HEADER TRANSFERASE 03-JUN-09 2WK1 TITLE STRUCTURE OF THE O-METHYLTRANSFERASE NOVP CAVEAT 2WK1 THR A 46 CBETA WRONG HAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: NOVP; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: O-METHYLTRANSFERASE NOVP; COMPND 5 EC: 2.1.1.-; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: DISULPHIDE BRIDGE BETWEEN CYS228 AND CYS231 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES CAERULEUS; SOURCE 3 ORGANISM_COMMON: STREPTOMYCES SPHEROIDES; SOURCE 4 ORGANISM_TAXID: 195949; SOURCE 5 ATCC: NCIB 11891; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS TRANSFERASE, NOVP, O-METHYLTRANSFERASE, NOVOBIOCIN, TYLF SUPERFAMILY EXPDTA X-RAY DIFFRACTION AUTHOR I.GOMEZ GARCIA,C.E.M.STEVENSON,I.USON,C.L.FREEL MEYERS,C.T.WALSH, AUTHOR 2 D.M.LAWSON REVDAT 3 13-DEC-23 2WK1 1 REMARK REVDAT 2 06-JUL-11 2WK1 1 JRNL REMARK HETSYN FORMUL REVDAT 1 15-DEC-09 2WK1 0 JRNL AUTH I.GOMEZ GARCIA,C.E.M.STEVENSON,I.USON,C.L.FREEL MEYERS, JRNL AUTH 2 C.T.WALSH,D.M.LAWSON JRNL TITL THE CRYSTAL STRUCTURE OF THE NOVOBIOCIN BIOSYNTHETIC ENZYME JRNL TITL 2 NOVP: THE FIRST REPRESENTATIVE STRUCTURE FOR THE TYLF JRNL TITL 3 O-METHYLTRANSFERASE SUPERFAMILY. JRNL REF J.MOL.BIOL. V. 395 390 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 19857499 JRNL DOI 10.1016/J.JMB.2009.10.045 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.E.M.STEVENSON,C.L.FREEL MEYERS,C.T.WALSH,D.M.LAWSON REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF THE REMARK 1 TITL 2 O-METHYLTRANSFERASE NOVP FROM THE NOVOBIOCIN-BIOSYNTHETIC REMARK 1 TITL 3 CLUSTER OF STREPTOMYCES SPHEROIDES. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 63 236 2007 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 17329822 REMARK 1 DOI 10.1107/S1744309107008287 REMARK 1 REFERENCE 2 REMARK 1 AUTH I.USON,C.E.M.STEVENSON,D.M.LAWSON,G.M.SHELDRICK REMARK 1 TITL STRUCTURE DETERMINATION OF THE O-METHYLTRANSFERASE NOVP REMARK 1 TITL 2 USING THE 'FREE LUNCH ALGORITHM' AS IMPLEMENTED IN SHELXE. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 63 1069 2007 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 17881824 REMARK 1 DOI 10.1107/S0907444907042230 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 54636 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.163 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 2795 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.43 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3485 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.3950 REMARK 3 BIN FREE R VALUE SET COUNT : 188 REMARK 3 BIN FREE R VALUE : 0.4350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1934 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 242 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.22300 REMARK 3 B22 (A**2) : 0.13200 REMARK 3 B33 (A**2) : -0.35800 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.00500 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.055 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.048 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.024 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.321 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.973 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1986 ; 0.013 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2698 ; 1.540 