ARG A 101 1 15 HELIX 4 4 GLU A 104 TRP A 110 1 7 HELIX 5 5 THR A 119 VAL A 124 1 6 HELIX 6 6 SER A 139 LEU A 143 5 5 HELIX 7 7 GLN A 150 MET A 163 1 14 HELIX 8 8 ASN A 176 GLY A 184 1 9 HELIX 9 9 CYS A 246 PHE A 258 1 13 HELIX 10 10 THR B 41 GLY B 56 1 16 HELIX 11 11 GLY B 68 GLU B 77 1 10 HELIX 12 12 SER B 87 ARG B 101 1 15 HELIX 13 13 GLU B 104 LYS B 109 1 6 HELIX 14 14 THR B 119 VAL B 124 1 6 HELIX 15 15 ASN B 138 LEU B 143 5 6 HELIX 16 16 GLN B 150 MET B 163 1 14 HELIX 17 17 ASN B 176 GLY B 184 1 9 HELIX 18 18 CYS B 246 PHE B 258 1 13 HELIX 19 19 THR C 41 GLY C 56 1 16 HELIX 20 20 GLY C 68 GLU C 77 1 10 HELIX 21 21 SER C 87 ARG C 101 1 15 HELIX 22 22 GLU C 104 TRP C 110 1 7 HELIX 23 23 THR C 119 VAL C 124 1 6 HELIX 24 24 SER C 139 LEU C 143 5 5 HELIX 25 25 GLN C 150 SER C 162 1 13 HELIX 26 26 TYR C 179 GLY C 184 1 6 HELIX 27 27 CYS C 246 GLY C 259 1 14 HELIX 28 28 THR D 41 GLY D 56 1 16 HELIX 29 29 GLY D 68 GLU D 77 1 10 HELIX 30 30 SER D 87 ARG D 101 1 15 HELIX 31 31 GLU D 104 TRP D 110 1 7 HELIX 32 32 ASN D 116 LEU D 120 5 5 HELIX 33 33 THR D 119 VAL D 124 5 6 HELIX 34 34 SER D 139 LEU D 143 5 5 HELIX 35 35 GLN D 150 SER D 162 1 13 HELIX 36 36 ASN D 176 GLY D 184 1 9 HELIX 37 37 CYS D 246 GLY D 259 1 14 SHEET 1 A 7 GLU A 113 GLU A 114 0 SHEET 2 A 7 SER A 80 ASP A 85 1 O SER A 83 N GLU A 113 SHEET 3 A 7 ARG A 59 ASP A 62 1 N VAL A 60 O SER A 80 SHEET 4 A 7 PHE A 130 CYS A 135 1 N ASP A 131 O ARG A 59 SHEET 5 A 7 VAL A 164 LYS A 175 1 N ARG A 165 O PHE A 130 SHEET 6 A 7 TYR A 283 LYS A 290 -1 N PHE A 284 O HIS A 174 SHEET 7 A 7 HIS A 264 LEU A 267 -1 O SER A 265 N VAL A 287 SHEET 1 B 6 GLY A 234 TYR A 242 0 SHEET 2 B 6 LYS A 212 VAL A 224 -1 O VAL A 216 N TYR A 242 SHEET 3 B 6 LYS A 200 VAL A 209 -1 N ASP A 201 O THR A 221 SHEET 4 B 6 LYS D 200 VAL D 209 0 SHEET 5 B 6 LYS D 212 VAL D 224 -1 N LYS D 212 O VAL D 209 SHEET 6 B 6 GLY D 234 TYR D 242 -1 O GLY D 234 N VAL D 224 SHEET 1 C 7 VAL B 111 GLU B 114 0 SHEET 2 C 7 SER B 80 ASP B 85 1 O VAL B 81 N VAL B 111 SHEET 3 C 7 ARG B 59 ASP B 62 1 N VAL B 60 O SER B 80 SHEET 4 C 7 PHE B 130 CYS B 135 1 N ALA B 132 O ARG B 59 SHEET 5 C 7 VAL B 164 LYS B 175 1 N ARG B 165 O PHE B 130 SHEET 6 C 7 TYR B 