PDB Short entry for 3CJS HEADER TRANSFERASE/RIBOSOMAL PROTEIN 13-MAR-08 3CJS TITLE MINIMAL RECOGNITION COMPLEX BETWEEN PRMA AND RIBOSOMAL PROTEIN L11 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN; COMPND 5 SYNONYM: L11 MTASE; COMPND 6 EC: 2.1.1.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 50S RIBOSOMAL PROTEIN L11; COMPND 10 CHAIN: B, C; COMPND 11 FRAGMENT: N-TERMINAL DOMAIN; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 STRAIN: HB8; SOURCE 4 GENE: PRMA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) STAR; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET26B; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 11 STRAIN: HB8; SOURCE 12 GENE: RPLK, RPL11; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) PRMA::TC; SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS S-ADENOSYL-L-METHIONINE DEPENDENT METHYLTRANSFERASE, POST- KEYWDS 2 TRANSLATIONAL MODIFICATION, MULTI-SPECIFIC TRIMETHYLATION, KEYWDS 3 RIBONUCLEOPROTEIN, RIBOSOMAL PROTEIN, RNA-BINDING, RRNA-BINDING, KEYWDS 4 TRANSFERASE-RIBOSOMAL PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.DEMIRCI,S.T.GREGORY,A.E.DAHLBERG,G.JOGL REVDAT 5 30-AUG-23 3CJS 1 REMARK REVDAT 4 13-JUL-11 3CJS 1 VERSN REVDAT 3 24-FEB-09 3CJS 1 VERSN REVDAT 2 22-JUL-08 3CJS 1 JRNL REVDAT 1 20-MAY-08 3CJS 0 JRNL AUTH H.DEMIRCI,S.T.GREGORY,A.E.DAHLBERG,G.JOGL JRNL TITL MULTIPLE-SITE TRIMETHYLATION OF RIBOSOMAL PROTEIN L11 BY THE JRNL TITL 2 PRMA METHYLTRANSFERASE. JRNL REF STRUCTURE V. 16 1059 2008 JRNL REFN ISSN 0969-2126 JRNL PMID 18611379 JRNL DOI 10.1016/J.STR.2008.03.016 REMARK 2 REMARK 2 RESOLUTION. 1.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 35338 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1849 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) : 1.37 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.40 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2232 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2480 REMARK 3 BIN FREE R VALUE SET COUNT : 112 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1485 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.063 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.065 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.874 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1511 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2058 ; 1.280 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 194 ; 5.621 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 51 ;32.258 ;24.510 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 208 ;11.368 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;16.937 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 234 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1142 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 762 ; 0.200 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1035 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 185 ; 0.155 ; 0.200 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): 68 ; 0.184 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 61 ; 0.159 ; 0.200 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): 1003 ; 0.708 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1576 ; 1.151 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 589 ; 1.637 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 482 ; 2.345 ; 4.500 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 54 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5037 -10.9887 20.8493 REMARK 3 T TENSOR REMARK 3 T11: -0.0464 T22: -0.0553 REMARK 3 T33: -0.0198 T12: 0.0102 REMARK 3 T13: -0.0170 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 1.4459 L22: 5.0401 REMARK 3 L33: 1.0754 L12: -0.7907 REMARK 3 L13: -0.3308 L23: 0.1001 REMARK 3 S TENSOR REMARK 3 S11: 0.0677 S12: 0.0255 S13: 0.1192 REMARK 3 S21: -0.3011 S22: -0.0375 S23: 0.1578 REMARK 3 S31: 0.0084 S32: 0.0268 S33: -0.0302 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 72 REMARK 3 ORIGIN FOR THE GROUP (A): 14.8693 5.9084 27.2908 REMARK 3 T TENSOR REMARK 3 T11: -0.0584 T22: -0.0583 REMARK 3 T33: -0.0297 T12: 0.0007 REMARK 3 T13: 0.0078 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 2.3434 L22: 1.4838 REMARK 3 L33: 1.1756 L12: 0.5556 