HEADER HYDROLASE 22-OCT-09 2WWC TITLE 3D-STRUCTURE OF THE MODULAR AUTOLYSIN LYTC FROM TITLE 2 STREPTOCOCCUS PNEUMONIAE IN COMPLEX WITH SYNTHETIC TITLE 3 PEPTIDOGLYCAN LIGAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: 1,4-BETA-N-ACETYLMURAMIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LYTC AUTOLYSIN; COMPND 5 EC: 3.2.1.17; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 171101; SOURCE 4 STRAIN: R6; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PLCC14 KEYWDS HYDROLASE, GLYCOSIDASE, CHOLINE-BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR I.PEREZ-DORADO,R.SANLES,J.A.HERMOSO,A.GONZALEZ,A.GARCIA,P.GARCIA, AUTHOR 2 J.L.GARCIA REVDAT 4 10-OCT-12 2WWC 1 JRNL REMARK HETSYN SHEET REVDAT 3 13-JUL-11 2WWC 1 VERSN REVDAT 2 28-APR-10 2WWC 1 KEYWDS JRNL REVDAT 1 21-APR-10 2WWC 0 JRNL AUTH I.PEREZ-DORADO,A.GONZALEZ,M.MORALES,R.SANLES,W.STRIKER, JRNL AUTH 2 W.VOLLMER,S.MOBASHERY,J.L.GARCIA,M.MARTINEZ-RIPOLL,P.GARCIA, JRNL AUTH 3 J.A.HERMOSO JRNL TITL INSIGHTS INTO PNEUMOCOCCAL FRATRICIDE FROM THE CRYSTAL JRNL TITL 2 STRUCTURES OF THE MODULAR KILLING FACTOR LYTC. JRNL REF NAT.STRUCT.MOL.BIOL. V. 17 576 2010 JRNL REFN ISSN 1545-9993 JRNL PMID 20400948 JRNL DOI 10.1038/NSMB.1817 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.MONTERROSO,J.L.SAIZ,P.GARCIA,J.L.GARCIA,M.MENENDEZ REMARK 1 TITL INSIGHTS INTO THE STRUCTURE-FUNCTION RELATIONSHIPS OF REMARK 1 TITL 2 PNEUMOCOCCAL CELL WALL LYSOZYMES, LYTC AND CPL- 1. REMARK 1 REF J.BIOL.CHEM. V. 283 28618 2008 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 18667432 REMARK 1 DOI 10.1074/JBC.M802808200 REMARK 1 REFERENCE 2 REMARK 1 AUTH B.MONTERROSO,C.LOPEZ-ZUMEL,J.L.GARCIA,J.L.SAIZ,P.GARCIA, REMARK 1 AUTH 2 N.E.CAMPILLO,M.MENENDEZ REMARK 1 TITL UNRAVELLING THE STRUCTURE OF THE PNEUMOCOCCAL AUTOLYTIC REMARK 1 TITL 2 LYSOZYME. REMARK 1 REF BIOCHEM.J. V. 391 41 2005 REMARK 1 REFN ISSN 0264-6021 REMARK 1 PMID 15943581 REMARK 1 DOI 10.1042/BJ20050612 REMARK 1 REFERENCE 3 REMARK 1 AUTH P.GARCIA,M.PAZ GONZALEZ,E.GARCIA,J.L.GARCIA,R.LOPEZ REMARK 1 TITL THE MOLECULAR CHARACTERIZATION OF THE FIRST AUTOLYTIC REMARK 1 TITL 2 LYSOZYME OF STREPTOCOCCUS PNEUMONIAE REVEALS EVOLUTIONARY REMARK 1 TITL 3 MOBILE DOMAINS. REMARK 1 REF MOL.MICROBIOL. V. 33 128 1999 REMARK 1 REFN ISSN 0950-382X REMARK 1 PMID 10411730 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 53826 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4123 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3188 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.2560 REMARK 3 BIN FREE R VALUE SET COUNT : 241 REMARK 3 BIN FREE R VALUE : 0.2910 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3655 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 140 REMARK 3 SOLVENT ATOMS : 503 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : 0.07000 REMARK 3 B33 (A**2) : -0.14000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.03000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.108 