HEADER LIGASE 05-FEB-13 3ZM5 TITLE CRYSTAL STRUCTURE OF MURF LIGASE IN COMPLEX WITH CYANOTHIOPHENE TITLE 2 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLMURAMOYL-TRIPEPTIDE--D-ALANYL-D-ALANINE LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MURF LIGASE; COMPND 5 EC: 6.3.2.10; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE R6; SOURCE 3 ORGANISM_TAXID: 171101; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 668369; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: DH5[ALPHA] KEYWDS LIGASE, PEPTIDOGLYCAN SYNTHESIS, ADP-FORMING ENZYME, CELL WALL, CELL KEYWDS 2 SHAPE, CELL CYCLE, CELL DIVISON, NUCLEOTIDE-BINDING, ATP-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR M.HRAST,S.TURK,I.SOSIC,D.KNEZ,C.P.RANDALL,H.BARRETEAU,C.CONTRERAS- AUTHOR 2 MARTEL,A.DESSEN,A.J.ONEILL,D.MENGIN-LECREULX,D.BLANOT,S.GOBEC REVDAT 2 20-DEC-23 3ZM5 1 REMARK REVDAT 1 03-JUL-13 3ZM5 0 JRNL AUTH M.HRAST,S.TURK,I.SOSIC,D.KNEZ,C.P.RANDALL,H.BARRETEAU, JRNL AUTH 2 C.CONTRERAS-MARTEL,A.DESSEN,A.J.O'NEILL,D.MENGIN-LECREULX, JRNL AUTH 3 D.BLANOT,S.GOBEC JRNL TITL STRUCTURE-ACTIVITY RELATIONSHIPS OF NEW CYANOTHIOPHENE JRNL TITL 2 INHIBITORS OF THE ESSENTIAL PEPTIDOGLYCAN BIOSYNTHESIS JRNL TITL 3 ENZYME MURF. JRNL REF EUR.J.MED.CHEM. V. 66C 32 2013 JRNL REFN ISSN 0223-5234 JRNL PMID 23786712 JRNL DOI 10.1016/J.EJMECH.2013.05.013 REMARK 2 REMARK 2 RESOLUTION. 2.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 90.1 REMARK 3 NUMBER OF REFLECTIONS : 12081 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) : 0.233 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.303 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1377 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) : 2.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.02 REMARK 3 REFLECTION IN BIN (WORKING SET) : 710 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.4200 REMARK 3 BIN FREE R VALUE SET COUNT : 75 REMARK 3 BIN FREE R VALUE : 0.5030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3527 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 46 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 76.16 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 95.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.72000 REMARK 3 B22 (A**2) : 2.72000 REMARK 3 B33 (A**2) : -4.07000 REMARK 3 B12 (A**2) : 1.36000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.523 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.408 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 48.036 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3628 ; 0.009 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4914 ; 1.353 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 453 ; 5.829 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 161 ;39.629 ;25.963 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 648 ;17.997 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;14.455 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 565 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2702 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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 : 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 81 REMARK 3 ORIGIN FOR THE GROUP (A): -22.6779 24.7005 1.8772 REMARK 3 T TENSOR REMARK 3 T11: 0.5929 T22: 0.3208 REMARK 3 T33: 0.7324 T12: -0.0146 REMARK 3 