REMARK 3 L13: 0.7165 L23: 0.2744 REMARK 3 S TENSOR REMARK 3 S11: 0.0258 S12: -0.1272 S13: -0.0295 REMARK 3 S21: 0.0251 S22: -0.0492 S23: 0.1552 REMARK 3 S31: 0.0270 S32: -0.0369 S33: 0.0234 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 3 C 70 REMARK 3 ORIGIN FOR THE GROUP (A): 14.0196 -15.3145 -1.2123 REMARK 3 T TENSOR REMARK 3 T11: 0.0980 T22: 0.0754 REMARK 3 T33: -0.0723 T12: 0.0153 REMARK 3 T13: 0.0299 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 1.3538 L22: 1.0151 REMARK 3 L33: 5.8011 L12: -0.6523 REMARK 3 L13: 2.0174 L23: -1.3206 REMARK 3 S TENSOR REMARK 3 S11: -0.0867 S12: 0.1123 S13: -0.0144 REMARK 3 S21: 0.2409 S22: 0.1061 S23: 0.0179 REMARK 3 S31: 0.1711 S32: -0.1802 S33: -0.0194 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3CJS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1000046861. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9797 REMARK 200 MONOCHROMATOR : KOHZU DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR WITH A WATER- REMARK 200 COOLED FLAT FIRST CRYSTAL AND A REMARK 200 SAGITTALLY FOCUSED SECOND REMARK 200 CRYSTAL POSITIONED FOR A FIXED REMARK 200 EXIT BEAM CONDITION. LOCATED ~18 REMARK 200 M FROM SOURCE AND ~6 M FROM REMARK 200 SAMPLE POSITION. REMARK 200 OPTICS : VARIABLE VERTICAL AND FIXED REMARK 200 HORIZONTAL SLITS. KOHZU DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR WITH A REMARK 200 WATER-COOLED FLAT FIRST CRYSTAL REMARK 200 AND A SAGITTALLY FOCUSED SECOND REMARK 200 CRYSTAL POSITIONED FOR A FIXED REMARK 200 EXIT BEAM CONDITION. LOCATED ~18 REMARK 200 M FROM SOURCE AND ~6 M FROM REMARK 200 SAMPLE POSITION. MIRROR SYSTEM REMARK 200 CONSISTING OF TWO VERTICALLY REMARK 200 STACKED, FUSED SILICA, SPHERICAL REMARK 200 MIRRORS, TO PROVIDE VERTICAL REMARK 200 FOCUSING AND HARMONIC REJECTION. REMARK 200 ONE OF THE MIRRORS IS RHODIUM REMARK 200 COATED AND THE OTHER IS REMARK 200 UNCOATED. LOCATED ~19.7 M FROM REMARK 200 SOURCE. REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37200 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.37 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.38600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 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 ENTRIES 2NXC, 2NXN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% W/V PEG3350, PH 8.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 51.60550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 16.97400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.60550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 16.97400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 1510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.7 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 350 REMARK 350 BIOMOLECULE: 2 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: C 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 ASP A 58 REMARK 465 MET C 1 REMARK 465 LYS C 2 REMARK 465 THR C 71 REMARK 465 PRO C 72 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 57 CB CG CD OE1 OE2 REMARK 470 PRO B 72 CG CD REMARK 470 LYS C 3 CB CG CD CE NZ REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 11 CD REMARK 480 GLU A 32 CG CD OE1 OE2 REMARK 480 MET B 35 CE REMARK 480 LYS B 39 CE NZ REMARK 480 ARG B 63 NH2 REMARK 480 LYS C 9 CE NZ REMARK 480 GLN C 11 NE2 REMARK 480 LYS C 16 CD CE NZ REMARK 480 MET C 35 CE REMARK 480 LYS C 39 CD CE NZ REMARK 480 ARG C 63 NH2 REMARK 480 THR C 69 OG1 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 A 67 O HOH A 128 1.90 REMARK 500 NH2 ARG B 63 O HOH B 157 1.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 87 O HOH B 99 1545 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 32 CB GLU A 32 CG 0.122 REMARK 500 MET B 35 SD MET B 35 CE -0.350 REMARK 500 ARG C 63 CZ ARG C 63 NH2 -0.080 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 GLU A 32 CA - CB - CG ANGL. DEV. = -13.5 DEGREES REMARK 500 MET B 35 CG - SD - CE ANGL. DEV. = 11.6 DEGREES REMARK 500 ARG B 63 NH1 - CZ - NH2 ANGL. DEV. = -14.8 DEGREES REMARK 500 ARG B 63 NE - CZ - NH2 ANGL. DEV. = 14.2 DEGREES REMARK 500 PRO B 72 N - CA - CB ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG C 63 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 THR