HEADER TRANSFERASE 08-FEB-14 4OQE TITLE CRYSTAL STRUCTURE OF THE TYLM1 N,N-DIMETHYLTRANSFERASE IN COMPLEX WITH TITLE 2 SAH AND TDP-FUC3NME COMPND MOL_ID: 1; COMPND 2 MOLECULE: DTDP-3-AMINO-3,6-DIDEOXY-ALPHA-D-GLUCOPYRANOSE N,N- COMPND 3 DIMETHYLTRANSFERASE; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: TYLOSIN BIOSYNTHESIS PROTEIN M1; COMPND 6 EC: 2.1.1.235; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES FRADIAE; SOURCE 3 ORGANISM_TAXID: 1906; SOURCE 4 GENE: TYLM1, TYLMI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET31 KEYWDS SAM METHYLTRANSFERASE, N-METHYLTRANSFERASE, S-ADENOSYLMETHIONINE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.B.THODEN,H.M.HOLDEN REVDAT 3 20-SEP-23 4OQE 1 REMARK SEQADV REVDAT 2 19-MAR-14 4OQE 1 JRNL REVDAT 1 26-FEB-14 4OQE 0 JRNL AUTH J.B.THODEN,H.M.HOLDEN JRNL TITL PRODUCTION OF A NOVEL N-MONOMETHYLATED DIDEOXYSUGAR. JRNL REF BIOCHEMISTRY V. 53 1105 2014 JRNL REFN ISSN 0006-2960 JRNL PMID 24512254 JRNL DOI 10.1021/BI500098A REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.5 REMARK 3 NUMBER OF REFLECTIONS : 24812 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1251 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1432 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 71.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3651 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 124 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.44000 REMARK 3 B22 (A**2) : -4.11000 REMARK 3 B33 (A**2) : -1.81000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 4.22000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.368 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.268 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.235 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.824 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.901 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3880 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3549 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5277 ; 1.702 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8133 ; 0.840 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 478 ; 7.520 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 179 ;32.314 ;21.955 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 561 ;17.354 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 39 ;20.863 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 574 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4388 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 941 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4OQE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1000084819. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9 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 : NI FILTER REMARK 200 OPTICS : MONTEL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : SADABS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24812 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.5 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : 0.05700 REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.20 REMARK 200 R MERGE FOR SHELL (I) : 0.14000 REMARK 200 R