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 240 ; 5.830 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 99 ;33.793 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 309 ;11.551 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;16.041 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 289 ; 0.259 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2254 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 477 ; 0.394 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 958 ; 0.187 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 153 ; 0.157 ; 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): 24 ; 0.635 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 69 ; 0.497 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.294 ; 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): 1199 ; 1.391 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 492 ; 0.585 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1924 ; 2.301 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 787 ; 3.447 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 774 ; 5.041 ; 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): 3315 ; 1.490 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 328 ; 5.508 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3302 ; 3.446 ; 3.000 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 BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. DATA WERE COLLECTED TO A MAXIMUM RESOLUTION OF 1.35 REMARK 3 ANGSTROM, BUT WERE NOT VERY COMPLETE IN THE OUTER RESOLUTION REMARK 3 SHELL, SO ONLY THE DATA TO 1.4 ANGSTROM RESOLUTION WERE USED FOR REMARK 3 THE REFINEMENT. HOWEVER, THE STRUCTURE WAS SOLVED USING ALL REMARK 3 AVAILABLE NATIVE DATA INCLUDING THREE OTHER NATIVE DATA SETS REMARK 3 COLLECTED AT LOWER RESOLUTIONS. THIS MERGED NATIVE DATA SET HAS REMARK 3 ALSO BEEN DEPOSITED. SEE REFERENCE 2 (USON ET AL., 2007) FOR REMARK 3 FURTHER DETAILS. REMARK 4 REMARK 4 2WK1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1290040037. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX10.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.488 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54638 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 36.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.16000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1VID REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 M AMMONIUM SULPHATE, 100 MM HEPES REMARK 280 BUFFER PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 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 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 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: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.2 KCAL/MOL 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 -15.81394 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 59.14227 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 PRO A 3 REMARK 465 ILE A 4 REMARK 465 VAL A 5 REMARK 465 GLU A 6 REMARK 465 THR A 7 REMARK 465 ALA A 8 REMARK 465 LYS A 9 REMARK 465 GLU A 10 REMARK 465 THR A 11 REMARK 465 ASN A 12 REMARK 465 SER A 13 REMARK 465 ASN A 39 REMARK 465 PHE A 40 REMARK 465 SER A 41 REMARK 465 HIS A 42 REMARK 465 ARG A 43 REMARK 465 ASP A 44 REMARK 465 SER A 45 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 ASP A 14 CG OD1 OD2 REMARK 470 ARG A 