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.044 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3893 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5250 ; 1.224 ; 1.930 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 430 ; 5.088 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 212 ;36.664 ;24.434 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 618 ;10.406 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;13.784 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 483 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2997 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1838 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2627 ; 0.314 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 420 ; 0.140 ; 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): 71 ; 0.184 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 45 ; 0.117 ; 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): 2184 ; 0.948 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3394 ; 1.435 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2099 ; 2.139 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1856 ; 3.095 ; 4.500 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 : 6 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 38 A 76 REMARK 3 ORIGIN FOR THE GROUP (A): 31.3329 -53.2448 4.1131 REMARK 3 T TENSOR REMARK 3 T11: 0.0039 T22: 0.0065 REMARK 3 T33: -0.0535 T12: 0.0119 REMARK 3 T13: 0.0156 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 0.9063 L22: 2.3606 REMARK 3 L33: 2.2941 L12: -0.1463 REMARK 3 L13: 0.7355 L23: 0.1555 REMARK 3 S TENSOR REMARK 3 S11: 0.0678 S12: 0.1689 S13: -0.1094 REMARK 3 S21: 0.0438 S22: -0.0455 S23: -0.0544 REMARK 3 S31: 0.0572 S32: 0.2159 S33: -0.0223 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 77 A 217 REMARK 3 ORIGIN FOR THE GROUP (A): 31.8534 -16.1853 17.8379 REMARK 3 T TENSOR REMARK 3 T11: 0.0146 T22: -0.0007 REMARK 3 T33: -0.0294 T12: -0.0356 REMARK 3 T13: -0.0096 T23: 0.0258 REMARK 3 L TENSOR REMARK 3 L11: 0.1725 L22: 2.1425 REMARK 3 L33: 0.2759 L12: 0.4564 REMARK 3 L13: 0.1899 L23: 0.7525 REMARK 3 S TENSOR REMARK 3 S11: -0.0536 S12: 0.0620 S13: 0.0576 REMARK 3 S21: -0.0441 S22: 0.0306 S23: 0.0883 REMARK 3 S31: 0.0194 S32: 0.0477 S33: 0.0230 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 218 A 242 REMARK 3 ORIGIN FOR THE GROUP (A): 33.8320 21.9819 26.9711 REMARK 3 T TENSOR REMARK 3 T11: -0.0803 T22: -0.0722 REMARK 3 T33: 0.1213 T12: -0.0202 REMARK 3 T13: -0.0147 T23: 0.0624 REMARK 3 L TENSOR REMARK 3 L11: 4.0598 L22: 4.0063 REMARK 3 L33: 2.3170 L12: -2.3755 REMARK 3 L13: -0.8381 L23: 2.7492 REMARK 3 S TENSOR REMARK 3 S11: -0.1090 S12: 0.1235 S13: 0.4681 REMARK 3 S21: -0.0034 S22: -0.0309 S23: 0.1566 REMARK 3 S31: 0.0196 S32: 0.0407 S33: 0.1399 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 243 A 267 REMARK 