SYM FOR SHELL (I) : 0.14000 REMARK 200 FOR SHELL : 3.700 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: PDB ENTRY 4OQD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15-20% PEG3400, 200 MM SODIUM REMARK 280 CHLORIDE, 5 MM S-ADENOSYLHOMOCYSTEINE, 10 MM TDP-3-N-METHYLAMINO- REMARK 280 3,6-DIDEOXYGALACTOSE, PH 9, BATCH, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 46.46900 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 ALA A 2 REMARK 465 HIS A 3 REMARK 465 SER A 4 REMARK 465 SER A 5 REMARK 465 ALA A 6 REMARK 465 THR A 7 REMARK 465 ALA A 8 REMARK 465 GLY A 9 REMARK 465 PRO A 10 REMARK 465 LYS A 50 REMARK 465 LYS A 251 REMARK 465 GLY A 252 REMARK 465 GLU A 253 REMARK 465 THR A 254 REMARK 465 ARG A 255 REMARK 465 LEU A 256 REMARK 465 GLU A 257 REMARK 465 HIS A 258 REMARK 465 HIS A 259 REMARK 465 HIS A 260 REMARK 465 HIS A 261 REMARK 465 HIS A 262 REMARK 465 HIS A 263 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 SER B 4 REMARK 465 SER B 5 REMARK 465 ALA B 6 REMARK 465 THR B 7 REMARK 465 ALA B 8 REMARK 465 GLY B 9 REMARK 465 ALA B 250 REMARK 465 LYS B 251 REMARK 465 GLY B 252 REMARK 465 GLU B 253 REMARK 465 THR B 254 REMARK 465 ARG B 255 REMARK 465 LEU B 256 REMARK 465 GLU B 257 REMARK 465 HIS B 258 REMARK 465 HIS B 259 REMARK 465 HIS B 260 REMARK 465 HIS B 261 REMARK 465 HIS B 262 REMARK 465 HIS B 263 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 NH1 ARG B 45 O SER B 71 2.07 REMARK 500 O PHE A 72 O HOH A 415 2.10 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 ARG A 136 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP B 131 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 PRO B 143 C - N - CA ANGL. DEV. = 9.5 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 12 34.38 -153.19 REMARK 500 ASP A 13 21.06 -145.35 REMARK 500 SER A 48 72.81 -118.24 REMARK 500 ALA A 58 43.19 79.86 REMARK 500 ASP A 104 87.29 -156.92 REMARK 500 TRP A 153 141.15 -38.55 REMARK 500 GLU A 186 48.89 -92.31 REMARK 500 LEU A 243 120.54 -173.68 REMARK 500 ALA B 52 6.43 -161.71 REMARK 500 ALA B 58 73.49 35.29 REMARK 500 PHE B 118 35.46 71.51 REMARK 500 SER B 239 11.08 -145.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY B 100 ASP B 101 -147.45 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 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MMF A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MMF B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4OQD RELATED DB: PDB REMARK 900 TYLM1 N,N-DIMETHYLTRANSFERASE IN COMPLEX WITH SAH AND TDP-QUI3NME2 DBREF 4OQE A 1 255 UNP P95748 TYLM1_STRFR 1 255 DBREF 4OQE B 1 255 UNP P95748 TYLM1_STRFR 1 255 SEQADV 4OQE LEU A 256 UNP P95748 EXPRESSION TAG SEQADV 4OQE GLU A 257 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS A 258 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS A 259 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS A 260 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS A 261 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS A 262 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS A 263 UNP P95748 EXPRESSION TAG SEQADV 4OQE LEU B 256 UNP P95748 EXPRESSION TAG SEQADV 4OQE GLU B 257 