159 CD NE CZ NH1 NH2 REMARK 470 LYS A 241 CD CE NZ REMARK 470 ARG A 262 CG CD NE CZ NH1 NH2 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 OG SER A 16 O HOH A 2001 1.92 REMARK 500 O1 SO4 A 451 O HOH A 2241 2.14 REMARK 500 O HOH A 2022 O HOH A 2147 2.18 REMARK 500 NH2 ARG A 158 O HOH A 2159 2.18 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 C2 EDO A 501 C2 EDO A 501 2656 1.54 REMARK 500 O1 EDO A 501 C2 EDO A 501 2656 1.94 REMARK 500 C1 EDO A 501 C2 EDO A 501 2656 2.02 REMARK 500 O HOH A 2040 O HOH A 2212 2555 2.04 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 MET A 22 CA MET A 22 CB 0.243 REMARK 500 MET A 22 CA MET A 22 CB 0.262 REMARK 500 GLU A 155 CG GLU A 155 CD -0.102 REMARK 500 ASP A 165 CA ASP A 165 CB 0.316 REMARK 500 ASP A 165 CA ASP A 165 CB 0.348 REMARK 500 ASP A 165 CB ASP A 165 CG -0.160 REMARK 500 ASP A 165 CG ASP A 165 OD1 -0.154 REMARK 500 ASP A 165 CG ASP A 165 OD1 -0.150 REMARK 500 THR A 189 CA THR A 189 CB 0.568 REMARK 500 THR A 189 CA THR A 189 CB 0.539 REMARK 500 THR A 189 CB THR A 189 OG1 -0.164 REMARK 500 THR A 189 CB THR A 189 OG1 0.231 REMARK 500 THR A 189 CB THR A 189 CG2 0.279 REMARK 500 THR A 189 CB THR A 189 CG2 -0.265 REMARK 500 MET A 226 CA MET A 226 CB 0.283 REMARK 500 MET A 226 CA MET A 226 CB 0.678 REMARK 500 GLU A 237 CA GLU A 237 CB 0.265 REMARK 500 GLU A 237 CA GLU A 237 CB 0.417 REMARK 500 GLU A 237 CG GLU A 237 CD -0.118 REMARK 500 GLU A 237 CG GLU A 237 CD -0.175 REMARK 500 GLU A 237 CD GLU A 237 OE1 -0.117 REMARK 500 GLU A 237 CD GLU A 237 OE1 0.072 REMARK 500 GLU A 237 CD GLU A 237 OE2 0.074 REMARK 500 GLU A 237 CD GLU A 237 OE2 -0.083 REMARK 500 ILE A 249 CA ILE A 249 CB 0.211 REMARK 500 ILE A 249 CA ILE A 249 CB 0.209 REMARK 500 ARG A 260 CA ARG A 260 CB 0.235 REMARK 500 ARG A 260 CA ARG A 260 CB 0.257 REMARK 500 ARG A 260 CZ ARG A 260 NH2 0.187 REMARK 500 ARG A 260 CZ ARG A 260 NH2 0.097 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 ASP A 165 OD1 - CG - OD2 ANGL. DEV. = 21.3 DEGREES REMARK 500 ASP A 165 OD1 - CG - OD2 ANGL. DEV. = 19.8 DEGREES REMARK 500 ASP A 165 CB - CG - OD1 ANGL. DEV. = -29.8 DEGREES REMARK 500 ASP A 165 CB - CG - OD1 ANGL. DEV. = 8.4 DEGREES REMARK 500 ASP A 165 CB - CG - OD2 ANGL. DEV. = 8.6 DEGREES REMARK 500 ASP A 165 CB - CG - OD2 ANGL. DEV. = -28.1 DEGREES REMARK 500 THR A 189 OG1 - CB - CG2 ANGL. DEV. = -30.8 DEGREES REMARK 500 THR A 189 CA - CB - OG1 ANGL. DEV. = -15.6 DEGREES REMARK 500 THR A 189 CA - CB - OG1 ANGL. DEV. = -20.7 DEGREES REMARK 500 THR A 189 CA - CB - CG2 ANGL. DEV. = -24.0 DEGREES REMARK 500 MET A 226 CB - CA - C ANGL. DEV. = 15.3 DEGREES REMARK 500 MET A 226 CA - CB - CG ANGL. DEV. = -10.5 DEGREES REMARK 500 GLU A 237 CG - CD - OE1 ANGL. DEV. = -17.1 DEGREES REMARK 500 GLU A 237 CG - CD - OE2 ANGL. DEV. = 12.6 DEGREES REMARK 500 ARG A 260 NE - CZ - NH1 ANGL. DEV. = 13.7 DEGREES REMARK 500 ARG A 260 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 260 NE - CZ - NH2 ANGL. DEV. = -9.9 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 TRP A 96 -124.19 50.77 REMARK 500 ASP A 196 56.10 -150.00 REMARK 500 ASP A 198 -19.57 67.04 REMARK 500 ASP A 252 -139.92 -147.68 REMARK 500 ASP A 254 -52.81 -131.75 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 451 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 551 DBREF 2WK1 A -19 0 PDB 2WK1 2WK1 -19 0 DBREF 2WK1 