HEADER TRANSFERASE 15-MAY-07 2PY6 TITLE CRYSTAL STRUCTURE OF METHYLTRANSFERASE FKBM (YP_546752.1) FROM TITLE 2 METHYLOBACILLUS FLAGELLATUS KT AT 2.20 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHYLTRANSFERASE FKBM; COMPND 3 CHAIN: A; COMPND 4 EC: 2.1.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHYLOBACILLUS FLAGELLATUS KT; SOURCE 3 ORGANISM_TAXID: 265072; SOURCE 4 STRAIN: KT, DSM 6875; SOURCE 5 ATCC: 51484; SOURCE 6 GENE: YP_546752.1, MFLA_2648; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS YP_546752.1, METHYLTRANSFERASE FKBM, STRUCTURAL GENOMICS, JOINT KEYWDS 2 CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 PSI-2, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 7 25-JAN-23 2PY6 1 REMARK SEQADV REVDAT 6 24-JUL-19 2PY6 1 REMARK LINK REVDAT 5 25-OCT-17 2PY6 1 REMARK REVDAT 4 18-OCT-17 2PY6 1 REMARK REVDAT 3 13-JUL-11 2PY6 1 VERSN REVDAT 2 24-FEB-09 2PY6 1 VERSN REVDAT 1 29-MAY-07 2PY6 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF METHYLTRANSFERASE FKBM (YP_546752.1) JRNL TITL 2 FROM METHYLOBACILLUS FLAGELLATUS KT AT 2.20 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 29425 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1494 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2021 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.1990 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2956 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 379 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 24.43 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.07000 REMARK 3 B22 (A**2) : 0.63000 REMARK 3 B33 (A**2) : -0.70000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.176 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.171 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.375 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3070 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2805 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4165 ; 1.747 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6455 ; 1.065 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 377 ; 4.065 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;29.330 ;22.819 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 479 ;11.007 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;16.555 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 462 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3451 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 670 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 612 ; 0.194 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2966 ; 0.174 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1491 ; 0.179 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): 1740 ; 0.085 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 422 ; 0.227 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.001 ; 0.500 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): 21 ; 0.150 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 103 ; 0.265 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.206 ; 0.500 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): 2061 ; 2.130 