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS B 258 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS B 259 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS B 260 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS B 261 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS B 262 UNP P95748 EXPRESSION TAG SEQADV 4OQE HIS B 263 UNP P95748 EXPRESSION TAG SEQRES 1 A 263 MET ALA HIS SER SER ALA THR ALA GLY PRO GLN ALA ASP SEQRES 2 A 263 TYR SER GLY GLU ILE ALA GLU LEU TYR ASP LEU VAL HIS SEQRES 3 A 263 GLN GLY LYS GLY LYS ASP TYR HIS ARG GLU ALA ALA ASP SEQRES 4 A 263 LEU ALA ALA LEU VAL ARG ARG HIS SER PRO LYS ALA ALA SEQRES 5 A 263 SER LEU LEU ASP VAL ALA CYS GLY THR GLY MET HIS LEU SEQRES 6 A 263 ARG HIS LEU ALA ASP SER PHE GLY THR VAL GLU GLY LEU SEQRES 7 A 263 GLU LEU SER ALA ASP MET LEU ALA ILE ALA ARG ARG ARG SEQRES 8 A 263 ASN PRO ASP ALA VAL LEU HIS HIS GLY ASP MET ARG ASP SEQRES 9 A 263 PHE SER LEU GLY ARG ARG PHE SER ALA VAL THR CYS MET SEQRES 10 A 263 PHE SER SER ILE GLY HIS LEU ALA GLY GLN ALA GLU LEU SEQRES 11 A 263 ASP ALA ALA LEU GLU ARG PHE ALA ALA HIS VAL LEU PRO SEQRES 12 A 263 ASP GLY VAL VAL VAL VAL GLU PRO TRP TRP PHE PRO GLU SEQRES 13 A 263 ASN PHE THR PRO GLY TYR VAL ALA ALA GLY THR VAL GLU SEQRES 14 A 263 ALA GLY GLY THR THR VAL THR ARG VAL SER HIS SER SER SEQRES 15 A 263 ARG GLU GLY GLU ALA THR ARG ILE GLU VAL HIS TYR LEU SEQRES 16 A 263 VAL ALA GLY PRO ASP ARG GLY ILE THR HIS HIS GLU GLU SEQRES 17 A 263 SER HIS ARG ILE THR LEU PHE THR ARG GLU GLN TYR GLU SEQRES 18 A 263 ARG ALA PHE THR ALA ALA GLY LEU SER VAL GLU PHE MET SEQRES 19 A 263 PRO GLY GLY PRO SER GLY ARG GLY LEU PHE THR GLY LEU SEQRES 20 A 263 PRO GLY ALA LYS GLY GLU THR ARG LEU GLU HIS HIS HIS SEQRES 21 A 263 HIS HIS HIS SEQRES 1 B 263 MET ALA HIS SER SER ALA THR ALA GLY PRO GLN ALA ASP SEQRES 2 B 263 TYR SER GLY GLU ILE ALA GLU LEU TYR ASP LEU VAL HIS SEQRES 3 B 263 GLN GLY LYS GLY LYS ASP TYR HIS ARG GLU ALA ALA ASP SEQRES 4 B 263 LEU ALA ALA LEU VAL ARG ARG HIS SER PRO LYS ALA ALA SEQRES 5 B 263 SER LEU LEU ASP VAL ALA CYS GLY THR GLY MET HIS LEU SEQRES 6 B 263 ARG HIS LEU ALA ASP SER PHE GLY THR VAL GLU GLY LEU SEQRES 7 B 263 GLU LEU SER ALA ASP MET LEU ALA ILE ALA ARG ARG ARG SEQRES 8 B 263 ASN PRO ASP ALA VAL LEU HIS HIS GLY ASP MET ARG ASP SEQRES 9 B 263 PHE SER LEU GLY ARG ARG PHE SER ALA VAL THR CYS MET SEQRES 10 B 263 PHE SER SER ILE GLY HIS LEU ALA GLY GLN ALA GLU LEU SEQRES 11 B 263 ASP ALA ALA LEU GLU ARG PHE ALA ALA HIS VAL LEU PRO SEQRES 12 B 263 ASP GLY VAL VAL VAL VAL GLU PRO TRP TRP PHE PRO GLU SEQRES 13 B 263 ASN PHE THR PRO GLY TYR VAL ALA ALA GLY THR VAL GLU SEQRES 14 B 263 ALA GLY GLY THR THR VAL THR ARG VAL SER HIS SER SER SEQRES 15 B 263 ARG GLU GLY GLU ALA THR ARG ILE GLU VAL HIS TYR LEU SEQRES 16 B 263 VAL ALA GLY PRO ASP ARG GLY ILE THR HIS HIS GLU GLU SEQRES 17 B 263 SER HIS ARG ILE THR LEU PHE THR ARG GLU GLN TYR GLU SEQRES 18 B 263 ARG ALA PHE THR ALA ALA GLY LEU SER VAL GLU PHE MET SEQRES 19 B 263 PRO GLY GLY PRO SER GLY ARG GLY LEU PHE THR GLY LEU SEQRES 20 B 263 PRO GLY ALA LYS GLY GLU THR ARG LEU GLU HIS HIS HIS SEQRES 21 B 263 HIS HIS HIS HET SAH A 300 26 HET MMF A 301 36 HET SAH