HEADER TRANSFERASE 29-FEB-00 1EIZ TITLE FTSJ RNA METHYLTRANSFERASE COMPLEXED WITH S-ADENOSYLMETHIONINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: FTSJ; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FTSJ METHYLTRANSFERASE; COMPND 5 EC: 2.1.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS FTSJ, METHYLTRANSFERASE, ADOMET, ADENOSYL METHIONINE, HEAT SHOCK KEYWDS 2 PROTEINS, 23S RIBOSOMAL RNA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.BUGL,E.B.FAUMAN,B.L.STAKER,F.ZHENG,S.R.KUSHNER,M.A.SAPER, AUTHOR 2 J.C.A.BARDWELL,U.JAKOB REVDAT 5 07-FEB-24 1EIZ 1 REMARK REVDAT 4 04-OCT-17 1EIZ 1 REMARK REVDAT 3 24-FEB-09 1EIZ 1 VERSN REVDAT 2 01-APR-03 1EIZ 1 JRNL REVDAT 1 30-AUG-00 1EIZ 0 JRNL AUTH H.BUGL,E.B.FAUMAN,B.L.STAKER,F.ZHENG,S.R.KUSHNER,M.A.SAPER, JRNL AUTH 2 J.C.BARDWELL,U.JAKOB JRNL TITL RNA METHYLATION UNDER HEAT SHOCK CONTROL. JRNL REF MOL.CELL V. 6 349 2000 JRNL REFN ISSN 1097-2765 JRNL PMID 10983982 JRNL DOI 10.1016/S1097-2765(00)00035-6 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.CALDAS,E.BINET,P.BOULOC,A.COSTA,J.DESGRES,G.RICHARME REMARK 1 TITL THE FTSJ/RRMJ HEAT SHOCK PROTEIN OF ESCHERICHIA COLI IS A 23 REMARK 1 TITL 2 S RIBOSOMAL RNA METHYLTRANSFERASE. REMARK 1 REF J.BIOL.CHEM. V. 275 16414 2000 REMARK 1 REFN ISSN 0021-9258 REMARK 1 DOI 10.1074/JBC.M001854200 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.22 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) (%) : 93.8 REMARK 3 NUMBER OF REFLECTIONS : 18697 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 SET) : 0.190 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1007 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.76 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1676 REMARK 3 BIN R VALUE (WORKING SET) : 0.3690 REMARK 3 BIN FREE R VALUE : 0.3890 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 106 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.038 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1389 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 183 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.65000 REMARK 3 B22 (A**2) : 2.77000 REMARK 3 B33 (A**2) : -5.42000 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) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.17 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 1.697 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.260 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) : 1.430 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.970 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.390 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.470 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.39 REMARK 3 BSOL : 50.45 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : MYSAM.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : MYSAM.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT CORRECTION REMARK 4 REMARK 4 1EIZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAR-00. REMARK 100 THE DEPOSITION ID IS D_1000010621. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-FEB-98 REMARK 200 TEMPERATURE (KELVIN) : 160 REMARK 200 PH : 5.65 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : BIOTEX REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24364 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.37100 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: MIR REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1MM ADOMET, 33% PEG 4000, 0.19 M REMARK 280 AMMONIUM ACETATE, 0.1 M SODIUM CITRATE PH 5.65, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 18.22850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.43850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.93350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.43850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.22850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.93350 REMARK 290 SMTRY3 4 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 300 REMARK: BIOLOGICAL ASSEMBLY IS A MONOMER IN SOLUTION 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 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 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 GLU A 103 CD OE1 OE2 REMARK 470 LYS A 107 CG CD CE NZ REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EJ0 RELATED DB: PDB REMARK 900 1EJ0 CONTAINS THE SAME PROTEIN TO 1.5 ANG WITH MERCURY DBREF 1EIZ A 30 209 UNP P28692 RRMJ_ECOLI 30 209 SEQRES 1 A 180 GLY LEU ARG SER ARG ALA TRP PHE LYS LEU ASP GLU ILE SEQRES 2 A 180 GLN GLN SER ASP LYS LEU PHE LYS PRO GLY MET THR VAL SEQRES 3 A 180 VAL ASP LEU GLY ALA ALA PRO GLY GLY TRP SER GLN TYR SEQRES 4 A 180 VAL VAL THR GLN ILE GLY GLY LYS GLY ARG ILE ILE ALA SEQRES 5 A 180 CYS ASP LEU LEU PRO MET ASP PRO ILE VAL GLY VAL ASP SEQRES 6 A 180 PHE LEU GLN GLY ASP PHE ARG ASP GLU LEU VAL MET LYS SEQRES 7 A 180 ALA LEU LEU GLU ARG VAL GLY ASP SER LYS VAL GLN VAL SEQRES 8 A 180 VAL MET SER ASP MET ALA PRO ASN MET SER GLY THR PRO SEQRES 9 A 180 ALA VAL ASP ILE PRO ARG ALA MET TYR LEU VAL GLU LEU SEQRES 10 A 180 ALA LEU GLU MET CYS ARG ASP VAL LEU ALA PRO GLY GLY SEQRES 11 A 180 SER PHE VAL VAL LYS VAL PHE GLN GLY GLU GLY PHE ASP SEQRES 12 A 180 GLU TYR LEU ARG GLU ILE ARG SER LEU PHE THR LYS VAL SEQRES 13 A 180 LYS VAL ARG LYS PRO ASP SER SER ARG ALA ARG SER ARG SEQRES 14 A 180 GLU VAL TYR ILE VAL ALA THR GLY ARG LYS PRO HET SAM A 301 27 HETNAM SAM S-ADENOSYLMETHIONINE FORMUL 2 SAM C15 H22 N6 O5 S FORMUL 3 HOH *183(H2 O) HELIX 1 1 SER A 33 LYS A 47 1 15 HELIX 2 2 GLY A 63 GLY A 74 1 12 HELIX 3 3 ASP A 102 GLY A 114 1 13 HELIX 4 4 THR A 132 VAL A 154 1 23 HELIX 5 5 GLY A 170 LEU A 181 1 12 SHEET 1 A 7 VAL A 93 GLN A 97 0 SHEET 2 A 7 ARG A 78 ASP A 83 1 O ILE A 79 N ASP A 94 SHEET 3 A 7 THR A 54 LEU A 58 1 O VAL A 55 N ILE A 80 SHEET 4 A 7 VAL A 118 SER A 123 1 N GLN A 119 O THR A 54 SHEET 5 A 7 LEU A 155 PHE A 166 1 N ALA A 156 O VAL A 118 SHEET 6 A 7 GLU A 199 ARG A 207 -1 O VAL A 200 N VAL A 165 SHEET 7 A 7 PHE A 182 ARG A 188 -1 N THR A 183 O GLY A 206 CISPEP 1 ALA A 61 PRO A 62 0 0.57 SITE 1 AC1 23 ALA A 35 GLY A 59 ALA A 60 ALA A 61 SITE 2 AC1 23 PRO A 62 GLY A 63 GLY A 64 TRP A 65 SITE 3 AC1 23 ASP A 83 LEU A 84 GLY A 98 ASP A 99 SITE 4 AC1 23 PHE A 100 ARG A 101 ASP A 124 MET A 125 SITE 5 AC1 23 ALA A 126 LEU A 143 HOH A 407 HOH A 462 SITE 6 AC1 23 HOH A 467 HOH A 537 HOH A 761 CRYST1 36.457 65.867 72.877 90.00 90.00 90.00 P 21 21 21 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 0.027430 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015182 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013722 0.00000