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 763 ; 0.523 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3032 ; 2.946 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1294 ; 4.971 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1133 ; 6.114 ;11.000 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 15 A 75 REMARK 3 ORIGIN FOR THE GROUP (A): 23.6320 23.7540 47.1660 REMARK 3 T TENSOR REMARK 3 T11: -0.0370 T22: -0.0993 REMARK 3 T33: -0.1604 T12: -0.0391 REMARK 3 T13: 0.0435 T23: 0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.8776 L22: 4.2059 REMARK 3 L33: 0.4654 L12: -0.0910 REMARK 3 L13: 0.5151 L23: -0.8245 REMARK 3 S TENSOR REMARK 3 S11: 0.0016 S12: 0.0686 S13: -0.0515 REMARK 3 S21: -0.2514 S22: 0.0187 S23: -0.2826 REMARK 3 S31: 0.1039 S32: 0.1170 S33: -0.0203 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 : A 76 A 165 REMARK 3 ORIGIN FOR THE GROUP (A): 21.6060 12.7560 51.3080 REMARK 3 T TENSOR REMARK 3 T11: -0.1373 T22: -0.1424 REMARK 3 T33: -0.1124 T12: -0.0231 REMARK 3 T13: 0.0315 T23: -0.0097 REMARK 3 L TENSOR REMARK 3 L11: 0.4743 L22: 2.0981 REMARK 3 L33: 1.6437 L12: -0.6793 REMARK 3 L13: 0.4313 L23: -0.4988 REMARK 3 S TENSOR REMARK 3 S11: 0.0629 S12: 0.0278 S13: -0.0544 REMARK 3 S21: -0.0575 S22: 0.0070 S23: -0.0880 REMARK 3 S31: 0.1962 S32: 0.0731 S33: -0.0699 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 : A 166 A 408 REMARK 3 ORIGIN FOR THE GROUP (A): -7.3170 29.1160 44.5560 REMARK 3 T TENSOR REMARK 3 T11: -0.1024 T22: -0.1539 REMARK 3 T33: -0.1754 T12: 0.0164 REMARK 3 T13: -0.0210 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 0.5781 L22: 0.5154 REMARK 3 L33: 0.6191 L12: 0.0165 REMARK 3 L13: 0.0839 L23: 0.1036 REMARK 3 S TENSOR REMARK 3 S11: -0.0192 S12: 0.0408 S13: 0.0140 REMARK 3 S21: -0.1563 S22: -0.0200 S23: 0.0800 REMARK 3 S31: -0.0209 S32: -0.0289 S33: 0.0392 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL REMARK 3 S-MET INCORPORATION. REMARK 3 4. CHLORIDE ION, ETHYLENE GLYCOL, POLYETHYLENE GLYCOL-3350 (PEG) REMARK 3 AND ONE UNKNOWN LIGAND (UNL) ARE MODELED IN THE STRUCTURE. THE REMARK 3 UNKNOWN LIGAND IS CLOSE TO RESIDUES 259 AND 342. REMARK 3 5. RESIDUES 1-13 AND 300-319 ARE DISORDERED AND NOT MODELED IN REMARK 3 THE STRUCTURE. REMARK 3 6. THERE IS A RAMACHANDRAN VIOLATION ON RESIUDE 112 WITH CLEAR REMARK 3 DENSITY SUPPORT. REMARK 4 REMARK 4 2PY6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042913. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837, 0.97926, 0.97891 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 (HORIZONTAL FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29426 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 29.788 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 3.240 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.6900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NANODROP, 0.214M AMMONIUM NITRATE, REMARK 280 14.0% PEG 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 36.83000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.58500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 61.29000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 