A 1 262 UNP Q9L9F2 Q9L9F2_STRSH 1 262 SEQRES 1 A 282 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 282 LEU VAL PRO ARG GLY SER HIS MET ALA PRO ILE VAL GLU SEQRES 3 A 282 THR ALA LYS GLU THR ASN SER ASP SER SER LEU TYR LEU SEQRES 4 A 282 ASP LEU MET ILE LYS VAL LEU ALA GLY THR VAL TYR GLU SEQRES 5 A 282 ASP PRO ALA HIS ARG GLU ASN PHE SER HIS ARG ASP SER SEQRES 6 A 282 THR TYR ARG GLU GLU VAL ARG ASN GLU GLY ARG ASP TRP SEQRES 7 A 282 PRO ALA ASN ALA HIS THR MET ILE GLY ILE LYS ARG LEU SEQRES 8 A 282 GLU ASN ILE ARG GLN CYS VAL GLU ASP VAL ILE GLY ASN SEQRES 9 A 282 ASN VAL PRO GLY ASP LEU VAL GLU THR GLY VAL TRP ARG SEQRES 10 A 282 GLY GLY ALA CYS ILE LEU MET ARG GLY ILE LEU ARG ALA SEQRES 11 A 282 HIS ASP VAL ARG ASP ARG THR VAL TRP VAL ALA ASP SER SEQRES 12 A 282 PHE GLN GLY ILE PRO ASP VAL GLY GLU ASP GLY TYR ALA SEQRES 13 A 282 GLY ASP ARG LYS MET ALA LEU HIS ARG ARG ASN SER VAL SEQRES 14 A 282 LEU ALA VAL SER GLU GLU GLU VAL ARG ARG ASN PHE ARG SEQRES 15 A 282 ASN TYR ASP LEU LEU ASP GLU GLN VAL ARG PHE LEU PRO SEQRES 16 A 282 GLY TRP PHE LYS ASP THR LEU PRO THR ALA PRO ILE ASP SEQRES 17 A 282 THR LEU ALA VAL LEU ARG MET ASP GLY ASP LEU TYR GLU SEQRES 18 A 282 SER THR TRP ASP THR LEU THR ASN LEU TYR PRO LYS VAL SEQRES 19 A 282 SER VAL GLY GLY TYR VAL ILE VAL ASP ASP TYR MET MET SEQRES 20 A 282 CYS PRO PRO CYS LYS ASP ALA VAL ASP GLU TYR ARG ALA SEQRES 21 A 282 LYS PHE ASP ILE ALA ASP GLU LEU ILE THR ILE ASP ARG SEQRES 22 A 282 ASP GLY VAL TYR TRP GLN ARG THR ARG HET SAH A 301 26 HET SO4 A 401 5 HET SO4 A 451 5 HET EDO A 501 4 HET EDO A 551 4 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 SAH C14 H20 N6 O5 S FORMUL 3 SO4 2(O4 S 2-) FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 HOH *242(H2 O) HELIX 1 1 ASP A 14 ALA A 27 1 14 HELIX 2 2 ARG A 48 GLU A 54 1 7 HELIX 3 3 ILE A 66 ASN A 84 1 19 HELIX 4 4 GLY A 98 HIS A 111 1 14 HELIX 5 5 TYR A 135 ALA A 142 1 8 HELIX 6 6 LEU A 143 ARG A 145 5 3 HELIX 7 7 ARG A 146 ALA A 151 1 6 HELIX 8 8 SER A 153 TYR A 164 1 12 HELIX 9 9 TRP A 177 LEU A 182 1 6 HELIX 10 10 LEU A 199 TYR A 211 1 13 HELIX 11 11 CYS A 228 PHE A 242 1 15 SHEET 1 AA 7 VAL A 171 PRO A 175 0 SHEET 2 AA 7 VAL A 118 ASP A 122 1 O VAL A 118 N ARG A 172 SHEET 3 AA 7 ASP A 89 THR A 93 1 O LEU A 90 N TRP A 119 SHEET 4 AA 7 LEU A 190 MET A 195 1 N ALA A 191 O ASP A 89 SHEET 5 AA 7 VAL A 214 VAL A 222 1 N SER A 215 O LEU A 190 SHEET 6 AA 7 VAL A 256 GLN A 259 -1 O VAL A 256 N VAL A 222 SHEET 7 AA 7 ILE A 249 THR A 250 -1 O ILE A 249 N TYR A 257 SSBOND 1 CYS A 228 CYS A 231 1555 1555 2.17 SITE 1 AC1 21 THR A 64 MET A 65 ILE A 66 GLU A 92 SITE 2 AC1 21 GLY A 94 VAL A 95 TRP A 96 ALA A 100 SITE 3 AC1 21 ASP A 122 SER A 123 GLY A 126 PRO A 128 SITE 4 AC1 21 LEU A 150 GLY A 176 TRP A 177 PHE A 178 SITE 5 AC1 21 ASP A 196 GLY A 197 ASP A 198 SER A 202 SITE 6 AC1 21 HOH A2178 SITE 1 AC2 8 PRO A 87 HIS A 144 ARG A 145 HOH A2201 SITE 2 AC2 8 HOH A2202 HOH A2238 HOH A2239 HOH A2240 SITE 1 AC3 4 ARG A 56 ARG A 253 HOH A2241 HOH A2242 SITE 1 AC4 8 MET A 195 ASP A 196 GLY A 197 THR A 203 SITE 2 AC4 8 ASP A 223 ASP A 224 HOH A2098 HOH A2188 CRYST1 51.813 46.038 61.220 90.00 104.97 90.00 P 1 2 1 2 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 0.019300 0.000000 0.005161 0.00000 SCALE2 0.000000 0.021721 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016908 0.00000