T13: 0.1693 T23: 0.3086 REMARK 3 L TENSOR REMARK 3 L11: 11.6708 L22: 1.5619 REMARK 3 L33: 6.7947 L12: -2.1794 REMARK 3 L13: 0.2577 L23: 2.6492 REMARK 3 S TENSOR REMARK 3 S11: -0.0676 S12: -0.5810 S13: -1.4383 REMARK 3 S21: 0.6059 S22: 0.1227 S23: 0.0562 REMARK 3 S31: 1.5782 S32: 0.3535 S33: -0.0551 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 82 A 308 REMARK 3 ORIGIN FOR THE GROUP (A): -14.3776 50.7274 -14.7292 REMARK 3 T TENSOR REMARK 3 T11: 0.0686 T22: 0.2551 REMARK 3 T33: 0.0591 T12: -0.0803 REMARK 3 T13: 0.0067 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 2.7332 L22: 3.4069 REMARK 3 L33: 4.4449 L12: 1.0768 REMARK 3 L13: 0.3114 L23: -0.5677 REMARK 3 S TENSOR REMARK 3 S11: -0.0283 S12: -0.0049 S13: 0.2877 REMARK 3 S21: -0.0454 S22: 0.0638 S23: 0.3321 REMARK 3 S31: -0.3986 S32: -0.0835 S33: -0.0355 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 309 A 454 REMARK 3 ORIGIN FOR THE GROUP (A): -44.2839 51.0850 -1.8749 REMARK 3 T TENSOR REMARK 3 T11: 0.1536 T22: 0.3909 REMARK 3 T33: 0.1618 T12: -0.0051 REMARK 3 T13: 0.0948 T23: 0.0047 REMARK 3 L TENSOR REMARK 3 L11: 5.1900 L22: 6.2512 REMARK 3 L33: 5.1477 L12: -2.2065 REMARK 3 L13: -1.6262 L23: 0.3898 REMARK 3 S TENSOR REMARK 3 S11: 0.3059 S12: 0.7281 S13: 0.4409 REMARK 3 S21: -0.7896 S22: -0.1415 S23: -0.5313 REMARK 3 S31: -0.5284 S32: -0.1422 S33: -0.1644 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. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 3ZM5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1290055166. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13459 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.940 REMARK 200 RESOLUTION RANGE LOW (A) : 43.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 46.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.3 REMARK 200 DATA REDUNDANCY IN SHELL : 9.00 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.3.0 REMARK 200 STARTING MODEL: PDB ENTRY 2AM1 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS SODIUM CITRATE PH 5.6, 0.2 REMARK 280 M K/NA-TARTRATE AND 2.2 M (NH4)2SO4, PH 7.4 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.56000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 107.12000 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 80.34000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 133.90000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 26.78000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 53.56000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 107.12000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 133.90000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 80.34000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 26.78000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 GLU A 455 REMARK 465 ASP A 456 REMARK 465 LYS A 457 REMARK 465 ARG A 458 REMARK 465 SER A 459 REMARK 465 HIS A 460 REMARK 465 HIS A 461 REMARK 465 HIS A 462 REMARK 465 HIS A 463 REMARK 465 HIS A 464 REMARK 465 HIS A 465 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 NE2 GLN A 10 O HOH A 2003 2.10 REMARK 500 O PRO A 218 NH1 ARG A 235 2.15 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 PHE A 21 CG PHE A 21 CD2 0.100 REMARK 500 PHE A 21 CZ PHE A 21 CE2 0.121 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 14 128.01 -29.46 REMARK 500 GLU A 27 -82.16 -124.50 REMARK 500 LYS A 