36.83000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.58500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 61.29000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 36.83000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 59.58500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 61.29000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 36.83000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 59.58500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 61.29000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN. SEE REMARK 350 FOR INFORMATION REMARK 300 ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 300 SIZE EXCLUSION CHROMATOGRAPHY WITH STATIC LIGHT SCATTERING REMARK 300 SUPPORTS THE ASSIGNMENT OF A TETRAMER AS THE SIGNIFICANT REMARK 300 OLIGOMERIZATION STATE. 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 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 122.58000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 122.58000 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 GLY A 0 REMARK 465 MSE A 1 REMARK 465 THR A 2 REMARK 465 GLN A 3 REMARK 465 GLN A 4 REMARK 465 THR A 5 REMARK 465 ASP A 6 REMARK 465 LEU A 7 REMARK 465 GLN A 8 REMARK 465 SER A 9 REMARK 465 LYS A 10 REMARK 465 THR A 11 REMARK 465 ASN A 12 REMARK 465 ILE A 13 REMARK 465 ASN A 300 REMARK 465 HIS A 301 REMARK 465 GLU A 302 REMARK 465 GLY A 303 REMARK 465 GLY A 304 REMARK 465 HIS A 305 REMARK 465 GLY A 306 REMARK 465 GLY A 307 REMARK 465 PHE A 308 REMARK 465 VAL A 309 REMARK 465 LYS A 310 REMARK 465 PRO A 311 REMARK 465 ALA A 312 REMARK 465 ASP A 313 REMARK 465 ALA A 314 REMARK 465 ASP A 315 REMARK 465 HIS A 316 REMARK 465 GLU A 317 REMARK 465 PRO A 318 REMARK 465 ALA A 319 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 ARG A 53 NE CZ NH1 NH2 REMARK 470 LYS A 60 CD CE NZ REMARK 470 ARG A 70 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 72 CG CD OE1 OE2 REMARK 470 GLU A 105 CG CD OE1 OE2 REMARK 470 ARG A 158 CD NE CZ NH1 NH2 REMARK 470 LYS A 250 CE NZ REMARK 470 ARG A 261 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 320 CG OD1 OD2 REMARK 470 GLU A 343 CG CD OE1 OE2 REMARK 470 ARG A 371 NE CZ NH1 NH2 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 MSE A 256 SE MSE A 256 CE -0.448 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 111 N - CA - C ANGL. DEV. = 16.8 DEGREES REMARK 500 ARG A 217 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 217 NE - CZ - NH2 ANGL. DEV. = -3.2 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 17 42.32 -141.53 REMARK 500 HIS A 71 170.15 74.81 REMARK 500 ASP A 82 103.93 -160.70 REMARK 500 ASP A 112 -26.48 105.00 REMARK 500 ASP A 112 -26.42 105.00 REMARK 500 TYR A 215 -46.97 75.80 REMARK 500 SER A 235 -103.09 45.43 REMARK 500 ARG A 386 78.30 -151.77 REMARK 500 ASP A 399 -158.78 -121.71 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 CL A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 415 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 368630 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV REMARK 999 PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE REMARK 999 