3 ORIGIN FOR THE GROUP (A): 14.9834 31.6002 30.4847 REMARK 3 T TENSOR REMARK 3 T11: 0.0239 T22: -0.0365 REMARK 3 T33: 0.0120 T12: -0.0255 REMARK 3 T13: 0.0311 T23: -0.0187 REMARK 3 L TENSOR REMARK 3 L11: 1.8921 L22: 0.0697 REMARK 3 L33: 1.1818 L12: 0.2728 REMARK 3 L13: -0.5716 L23: 0.0926 REMARK 3 S TENSOR REMARK 3 S11: 0.0900 S12: -0.0452 S13: 0.1363 REMARK 3 S21: 0.0219 S22: -0.0694 S23: -0.0076 REMARK 3 S31: -0.1343 S32: 0.0655 S33: -0.0207 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 268 A 365 REMARK 3 RESIDUE RANGE : A 381 A 468 REMARK 3 ORIGIN FOR THE GROUP (A): 2.0924 14.4803 21.3993 REMARK 3 T TENSOR REMARK 3 T11: -0.0289 T22: -0.0056 REMARK 3 T33: 0.0044 T12: -0.0127 REMARK 3 T13: 0.0051 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.8819 L22: 0.1360 REMARK 3 L33: 0.6543 L12: 0.3163 REMARK 3 L13: 0.0793 L23: -0.0924 REMARK 3 S TENSOR REMARK 3 S11: -0.0396 S12: 0.0931 S13: -0.1100 REMARK 3 S21: 0.0064 S22: 0.1087 S23: -0.0350 REMARK 3 S31: -0.0263 S32: -0.0430 S33: -0.0691 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 366 A 380 REMARK 3 ORIGIN FOR THE GROUP (A): 8.8103 1.0339 8.0296 REMARK 3 T TENSOR REMARK 3 T11: 0.0082 T22: 0.0353 REMARK 3 T33: 0.0123 T12: -0.0117 REMARK 3 T13: 0.0013 T23: -0.0609 REMARK 3 L TENSOR REMARK 3 L11: 0.2120 L22: 4.3581 REMARK 3 L33: 1.1344 L12: 0.8093 REMARK 3 L13: -0.1532 L23: 0.5541 REMARK 3 S TENSOR REMARK 3 S11: 0.0681 S12: 0.1591 S13: -0.3239 REMARK 3 S21: -0.2666 S22: 0.0589 S23: -0.2689 REMARK 3 S31: 0.5428 S32: 0.2502 S33: -0.1269 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 REMARK 3 RIDING POSITIONS THE FIRST 37 AA OF THE POLYPEPTIDE CHAIN WERE REMARK 3 NOT MODELLED DUE TO POOR ELECTRON DENSITY. ATOM RECORD REMARK 3 CONTAINS RESIDUAL B FACTORS ONLY. REMARK 4 REMARK 4 2WWC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-OCT-09. REMARK 100 THE PDBE ID CODE IS EBI-41455. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-08 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 : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57956 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.75 REMARK 200 RESOLUTION RANGE LOW (A) : 44.28 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.6 REMARK 200 R MERGE (I) : 0.06 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.00 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.8 REMARK 200 R MERGE FOR SHELL (I) : 0.40 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.10 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2WW5 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.1 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 34.40000 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: 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLU 398 TO GLN 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 ASN A 1 REMARK 465 GLU A 2 REMARK 465 THR A 3 REMARK 465 GLU A 4 REMARK 465 VAL A 5 REMARK 465 ALA A 6 REMARK 