46 87.40 -69.20 REMARK 500 ASN A 74 40.35 34.09 REMARK 500 THR A 106 -140.84 -113.31 REMARK 500 ASN A 109 -48.51 -137.85 REMARK 500 ASN A 137 -157.10 -117.45 REMARK 500 GLU A 150 109.40 -44.29 REMARK 500 ARG A 175 68.97 32.27 REMARK 500 ALA A 187 -138.26 -84.26 REMARK 500 LEU A 189 165.55 87.95 REMARK 500 ALA A 190 -131.25 -103.44 REMARK 500 PHE A 191 21.91 -77.94 REMARK 500 PRO A 218 151.53 -49.56 REMARK 500 ARG A 308 96.44 -61.71 REMARK 500 THR A 309 93.82 -50.09 REMARK 500 GLU A 310 -155.14 -93.52 REMARK 500 LYS A 312 -152.28 -122.75 REMARK 500 ALA A 315 30.38 -85.73 REMARK 500 ASN A 316 -0.83 -140.80 REMARK 500 ASN A 326 96.39 67.79 REMARK 500 LYS A 349 -152.72 -101.56 REMARK 500 ASP A 356 129.50 -38.31 REMARK 500 ASP A 362 34.98 -87.10 REMARK 500 GLN A 363 -7.56 -143.01 REMARK 500 ALA A 391 -83.68 -3.74 REMARK 500 THR A 412 -159.87 -140.51 REMARK 500 GLN A 417 34.16 -76.62 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 IGM A 1455 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZL8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MURF LIGASE FROM THERMOTOGA MARITIMA IN REMARK 900 COMPLEX WITH ADP REMARK 900 RELATED ID: 3ZM6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MURF LIGASE IN COMPLEX WITH CYANOTHIOPHENE REMARK 900 INHIBITOR DBREF 3ZM5 A 1 457 UNP Q8DNV6 Q8DNV6_STRR6 1 457 SEQADV 3ZM5 ARG A 458 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 SER A 459 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 HIS A 460 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 HIS A 461 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 HIS A 462 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 HIS A 463 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 HIS A 464 UNP Q8DNV6 EXPRESSION TAG SEQADV 3ZM5 HIS A 465 UNP Q8DNV6 EXPRESSION TAG SEQRES 1 A 465 MET LYS LEU THR ILE HIS GLU ILE ALA GLN VAL VAL GLY SEQRES 2 A 465 ALA LYS ASN ASP ILE SER ILE PHE GLU ASP THR GLN LEU SEQRES 3 A 465 GLU LYS ALA GLU PHE ASP SER ARG LEU ILE GLY THR GLY SEQRES 4 A 465 ASP LEU PHE VAL PRO LEU LYS GLY ALA ARG ASP GLY HIS SEQRES 5 A 465 ASP PHE ILE GLU THR ALA PHE GLU ASN GLY ALA ALA VAL SEQRES 6 A 465 THR LEU SER GLU LYS GLU VAL SER ASN HIS PRO TYR ILE SEQRES 7 A 465 LEU VAL ASP ASP VAL LEU THR ALA PHE GLN SER LEU ALA SEQRES 8 A 465 SER TYR TYR LEU GLU LYS THR THR VAL ASP VAL PHE ALA SEQRES 9 A 465 VAL THR GLY SER ASN GLY LYS THR THR THR LYS ASP MET SEQRES 10 A 465 LEU ALA HIS LEU LEU SER THR ARG TYR LYS THR TYR LYS SEQRES 11 A 465 THR GLN GLY ASN TYR ASN ASN GLU ILE GLY LEU PRO TYR SEQRES 12 A 465 THR VAL LEU HIS MET PRO GLU GLY THR GLU LYS LEU VAL SEQRES 13 A 465 LEU GLU MET GLY GLN ASP HIS LEU GLY ASP ILE HIS LEU SEQRES 14 A 465 LEU SER GLU LEU ALA ARG PRO LYS THR ALA ILE VAL THR SEQRES 15 A 465 LEU VAL GLY GLU ALA HIS LEU ALA PHE PHE LYS ASP ARG SEQRES 16 A 465 SER GLU ILE ALA LYS GLY LYS MET GLN ILE ALA ASP GLY SEQRES 17 A 465 MET ALA SER GLY SER LEU LEU LEU ALA PRO ALA ASP PRO SEQRES 18 A 465 ILE VAL GLU ASP TYR LEU PRO ILE ASP LYS LYS VAL VAL SEQRES 19 A 465 ARG PHE GLY GLN GLY ALA GLU LEU GLU ILE THR ASP LEU SEQRES 20 A 465 VAL GLU ARG LYS ASP SER LEU THR PHE LYS ALA ASN PHE SEQRES 21 A 465 LEU GLU GLN ALA LEU ASP LEU PRO VAL THR GLY LYS TYR SEQRES 22 A 465 ASN ALA THR ASN ALA MET ILE ALA SER TYR VAL ALA LEU SEQRES 23 A 465 GLN GLU GLY VAL SER GLU GLU GLN ILE