TARGET SEQUENCE. DBREF 2PY6 A 1 408 UNP Q1GXX6 Q1GXX6_METFK 1 408 SEQADV 2PY6 GLY A 0 UNP Q1GXX6 EXPRESSION TAG SEQADV 2PY6 MSE A 1 UNP Q1GXX6 MET 1 MODIFIED RESIDUE SEQADV 2PY6 MSE A 18 UNP Q1GXX6 MET 18 MODIFIED RESIDUE SEQADV 2PY6 MSE A 34 UNP Q1GXX6 MET 34 MODIFIED RESIDUE SEQADV 2PY6 MSE A 67 UNP Q1GXX6 MET 67 MODIFIED RESIDUE SEQADV 2PY6 MSE A 229 UNP Q1GXX6 MET 229 MODIFIED RESIDUE SEQADV 2PY6 MSE A 256 UNP Q1GXX6 MET 256 MODIFIED RESIDUE SEQADV 2PY6 MSE A 340 UNP Q1GXX6 MET 340 MODIFIED RESIDUE SEQRES 1 A 409 GLY MSE THR GLN GLN THR ASP LEU GLN SER LYS THR ASN SEQRES 2 A 409 ILE ASP PRO LEU ALA MSE ASN ASP SER PHE LEU ALA ALA SEQRES 3 A 409 ALA ASP ALA LEU ALA VAL ASP PRO MSE PHE GLY ILE PRO SEQRES 4 A 409 ALA ASN VAL ARG GLU VAL ILE ALA ARG ARG GLY ASN ALA SEQRES 5 A 409 THR ARG LEU VAL ILE LEU GLY THR LYS GLY PHE GLY ALA SEQRES 6 A 409 HIS LEU MSE ASN VAL ARG HIS GLU ARG PRO CYS GLU VAL SEQRES 7 A 409 ILE ALA ALA VAL ASP ASP PHE ARG TYR HIS SER GLY GLU SEQRES 8 A 409 LEU TYR TYR GLY LEU PRO ILE ILE SER THR ASP ARG PHE SEQRES 9 A 409 THR GLU LEU ALA THR HIS ASP ARG ASP LEU VAL ALA LEU SEQRES 10 A 409 ASN THR CYS ARG TYR ASP GLY PRO LYS ARG PHE PHE ASP SEQRES 11 A 409 GLN ILE CYS ARG THR HIS GLY ILE PRO HIS LEU ASN PHE SEQRES 12 A 409 GLU GLN ALA VAL ARG ALA PHE GLY LEU GLN GLY ASN VAL SEQRES 13 A 409 ASP TYR ARG VAL ASP ASP TRP GLY ALA ASP ILE VAL ARG SEQRES 14 A 409 ASN ILE PRO ALA PHE GLN THR LEU ALA GLN ARG LEU ALA SEQRES 15 A 409 ASP ASP TYR SER VAL GLN THR LEU TYR ALA VAL LEU ASN SEQRES 16 A 409 PHE HIS LEU THR CYS GLU PRO GLU TYR TYR HIS GLU VAL SEQRES 17 A 409 GLU ARG PRO TYR SER THR LEU TYR PHE ARG SER GLY LEU SEQRES 18 A 409 LEU ARG PHE SER ASP SER GLU LYS MSE VAL ASP CYS GLY SEQRES 19 A 409 ALA SER ILE GLY GLU SER LEU ALA GLY LEU ILE GLY VAL SEQRES 20 A 409 THR LYS GLY LYS PHE GLU ARG VAL TRP MSE ILE GLU PRO SEQRES 21 A 409 ASP ARG ILE ASN LEU GLN THR LEU GLN ASN VAL LEU ARG SEQRES 22 A 409 ARG TYR THR ASP THR ASN PHE ALA SER ARG ILE THR VAL SEQRES 23 A 409 HIS GLY CYS GLY ALA GLY GLU ASN THR ILE ARG VAL PRO SEQRES 24 A 409 PHE ASN HIS GLU GLY GLY HIS GLY GLY PHE VAL LYS PRO SEQRES 25 A 409 ALA ASP ALA ASP HIS GLU PRO ALA ASP LEU ILE ASP VAL SEQRES 26 A 409 ARG PRO ILE ASP ASP ILE ILE ASP ASP ALA PRO THR PHE SEQRES 27 A 409 ILE LYS MSE ASP ILE GLU GLY SER GLU LEU SER ALA LEU SEQRES 28 A 409 LYS GLY ALA ARG ARG ALA ILE SER GLU HIS LYS PRO LYS SEQRES 29 A 409 LEU ALA ILE SER ALA TYR HIS ARG SER THR ASP LEU LEU SEQRES 30 A 409 ASP LEU THR ASN TYR ILE LEU SER ILE ARG PRO ASP TYR SEQRES 31 A 409 GLN ILE GLY LEU ARG HIS HIS THR PRO ASP ARG TRP ASP SEQRES 32 A 409 THR CYS LEU TYR PHE TYR MODRES 2PY6 MSE A 18 MET SELENOMETHIONINE MODRES 2PY6 MSE A 34 MET SELENOMETHIONINE MODRES 2PY6 MSE A 67 MET SELENOMETHIONINE MODRES 2PY6 MSE A 229 MET SELENOMETHIONINE MODRES 2PY6 MSE A 256 MET SELENOMETHIONINE MODRES 2PY6 MSE A 340 MET SELENOMETHIONINE HET MSE A 18 8 HET MSE A 34 8 HET MSE A 67 8 HET MSE A 229 8 HET MSE A 256 8 HET MSE A 340 8 HET CL A 409 1 HET EDO A 410 4 HET EDO A 411 4 HET EDO A 412 4 HET EDO A 413 4 HET UNL A 414 7 HET PEG A 415 7 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM