PDB Short entry for 2Z6A HEADER TRANSFERASE/DNA 25-JUL-07 2Z6A TITLE S-ADENOSYL-L-METHIONINE-DEPENDENT METHYL TRANSFER: OBSERVABLE TITLE 2 PRECATALYTIC INTERMEDIATES DURING DNA CYTOSINE METHYLATION CAVEAT 2Z6A THERE ARE SEVERAL CHIRALITY ERRORS IN CHAIN C, D. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*DGP*DAP*DTP*DAP*DGP*DCP*DGP*DCP*DTP*DAP*DTP*DC)- COMPND 3 3'); COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'- COMPND 8 D(*DTP*DGP*DAP*DTP*DAP*DGP*DCP*DGP*DCP*DTP*DAP*DTP*DC)-3'); COMPND 9 CHAIN: D; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: MODIFICATION METHYLASE HHAI; COMPND 13 CHAIN: A; COMPND 14 SYNONYM: HHAI METHYLTRANSFERASE, CYTOSINE-SPECIFIC METHYLTRANSFERASE COMPND 15 HHAI, M.HHAI; COMPND 16 EC: 2.1.1.37; COMPND 17 ENGINEERED: YES; COMPND 18 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 8 ORGANISM_TAXID: 32630; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: HAEMOPHILUS PARAHAEMOLYTICUS; SOURCE 11 ORGANISM_TAXID: 735; SOURCE 12 GENE: HHAIM; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PHSHW-5 KEYWDS PROTEIN-DNA COMPLEX, METHYLTRANSFERASE, RESTRICTION SYSTEM, S- KEYWDS 2 ADENOSYL-L-METHIONINE, TRANSFERASE, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR F.K.SHIEH REVDAT 5 01-NOV-23 2Z6A 1 REMARK REVDAT 4 10-NOV-21 2Z6A 1 REMARK SEQADV REVDAT 3 13-MAR-19 2Z6A 1 SOURCE REMARK REVDAT 2 24-FEB-09 2Z6A 1 VERSN REVDAT 1 21-AUG-07 2Z6A 0 JRNL AUTH B.YOUNGBLOOD,F.K.SHIEH,F.BULLER,T.BULLOCK,N.O.REICH JRNL TITL S-ADENOSYL-L-METHIONINE-DEPENDENT METHYL TRANSFER: JRNL TITL 2 OBSERVABLE PRECATALYTIC INTERMEDIATES DURING DNA CYTOSINE JRNL TITL 3 METHYLATION JRNL REF BIOCHEMISTRY V. 46 8766 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17616174 JRNL DOI 10.1021/BI7005948 REMARK 2 REMARK 2 RESOLUTION. 2.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12688 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 441 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) : 2.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.92 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3450 REMARK 3 BIN FREE R VALUE : 0.4350 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 350 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2605 REMARK 3 NUCLEIC ACID ATOMS : 506 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 55 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 65.60 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) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.520 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 2Z6A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000027574. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 180 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14120 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.880 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.16000 REMARK 200 R SYM (I) : 0.09000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : 0.35400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIMULATION ANNEALING REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 2HR1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0M AMMONIUM SULFATE, 50MM SODIUM REMARK 280 CITRATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 49.24500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 28.43161 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 107.87000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 49.24500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 28.43161 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 107.87000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 