465 LYS A 7 REMARK 465 THR A 8 REMARK 465 SER A 9 REMARK 465 GLN A 10 REMARK 465 ASP A 11 REMARK 465 THR A 12 REMARK 465 THR A 13 REMARK 465 THR A 14 REMARK 465 ALA A 15 REMARK 465 SER A 16 REMARK 465 SER A 17 REMARK 465 SER A 18 REMARK 465 SER A 19 REMARK 465 GLU A 20 REMARK 465 GLN A 21 REMARK 465 ASN A 22 REMARK 465 GLN A 23 REMARK 465 SER A 24 REMARK 465 SER A 25 REMARK 465 ASN A 26 REMARK 465 LYS A 27 REMARK 465 THR A 28 REMARK 465 GLN A 29 REMARK 465 THR A 30 REMARK 465 SER A 31 REMARK 465 ALA A 32 REMARK 465 GLU A 33 REMARK 465 VAL A 34 REMARK 465 GLN A 35 REMARK 465 THR A 36 REMARK 465 ASN A 37 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 39 -93.05 -124.18 REMARK 500 ASP A 219 -104.48 -131.94 REMARK 500 THR A 265 -169.98 -118.93 REMARK 500 ASN A 401 76.51 -102.01 REMARK 500 THR A 413 -96.61 -130.11 REMARK 500 ALA A 429 107.35 -162.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AL" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 610 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 611 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 612 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 613 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 614 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 707 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHT A 708 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WW5 RELATED DB: PDB REMARK 900 3D-STRUCTURE OF THE MODULAR AUTOLYSIN LYTC REMARK 900 FROM STREPTOCOCCUS PNEUMONIAE AT 1.6 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 2WWD RELATED DB: PDB REMARK 900 3D-STRUCTURE OF THE MODULAR AUTOLYSIN LYTC REMARK 900 FROM STREPTOCOCCUS PNEUMONIAE IN COMPLEX WITH REMARK 900 PNEUMMOCOCCAL PEPTIDOGLYCAN FRAGMENT REMARK 999 REMARK 999 SEQUENCE REMARK 999 ENTRY ACCESSION CODE CORRESPONDS TO THE IMMATURE PROTEIN REMARK 999 WHICH POSSESSES A SIGNAL PEPTIDE OF 33 AMINO-ACIDS BUT THE REMARK 999 STRUCTURE HERE REPORTED CORRESPONDS TO THE MATURE FORM. REMARK 999 THE FIRST AMINO-ACID OF THE MATURE PROTEIN IS REFERED AS REMARK 999 TO RESIDUE 1. - CATALYTIC E365 RESIDUE WAS MUTATED BY Q DBREF 2WWC A 1 468 UNP Q9Z4J8 Q9Z4J8_STRPN 34 501 SEQADV 2WWC GLN A 365 UNP Q9Z4J8 GLU 398 ENGINEERED MUTATION SEQRES 1 A 468 ASN GLU THR GLU VAL ALA LYS THR SER GLN ASP THR THR SEQRES 2 A 468 THR ALA SER SER SER SER GLU GLN ASN GLN SER SER ASN SEQRES 3 A 468 LYS THR GLN THR SER ALA GLU VAL GLN THR ASN ALA ALA SEQRES 4 A 468 ALA TYR TRP ASP GLY ASP TYR TYR VAL LYS ASP ASP GLY SEQRES 5 A 468 SER LYS ALA GLN SER GLU TRP ILE PHE ASP ASN TYR TYR SEQRES 6 A 468 LYS ALA TRP PHE TYR ILE ASN SER ASP GLY ARG TYR SER SEQRES 7 A 468 GLN ASN GLU TRP HIS GLY ASN TYR TYR LEU LYS SER GLY SEQRES 8 A 468 GLY TYR MET ALA GLN ASN GLU TRP ILE TYR ASP SER ASN SEQRES 9 A 468 TYR LYS SER TRP PHE TYR LEU LYS SER ASP GLY ALA TYR SEQRES 10 A 468 ALA HIS GLN GLU TRP GLN LEU ILE GLY ASN LYS TRP TYR SEQRES 11 A 468 TYR PHE LYS