UNL UNKNOWN LIGAND HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 CL CL 1- FORMUL 3 EDO 4(C2 H6 O2) FORMUL 8 PEG C4 H10 O3 FORMUL 9 HOH *379(H2 O) HELIX 1 1 ASP A 14 LEU A 16 5 3 HELIX 2 2 ALA A 17 ASP A 32 1 16 HELIX 3 3 PRO A 38 GLY A 49 1 12 HELIX 4 4 PHE A 62 ASN A 68 1 7 HELIX 5 5 SER A 99 HIS A 109 1 11 HELIX 6 6 TYR A 121 HIS A 135 1 15 HELIX 7 7 PHE A 142 PHE A 149 1 8 HELIX 8 8 ASP A 156 ASP A 160 5 5 HELIX 9 9 TRP A 162 ASN A 169 1 8 HELIX 10 10 ASN A 169 LEU A 180 1 12 HELIX 11 11 ASP A 182 CYS A 199 1 18 HELIX 12 12 PRO A 201 GLU A 208 1 8 HELIX 13 13 PRO A 210 LEU A 214 5 5 HELIX 14 14 GLY A 237 LYS A 248 1 12 HELIX 15 15 ASP A 260 TYR A 274 1 15 HELIX 16 16 PHE A 279 SER A 281 5 3 HELIX 17 17 PRO A 326 ILE A 331 1 6 HELIX 18 18 SER A 345 GLY A 352 1 8 HELIX 19 19 ALA A 353 LYS A 361 1 9 HELIX 20 20 THR A 373 ARG A 386 1 14 SHEET 1 A 6 LEU A 91 TYR A 92 0 SHEET 2 A 6 LEU A 95 ILE A 98 -1 O LEU A 95 N TYR A 92 SHEET 3 A 6 GLU A 76 VAL A 81 1 N ALA A 80 O ILE A 98 SHEET 4 A 6 ARG A 53 LEU A 57 1 N LEU A 54 O ILE A 78 SHEET 5 A 6 LEU A 113 ASN A 117 1 O LEU A 116 N LEU A 57 SHEET 6 A 6 HIS A 139 ASN A 141 1 O LEU A 140 N ASN A 117 SHEET 1 B 7 ILE A 283 HIS A 286 0 SHEET 2 B 7 ARG A 253 ILE A 257 1 N MSE A 256 O THR A 284 SHEET 3 B 7 LYS A 228 CYS A 232 1 N ASP A 231 O TRP A 255 SHEET 4 B 7 PHE A 337 MSE A 340 1 O LYS A 339 N VAL A 230 SHEET 5 B 7 LYS A 363 SER A 367 1 O SER A 367 N MSE A 340 SHEET 6 B 7 THR A 403 TYR A 408 -1 O LEU A 405 N ILE A 366 SHEET 7 B 7 GLN A 390 HIS A 395 -1 N GLN A 390 O TYR A 408 SHEET 1 C 3 GLY A 289 ALA A 290 0 SHEET 2 C 3 ILE A 322 ARG A 325 1 O ASP A 323 N GLY A 289 SHEET 3 C 3 ILE A 295 VAL A 297 -1 N VAL A 297 O ILE A 322 LINK C ALA A 17 N MSE A 18 1555 1555 1.32 LINK C MSE A 18 N ASN A 19 1555 1555 1.33 LINK C PRO A 33 N MSE A 34 1555 1555 1.33 LINK C MSE A 34 N PHE A 35 1555 1555 1.34 LINK C LEU A 66 N MSE A 67 1555 1555 1.34 LINK C MSE A 67 N ASN A 68 1555 1555 1.34 LINK C LYS A 228 N MSE A 229 1555 1555 1.33 LINK C MSE A 229 N VAL A 230 1555 1555 1.34 LINK C TRP A 255 N MSE A 256 1555 1555 1.33 LINK C MSE A 256 N ILE A 257 1555 1555 1.34 LINK C LYS A 339 N MSE A 340 1555 1555 1.33 LINK C MSE A 340 N ASP A 341 1555 1555 1.34 CISPEP 1 ARG A 111 ASP A 112 0 9.19 SITE 1 AC1 3 ASN A 40 ILE A 137 HIS A 139 SITE 1 AC2 8 GLU A 143 ASP A 160 ASP A 161 TRP A 162 SITE 2 AC2 8 PHE A 195 HIS A 196 CYS A 199 ARG A 400 SITE 1 AC3 2 HIS A 286 ARG A 325 SITE 1 AC4 8 PRO A 15 LEU A 16 ALA A 17 MSE A 18 SITE 2 AC4 8 ASN A 19 VAL A 186 TYR A 190 HOH A 493 SITE 1 AC5 8 ARG A 168 THR A 294 ILE A 295 ASP A 323 SITE 2 AC5 8 VAL A 324 ARG A 325 HOH A 420 HOH A 530 SITE 1 AC6 7 GLY A 233 ILE A 257 PRO A 259 GLY A 289 SITE 2 AC6 7 ALA A 290 ILE A 342 GLY A 344 SITE 1 AC7 10 ARG A 126 ILE A 236 GLY A 237 GLU A 238 SITE 2 AC7 10 ALA A 241 VAL A 270 ARG A 273 HOH A 563 SITE 3 AC7 10 HOH A 619 HOH A 779 CRYST1 73.660 119.170 122.580 90.00 90.00 90.00 I 2 2 2 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 0.013576 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008391 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008158 0.00000