49.24500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 28.43161 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 107.87000 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 49.24500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 28.43161 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 107.87000 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 49.24500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 28.43161 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 107.87000 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 49.24500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 28.43161 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 107.87000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 56.86323 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 215.74000 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 56.86323 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 215.74000 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 56.86323 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 215.74000 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 56.86323 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 215.74000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 56.86323 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 215.74000 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 56.86323 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 215.74000 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 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 DG C 402 C5' - C4' - C3' ANGL. DEV. = 8.4 DEGREES REMARK 500 DG C 402 C1' - O4' - C4' ANGL. DEV. = -10.1 DEGREES REMARK 500 DG C 402 C4' - C3' - C2' ANGL. DEV. = -6.6 DEGREES REMARK 500 DG C 402 N9 - C1' - C2' ANGL. DEV. = 14.9 DEGREES REMARK 500 DG C 402 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA C 411 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DT D 421 O5' - C5' - C4' ANGL. DEV. = -7.1 DEGREES REMARK 500 DA D 425 O4' - C4' - C3' ANGL. DEV. = -10.2 DEGREES REMARK 500 DA D 425 C5' - C4' - C3' ANGL. DEV. = 16.1 DEGREES REMARK 500 DA D 425 C5' - C4' - O4' ANGL. DEV. = -27.1 DEGREES REMARK 500 DT D 430 C1' - O4' - C4' ANGL. DEV. = -13.3 DEGREES REMARK 500 DT D 430 N1 - C1' - C2' ANGL. DEV. = 9.8 DEGREES REMARK 500 GLY A 78 N - CA - C ANGL. DEV. = -15.8 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 LYS A 7 77.96 -63.89 REMARK 500 GLU A 40 113.22 -167.97 REMARK 500 GLU A 55 -179.92 -52.05 REMARK 500 PRO A 57 158.17 -44.70 REMARK 500 ASP A 60 102.67 -22.56 REMARK 500 ALA A 77 117.35 -168.76 REMARK 500 PRO A 80 152.69 -40.72 REMARK 500 ALA A 81 -4.25 -140.80 REMARK 500 GLN A 90 39.44 -56.97 REMARK 500 LYS A 91 4.99 -58.62 REMARK 500 ARG A 97 6.97 -69.70 REMARK 500 LEU A 100 -32.22 -37.48 REMARK 500 LYS A 112 66.71 30.11 REMARK 500 ASN A 129 -25.26 63.58 REMARK 500 ASP A 144 44.30 74.90 REMARK 500 GLU A 203 -50.16 -25.28 REMARK 500 GLU A 218 142.63 -35.55 REMARK 500 PRO A 224 49.24 -80.72 REMARK 500 PHE A 259 44.14 -105.80 REMARK 500 ALA A 260 127.64 -36.94 REMARK 500 LYS A 261 -8.47 61.60 REMARK 500 ASP A 287 -7.84 -59.58 REMARK 500 SER A 305 -164.43 -69.