ARG LEU ALA PHE SEQRES 24 A 465 GLN HIS LEU GLU LEU THR ARG ASN ARG THR GLU TRP LYS SEQRES 25 A 465 LYS ALA ALA ASN GLY ALA ASP ILE LEU SER ASP VAL TYR SEQRES 26 A 465 ASN ALA ASN PRO THR ALA MET LYS LEU ILE LEU GLU THR SEQRES 27 A 465 PHE SER ALA ILE PRO ALA ASN GLU GLY GLY LYS LYS ILE SEQRES 28 A 465 ALA VAL LEU ALA ASP MET LYS GLU LEU GLY ASP GLN SER SEQRES 29 A 465 VAL GLN LEU HIS ASN GLN MET ILE LEU SER LEU SER PRO SEQRES 30 A 465 ASP VAL LEU ASP ILE VAL ILE PHE TYR GLY GLU ASP ILE SEQRES 31 A 465 ALA GLN LEU ALA GLN LEU ALA SER GLN MET PHE PRO ILE SEQRES 32 A 465 GLY HIS VAL TYR TYR PHE LYS LYS THR GLU ASP GLN ASP SEQRES 33 A 465 GLN PHE GLU ASP LEU VAL LYS GLN VAL LYS GLU SER LEU SEQRES 34 A 465 GLY ALA HIS ASP GLN ILE LEU LEU LYS GLY SER ASN SER SEQRES 35 A 465 MET ASN LEU ALA LYS LEU VAL GLU SER LEU GLU ASN GLU SEQRES 36 A 465 ASP LYS ARG SER HIS HIS HIS HIS HIS HIS HET IGM A1455 39 HETNAM IGM 2,4-BIS(CHLORANYL)-N-[3-CYANO-6-[(4-HYDROXYPHENYL) HETNAM 2 IGM METHYL]-5,7-DIHYDRO-4H-THIENO[2,3-C]PYRIDIN-2-YL]-5- HETNAM 3 IGM MORPHOLIN-4-YLSULFONYL-BENZAMIDE FORMUL 2 IGM C26 H24 CL2 N4 O5 S2 FORMUL 3 HOH *46(H2 O) HELIX 1 1 THR A 4 GLY A 13 1 10 HELIX 2 2 ASP A 32 ILE A 36 5 5 HELIX 3 3 GLY A 51 ASP A 53 5 3 HELIX 4 4 PHE A 54 ASN A 61 1 8 HELIX 5 5 ASP A 82 THR A 99 1 18 HELIX 6 6 THR A 113 SER A 123 1 11 HELIX 7 7 ILE A 139 LEU A 146 1 8 HELIX 8 8 GLY A 165 ARG A 175 1 11 HELIX 9 9 ASP A 194 GLN A 204 1 11 HELIX 10 10 ILE A 205 ASP A 207 5 3 HELIX 11 11 ASP A 220 LEU A 227 5 8 HELIX 12 12 GLY A 271 GLU A 288 1 18 HELIX 13 13 SER A 291 HIS A 301 1 11 HELIX 14 14 ASN A 328 ILE A 342 1 15 HELIX 15 15 LEU A 360 ASP A 362 5 3 HELIX 16 16 GLN A 363 GLN A 370 1 8 HELIX 17 17 MET A 371 LEU A 375 5 5 HELIX 18 18 ILE A 390 PHE A 401 1 12 HELIX 19 19 GLN A 417 LEU A 429 1 13 HELIX 20 20 SER A 442 GLU A 453 1 12 SHEET 1 AA 4 ALA A 29 GLU A 30 0 SHEET 2 AA 4 LEU A 41 PHE A 42 1 O LEU A 41 N GLU A 30 SHEET 3 AA 4 VAL A 65 SER A 68 1 O VAL A 65 N PHE A 42 SHEET 4 AA 4 TYR A 77 LEU A 79 1 O ILE A 78 N SER A 68 SHEET 1 AB 6 THR A 128 LYS A 130 0 SHEET 2 AB 6 LYS A 154 GLU A 158 1 O LYS A 154 N TYR A 129 SHEET 3 AB 6 ASP A 101 VAL A 105 1 O ASP A 101 N LEU A 155 SHEET 4 AB 6 THR A 178 ILE A 180 1 O THR A 178 N ALA A 104 SHEET 5 AB 6 LEU A 214 PRO A 218 1 O LEU A 214 N ALA A 179 SHEET 6 AB 6 LYS A 232 PHE A 236 1 O LYS A 232 N LEU A 215 SHEET 1 AC 3 ILE A 244 GLU A 249 0 SHEET 2 AC 3 LEU A 254 ALA A 258 -1 O THR A 255 N VAL A 248 SHEET 3 AC 3 LEU A 265 LEU A 267 -1 O LEU A 265 N PHE A 256 SHEET 1 AD 6 LYS A 312 LYS A 313 0 SHEET 2 AD 6 ASP A 319 SER A 322 -1 O ILE A 320 N LYS A 312 SHEET 3 AD 6 GLN A 434 LYS A 438 1 O ILE A 435 N LEU A 321 SHEET 4 AD 6 LYS A 350 ALA A 355 1 O ILE A 351 N LEU A 436 SHEET 5 AD 6 ILE A 382 TYR A 386 1 O ILE A 382 N ALA A 352 SHEET 6 AD 6 VAL A 406 PHE A 409 1 O TYR A 407 N PHE A 385 SITE 1 AC1 19 PHE A 31 ASP A 32 SER A 33 ARG A 34 SITE 2 AC1 19 ALA A 48 ARG A 49 PHE A 54 TYR A 135 SITE 3 AC1 19 ASN A 137 ILE A 139 ASN A 326 ASN A 328 SITE 4 AC1 19 THR A 330 ALA A 331 LEU A 334 LEU A 360 SITE 5 AC1 19 ASP A 362 GLN A 363 LEU A 367 CRYST1 119.177 119.177 160.680 90.00 90.00 120.00 P 61 2 2 12 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 0.008391 0.004844 0.000000 0.00000 SCALE2 0.000000 0.009689 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006224 0.00000