B 300 26 HET MMF B 301 36 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM MMF DTDP-3-N-METHYLAMINO-3,6-DIDEOXYGALACTOSE FORMUL 3 SAH 2(C14 H20 N6 O5 S) FORMUL 4 MMF 2(C17 H29 N3 O14 P2) FORMUL 7 HOH *212(H2 O) HELIX 1 1 GLY A 16 LYS A 29 1 14 HELIX 2 2 ASP A 32 SER A 48 1 17 HELIX 3 3 GLY A 62 ALA A 69 1 8 HELIX 4 4 ASP A 70 PHE A 72 5 3 HELIX 5 5 SER A 81 ASN A 92 1 12 HELIX 6 6 SER A 119 LEU A 124 5 6 HELIX 7 7 GLY A 126 HIS A 140 1 15 HELIX 8 8 THR A 216 ALA A 227 1 12 HELIX 9 9 SER B 15 LYS B 29 1 15 HELIX 10 10 ASP B 32 SER B 48 1 17 HELIX 11 11 GLY B 62 ASP B 70 1 9 HELIX 12 12 SER B 81 ASN B 92 1 12 HELIX 13 13 SER B 119 LEU B 124 5 6 HELIX 14 14 GLY B 126 HIS B 140 1 15 HELIX 15 15 PHE B 154 PHE B 158 5 5 HELIX 16 16 THR B 216 ALA B 227 1 12 SHEET 1 A 7 LEU A 97 HIS A 99 0 SHEET 2 A 7 THR A 74 GLU A 79 1 N GLY A 77 O HIS A 98 SHEET 3 A 7 SER A 53 VAL A 57 1 N LEU A 54 O THR A 74 SHEET 4 A 7 PHE A 111 CYS A 116 1 O THR A 115 N VAL A 57 SHEET 5 A 7 VAL A 141 VAL A 149 1 O VAL A 148 N CYS A 116 SHEET 6 A 7 LEU A 243 PRO A 248 -1 O GLY A 246 N VAL A 147 SHEET 7 A 7 LEU A 229 MET A 234 -1 N SER A 230 O LEU A 247 SHEET 1 B 4 TYR A 162 ALA A 170 0 SHEET 2 B 4 THR A 173 ARG A 183 -1 O VAL A 175 N VAL A 168 SHEET 3 B 4 ALA A 187 GLY A 198 -1 O HIS A 193 N VAL A 178 SHEET 4 B 4 GLY A 202 THR A 213 -1 O GLU A 208 N VAL A 192 SHEET 1 C 7 VAL B 96 HIS B 99 0 SHEET 2 C 7 THR B 74 GLU B 79 1 N GLY B 77 O HIS B 98 SHEET 3 C 7 SER B 53 VAL B 57 1 N LEU B 54 O GLU B 76 SHEET 4 C 7 PHE B 111 CYS B 116 1 O THR B 115 N VAL B 57 SHEET 5 C 7 VAL B 141 VAL B 149 1 O VAL B 148 N VAL B 114 SHEET 6 C 7 LEU B 243 PRO B 248 -1 O GLY B 246 N VAL B 147 SHEET 7 C 7 LEU B 229 MET B 234 -1 N MET B 234 O LEU B 243 SHEET 1 D 4 VAL B 163 ALA B 170 0 SHEET 2 D 4 THR B 173 GLU B 184 -1 O VAL B 175 N VAL B 168 SHEET 3 D 4 ALA B 187 GLY B 198 -1 O GLU B 191 N HIS B 180 SHEET 4 D 4 GLY B 202 THR B 213 -1 O THR B 204 N VAL B 196 SITE 1 AC1 18 TYR A 14 TYR A 22 TYR A 33 ALA A 58 SITE 2 AC1 18 GLY A 60 HIS A 64 GLU A 79 LEU A 80 SITE 3 AC1 18 SER A 81 ASP A 101 MET A 102 MET A 117 SITE 4 AC1 18 PHE A 118 SER A 120 MMF A 301 HOH A 409 SITE 5 AC1 18 HOH A 411 HOH A 428 SITE 1 AC2 19 TYR A 14 LYS A 29 PHE A 118 TRP A 152 SITE 2 AC2 19 TRP A 153 ASN A 157 PHE A 158 THR A 159 SITE 3 AC2 19 TYR A 162 ALA A 164 ARG A 177 SER A 179 SITE 4 AC2 19 SER A 181 ILE A 190 HIS A 210 ILE A 212 SITE 5 AC2 19 ARG A 241 SAH A 300 HOH A 479 SITE 1 AC3 19 TYR B 14 TYR B 22 TYR B 33 ALA B 58 SITE 2 AC3 19 CYS B 59 GLY B 60 HIS B 64 GLU B 79 SITE 3 AC3 19 LEU B 80 SER B 81 MET B 84 ASP B 101 SITE 4 AC3 19 MET B 102 MET B 117 PHE B 118 SER B 120 SITE 5 AC3 19 MMF B 301 HOH B 427 HOH B 465 SITE 1 AC4 20 TYR B 14 LYS B 29 PHE B 118 HIS B 123 SITE 2 AC4 20 TRP B 152 TRP B 153 ASN B 157 PHE B 158 SITE 3 AC4 20 THR B 159 TYR B 162 ALA B 164 ARG B 177 SITE 4 AC4 20 SER B 179 SER B 181 HIS B 210 ARG B 241 SITE 5 AC4 20 SAH B 300 HOH B 444 HOH B 455 HOH B 459 CRYST1 39.885 92.938 77.879 90.00 97.29 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.025072 0.000000 0.003207 0.00000 SCALE2 0.000000 0.010760 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012945 0.00000