283 LYS B 289 -1 N PHE B 284 O HIS B 174 SHEET 7 C 7 GLN B 263 LEU B 267 -1 O GLN B 263 N LYS B 289 SHEET 1 D 6 GLY C 234 TYR C 242 0 SHEET 2 D 6 LYS C 212 VAL C 224 -1 N VAL C 216 O TYR C 242 SHEET 3 D 6 LYS C 200 VAL C 209 -1 N ASP C 201 O THR C 221 SHEET 4 D 6 LYS B 200 VAL B 209 0 SHEET 5 D 6 LYS B 212 VAL B 224 -1 O LYS B 212 N VAL B 209 SHEET 6 D 6 GLY B 234 PHE B 235 -1 O GLY B 234 N VAL B 224 SHEET 1 D1 6 GLY C 234 TYR C 242 0 SHEET 2 D1 6 LYS C 212 VAL C 224 -1 N VAL C 216 O TYR C 242 SHEET 3 D1 6 LYS C 200 VAL C 209 -1 N ASP C 201 O THR C 221 SHEET 4 D1 6 LYS B 200 VAL B 209 0 SHEET 5 D1 6 LYS B 212 VAL B 224 -1 O LYS B 212 N VAL B 209 SHEET 6 D1 6 PHE B 238 TYR B 242 -1 O PHE B 238 N TYR B 220 SHEET 1 E 7 VAL C 111 GLU C 114 0 SHEET 2 E 7 SER C 80 ASP C 85 1 O VAL C 81 N VAL C 111 SHEET 3 E 7 ARG C 59 ASP C 62 1 O VAL C 60 N THR C 82 SHEET 4 E 7 PHE C 130 CYS C 135 1 N ASP C 131 O ARG C 59 SHEET 5 E 7 VAL C 164 LYS C 175 1 N ARG C 165 O PHE C 130 SHEET 6 E 7 TYR C 283 LEU C 288 -1 N PHE C 284 O HIS C 174 SHEET 7 E 7 HIS C 264 LEU C 267 -1 O SER C 265 N VAL C 287 SHEET 1 F 7 VAL D 111 GLU D 114 0 SHEET 2 F 7 SER D 80 ASP D 85 1 O VAL D 81 N VAL D 111 SHEET 3 F 7 ARG D 59 ASP D 62 1 O VAL D 60 N THR D 82 SHEET 4 F 7 PHE D 130 CYS D 135 1 N ASP D 131 O ARG D 59 SHEET 5 F 7 VAL D 164 LYS D 175 1 N ARG D 165 O PHE D 130 SHEET 6 F 7 TYR D 283 LYS D 290 -1 O PHE D 284 N HIS D 174 SHEET 7 F 7 CYS D 262 LEU D 267 -1 O GLN D 263 N LYS D 289 SITE 1 AC1 8 ASP A 85 ALA A 86 SER A 87 MET A 90 SITE 2 AC1 8 ASN A 116 TRP A 117 SER A 139 HIS A 142 SITE 1 AC2 8 ALA B 64 VAL B 69 ASP B 85 SER B 87 SITE 2 AC2 8 MET B 90 ASN B 116 TRP B 117 SER B 139 SITE 1 AC3 10 THR C 67 ASP C 85 ALA C 86 SER C 87 SITE 2 AC3 10 MET C 90 ALA C 115 ASN C 116 TRP C 117 SITE 3 AC3 10 SER C 139 TYR C 194 SITE 1 AC4 10 ASP D 85 ALA D 86 SER D 87 MET D 90 SITE 2 AC4 10 ASN D 116 TRP D 117 GLY D 137 SER D 139 SITE 3 AC4 10 HIS D 142 HOH D4370 CRYST1 77.900 77.900 227.100 90.00 90.00 90.00 P 43 16 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 0.012837 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012837 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004403 0.00000