C 69 CA - CB - OG1 ANGL. DEV. = 15.1 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 GLU A 32 69.78 36.58 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 EDO B 73 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 74 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 75 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2NXC RELATED DB: PDB REMARK 900 APO-FORM OF T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE REMARK 900 (PRMA) REMARK 900 RELATED ID: 2NXE RELATED DB: PDB REMARK 900 T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN REMARK 900 COMPLEX WITH S-ADENOSYL-L-METHIONINE REMARK 900 RELATED ID: 2NXJ RELATED DB: PDB REMARK 900 T.THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN REMARK 900 SPACE GROUP P 21 21 2 REMARK 900 RELATED ID: 2NXN RELATED DB: PDB REMARK 900 T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN REMARK 900 COMPLEX WITH RIBOSOMAL PROTEIN L11 REMARK 900 RELATED ID: 1UFK RELATED DB: PDB REMARK 900 APO-FORM OF T. THERMOPHILUS RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE REMARK 900 (PRMA)AT 1.9 A RESOLUTION REMARK 900 RELATED ID: 3CJQ RELATED DB: PDB REMARK 900 RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH REMARK 900 DIMETHYLATED RIBOSOMAL PROTEIN L11 IN SPACE GROUP P212121 REMARK 900 RELATED ID: 3CJR RELATED DB: PDB REMARK 900 RIBOSOMAL PROTEIN L11 METHYLTRANSFERASE (PRMA) IN COMPLEX WITH REMARK 900 RIBOSOMAL PROTEIN L11 (K39A) AND INHIBITOR SINEFUNGIN. REMARK 900 RELATED ID: 3CJT RELATED DB: PDB REMARK 900 RELATED ID: 3CJU RELATED DB: PDB DBREF 3CJS A 1 59 UNP Q84BQ9 PRMA_THET8 1 59 DBREF 3CJS B 1 72 UNP P36238 RL11_THETH 1 72 DBREF 3CJS C 1 72 UNP P36238 RL11_THETH 1 72 SEQRES 1 A 59 MET TRP VAL TYR ARG LEU LYS GLY THR LEU GLU ALA LEU SEQRES 2 A 59 ASP PRO ILE LEU PRO GLY LEU PHE ASP GLY GLY ALA ARG SEQRES 3 A 59 GLY LEU TRP GLU ARG GLU GLY GLU VAL TRP ALA PHE PHE SEQRES 4 A 59 PRO ALA PRO VAL ASP LEU PRO TYR GLU GLY VAL TRP GLU SEQRES 5 A 59 GLU VAL GLY ASP GLU ASP TRP SEQRES 1 B 72 MET LYS LYS VAL VAL ALA VAL VAL LYS LEU GLN LEU PRO SEQRES 2 B 72 ALA GLY LYS ALA THR PRO ALA PRO PRO VAL GLY PRO ALA SEQRES 3 B 72 LEU GLY GLN HIS GLY ALA ASN ILE MET GLU PHE VAL LYS SEQRES 4 B 72 ALA PHE ASN ALA ALA THR ALA ASN MET GLY ASP ALA ILE SEQRES 5 B 72 VAL PRO VAL GLU ILE THR ILE TYR ALA ASP ARG SER PHE SEQRES 6 B 72 THR PHE VAL THR LYS THR PRO SEQRES 1 C 72 MET LYS LYS VAL VAL ALA VAL VAL LYS LEU GLN LEU PRO SEQRES 2 C 72 ALA GLY LYS ALA THR PRO ALA PRO PRO VAL GLY PRO ALA SEQRES 3 C 72 LEU GLY GLN HIS GLY ALA ASN ILE MET GLU PHE VAL LYS SEQRES 4 C 72 ALA PHE ASN ALA ALA THR ALA ASN MET GLY ASP ALA ILE SEQRES 5 C 72 VAL PRO VAL GLU ILE THR ILE TYR ALA ASP ARG SER PHE SEQRES 6 C 72 THR PHE VAL THR LYS THR PRO HET EDO B 73 4 HET EDO B 74 4 HET EDO B 75 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 4 EDO 3(C2 H6 O2) FORMUL 7 HOH *255(H2 O) HELIX 1 1 LEU A 13 PRO A 15 5 3 HELIX 2 2 ILE A 16 GLY A 23 1 8 HELIX 3 3 PRO B 22 GLN B 29 1 8 HELIX 4 4 ASN B 33 ALA B 46 1 14 HELIX 5 5 ASN B 47 GLY B 49 5 3 HELIX 6 6 PRO C 22 GLN C 29 1 8 HELIX 7 7 ASN C 33 ALA C 46 1 14 SHEET 1 A 7 VAL A 50 GLU A 53 0 SHEET 2 A 7 TRP A 2 LYS A 7 -1 N VAL A 3 O GLU A 52 SHEET 3 A 7 GLU A 34 PHE A 39 -1 O PHE A 39 N TRP A 2 SHEET 4 A 7 GLY A 27 ARG A 31 -1 N TRP A 29 O TRP A 36 SHEET 5 A 7 VAL B 4 PRO B 13 -1 O LYS B 9 N GLU A 30 SHEET 6 A 7 ILE B 52 TYR B 60 -1 O VAL B 53 N LEU B 12 SHEET 7 A 7 PHE B 65 THR B 69 -1 O THR B 66 N THR B 58 SHEET 1 B 3 VAL C 4 PRO C 13 0 SHEET 2 B 3 ILE C 52 TYR C 60 -1 O ILE C 57 N VAL C 8 SHEET 3 B 3 PHE C 65 THR C 69 -1 O THR C 66 N THR C 58 CISPEP 1 MET B 1 LYS B 2 0 9.59 CISPEP 2 PRO B 21 PRO B 22 0 7.51 CISPEP 3 THR B 71 PRO B 72 0 4.04 CISPEP 4 PRO C 21 PRO C 22 0 6.10 SITE 1 AC1 6 LYS B 2 LYS B 3 THR B 58 TYR B 60 SITE 2 AC1 6 THR B 66 HOH B 77 SITE 1 AC2 7 ARG A 26 HOH A 110 ALA B 17 THR B 18 SITE 2 AC2 7 ALA B 20 PRO B 21 HOH B 101 SITE 1 AC3 6 TRP A 2 ALA A 41 GLU A 53 HOH A 69 SITE 2 AC3 6 GLU B 36 ALA B 40 CRYST1 103.211 33.948 71.090 90.00 131.76 90.00 C 1 2 1 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 0.009689 0.000000 0.008651 0.00000 SCALE2 0.000000 0.029457 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018858 0.00000