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DA C 411 0.08 SIDE CHAIN REMARK 500 DT D 430 0.11 SIDE CHAIN 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 328 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HR1 RELATED DB: PDB REMARK 900 RELATED ID: 3MHT RELATED DB: PDB DBREF 2Z6A A 1 327 UNP P05102 MTH1_HAEPH 1 327 DBREF 2Z6A C 402 413 PDB 2Z6A 2Z6A 402 413 DBREF 2Z6A D 421 433 PDB 2Z6A 2Z6A 421 433 SEQADV 2Z6A ALA A 81 UNP P05102 CYS 81 ENGINEERED MUTATION SEQRES 1 C 12 DG DA DT DA DG DC DG DC DT DA DT DC SEQRES 1 D 13 DT DG DA DT DA DG DC DG DC DT DA DT DC SEQRES 1 A 327 MET ILE GLU ILE LYS ASP LYS GLN LEU THR GLY LEU ARG SEQRES 2 A 327 PHE ILE ASP LEU PHE ALA GLY LEU GLY GLY PHE ARG LEU SEQRES 3 A 327 ALA LEU GLU SER CYS GLY ALA GLU CYS VAL TYR SER ASN SEQRES 4 A 327 GLU TRP ASP LYS TYR ALA GLN GLU VAL TYR GLU MET ASN SEQRES 5 A 327 PHE GLY GLU LYS PRO GLU GLY ASP ILE THR GLN VAL ASN SEQRES 6 A 327 GLU LYS THR ILE PRO ASP HIS ASP ILE LEU CYS ALA GLY SEQRES 7 A 327 PHE PRO ALA GLN ALA PHE SER ILE SER GLY LYS GLN LYS SEQRES 8 A 327 GLY PHE GLU ASP SER ARG GLY THR LEU PHE PHE ASP ILE SEQRES 9 A 327 ALA ARG ILE VAL ARG GLU LYS LYS PRO LYS VAL VAL PHE SEQRES 10 A 327 MET GLU ASN VAL LYS ASN PHE ALA SER HIS ASP ASN GLY SEQRES 11 A 327 ASN THR LEU GLU VAL VAL LYS ASN THR MET ASN GLU LEU SEQRES 12 A 327 ASP TYR SER PHE HIS ALA LYS VAL LEU ASN ALA LEU ASP SEQRES 13 A 327 TYR GLY ILE PRO GLN LYS ARG GLU ARG ILE TYR MET ILE SEQRES 14 A 327 CYS PHE ARG ASN ASP LEU ASN ILE GLN ASN PHE GLN PHE SEQRES 15 A 327 PRO LYS PRO PHE GLU LEU ASN THR PHE VAL LYS ASP LEU SEQRES 16 A 327 LEU LEU PRO ASP SER GLU VAL GLU HIS LEU VAL ILE ASP SEQRES 17 A 327 ARG LYS ASP LEU VAL MET THR ASN GLN GLU ILE GLU GLN SEQRES 18 A 327 THR THR PRO LYS THR VAL ARG LEU GLY ILE VAL GLY LYS SEQRES 19 A 327 GLY GLY GLN GLY GLU ARG ILE TYR SER THR ARG GLY ILE SEQRES 20 A 327 ALA ILE THR LEU SER ALA TYR GLY GLY GLY ILE PHE ALA SEQRES 21 A 327 LYS THR GLY GLY TYR LEU VAL ASN GLY LYS THR ARG LYS SEQRES 22 A 327 LEU HIS PRO ARG GLU CYS ALA ARG VAL MET GLY TYR PRO SEQRES 23 A 327 ASP SER TYR LYS VAL HIS PRO SER THR SER GLN ALA TYR SEQRES 24 A 327 LYS GLN PHE GLY ASN SER VAL VAL ILE ASN VAL LEU GLN SEQRES 25 A 327 TYR ILE ALA TYR ASN ILE GLY SER SER LEU ASN PHE LYS SEQRES 26 A 327 PRO TYR HET SAH A 328 26 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 4 SAH C14 H20 N6 O5 S FORMUL 5 HOH *55(H2 O) HELIX 1 1 GLY A 22 CYS A 31 1 10 HELIX 2 2 ASP A 42 GLY A 54 1 13 HELIX 3 3 ASP A 60 VAL A 64 5 5 HELIX 4 4 ASN A 65 ILE A 69 5 5 HELIX 5 5 LYS A 91 GLY A 98 5 8 HELIX 6 6 THR A 99 LYS A 112 1 14 HELIX 7 7 LYS A 122 HIS A 127 1 6 HELIX 8 8 GLY A 130 GLU A 142 1 13 HELIX 9 9 LEU A 155 TYR A 157 5 3 HELIX 10 10 PHE A 191 LEU A 196 1 6 HELIX 11 11 PRO A 198 GLU A 203 1 6 HELIX 12 12 HIS A 204 VAL A 206 5 3 HELIX 13 13 HIS A 275 MET A 283 1 9 HELIX 14 14 SER A 294 ASN A 304 1 11 HELIX 15 15 VAL A 307 ASN A 323 1 17 SHEET 1 A 6 GLU A 34 SER A 38 0 SHEET 2 A 6 ARG A 13 LEU A 17 1 N PHE A 14 O GLU A 34 SHEET 3 A 6 ILE A 74 GLY A 78 1 O CYS A 76 N ILE A 15 SHEET 4 A 6 VAL A 115 VAL A 121 1 O PHE A 117 N LEU A 75 SHEET 5 A 6 GLU A 164 PHE A 171 -1 O CYS A 170 N VAL A 116 SHEET 6 A 6 HIS A 148 ASN A 153 -1 N LYS A 150 O TYR A 167 SHEET 1 B 5 VAL A 213 MET A 214 0 SHEET 2 B 5 ARG A 228 ILE A 231 -1 O ILE A 231 N VAL A 213 SHEET 3 B 5 ARG A 240 SER A 243 -1 O ILE A 241 N LEU A 229 SHEET 4 B 5 GLY A 264 VAL A 267 1 O GLY A 264 N TYR A 242 SHEET 5 B 5 LYS A 270 LYS A 273 -1 O ARG A 272 N TYR A 265 SITE 1 AC1 21 PHE A 18 ALA A 19 GLY A 20 LEU A 21 SITE 2 AC1 21 GLY A 23 PHE A 24 ASN A 39 GLU A 40 SITE 3 AC1 21 TRP A 41 ASP A 60 ILE A 61 GLY A 78 SITE 4 AC1 21 PRO A 80 LEU A 100 ASN A 304 SER A 305 SITE 5 AC1 21 VAL A 306 HOH A 330 HOH A 335 HOH A 336 SITE 6 AC1 21 HOH A 372 CRYST1 98.490 98.490 323.610 90.00 90.00 120.00 H 3 2 18 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 0.010153 0.005862 0.000000 0.00000 SCALE2 0.000000 0.011724 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003090 0.00000