LYS TRP GLY TYR MET ALA LYS SER GLN TRP SEQRES 12 A 468 GLN GLY SER TYR PHE LEU ASN GLY GLN GLY ALA MET ILE SEQRES 13 A 468 GLN ASN GLU TRP LEU TYR ASP PRO ALA TYR SER ALA TYR SEQRES 14 A 468 PHE TYR LEU LYS SER ASP GLY THR TYR ALA ASN GLN GLU SEQRES 15 A 468 TRP GLN LYS VAL GLY GLY LYS TRP TYR TYR PHE LYS LYS SEQRES 16 A 468 TRP GLY TYR MET ALA ARG ASN GLU TRP GLN GLY ASN TYR SEQRES 17 A 468 TYR LEU THR GLY SER GLY ALA MET ALA THR ASP GLU VAL SEQRES 18 A 468 ILE MET ASP GLY ALA ARG TYR ILE PHE ALA ALA SER GLY SEQRES 19 A 468 GLU LEU LYS GLU LYS LYS ASP LEU ASN VAL GLY TRP VAL SEQRES 20 A 468 HIS ARG ASP GLY LYS ARG TYR PHE PHE ASN ASN ARG GLU SEQRES 21 A 468 GLU GLN VAL GLY THR GLU HIS ALA LYS LYS ILE ILE ASP SEQRES 22 A 468 ILE SER GLU HIS ASN GLY ARG ILE ASN ASP TRP LYS LYS SEQRES 23 A 468 VAL ILE ASP GLU ASN GLU VAL ASP GLY VAL ILE VAL ARG SEQRES 24 A 468 LEU GLY TYR SER GLY LYS GLU ASP LYS GLU LEU ALA HIS SEQRES 25 A 468 ASN ILE LYS GLU LEU ASN ARG LEU GLY ILE PRO TYR GLY SEQRES 26 A 468 VAL TYR LEU TYR THR TYR ALA GLU ASN GLU THR ASP ALA SEQRES 27 A 468 GLU ASN ASP ALA LYS GLN THR ILE GLU LEU ILE LYS LYS SEQRES 28 A 468 TYR ASN MET ASN LEU SER TYR PRO ILE TYR TYR ASP VAL SEQRES 29 A 468 GLN ASN TRP GLU TYR VAL ASN LYS SER LYS ARG ALA PRO SEQRES 30 A 468 SER ASP THR ASP THR TRP VAL LYS ILE ILE ASN LYS TYR SEQRES 31 A 468 MET ASP THR MET LYS GLN ALA GLY TYR GLN ASN VAL TYR SEQRES 32 A 468 VAL TYR SER TYR ARG SER LEU LEU GLN THR ARG LEU LYS SEQRES 33 A 468 HIS PRO ASP ILE LEU LYS HIS VAL ASN TRP VAL ALA ALA SEQRES 34 A 468 TYR THR ASN ALA LEU GLU TRP GLU ASN PRO TYR TYR SER SEQRES 35 A 468 GLY GLU LYS GLY TRP GLN TYR THR SER SER GLU TYR MET SEQRES 36 A 468 LYS GLY ILE GLN GLY ARG VAL ASP VAL SER VAL TRP TYR HET GOL A 601 6 HET GOL A 602 6 HET GOL A 603 6 HET GOL A 604 6 HET GOL A 605 6 HET GOL A 606 6 HET GOL A 607 6 HET GOL A 608 6 HET GOL A 609 6 HET GOL A 610 6 HET GOL A 611 6 HET GOL A 612 6 HET GOL A 613 6 HET GOL A 614 6 HET CHT A 701 7 HET CHT A 702 7 HET CHT A 703 7 HET CHT A 704 7 HET CHT A 705 7 HET CHT A 706 7 HET CHT A 707 7 HET CHT A 708 7 HETNAM CHT CHOLINE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CHT 8(C5 H14 N O 1+) FORMUL 3 GOL 14(C3 H8 O3) FORMUL 4 HOH *503(H2 O) HELIX 1 1 LYS A 89 TYR A 93 5 5 HELIX 2 2 LYS A 133 TYR A 137 5 5 HELIX 3 3 LYS A 194 TYR A 198 5 5 HELIX 4 4 SER A 275 GLY A 279 5 5 HELIX 5 5 ASP A 283 GLU A 292 1 10 HELIX 6 6 GLU A 309 GLY A 321 1 13 HELIX 7 7 ASN A 334 TYR A 352 1 19 HELIX 8 8 ASP A 379 ALA A 397 1 19 HELIX 9 9 ARG A 408 GLN A 412 1 5 HELIX 10 10 HIS A 417 LYS A 422 1 6 SHEET 1 AA 1 TYR A 41 ASP A 43 0 SHEET 2 AA 1 TYR A 46 VAL A 48 -1 O TYR A 46 N ASP A 43 SHEET 1 AB 1 GLU A 58 ASP A 62 0 SHEET 2 AB 1 ALA A 67 ILE A 71 -1 O ALA A 67 N ASP A 62 SHEET 1 AC 1 GLU A 81 HIS A 83 0 SHEET 2 AC 1 TYR A 86 LEU A 88 -1 O TYR A 86 N HIS A 83 SHEET 1 AD 1 GLU A 98 ASP A 102 0 SHEET 2 AD 1 SER A 107 LEU A 111 -1 O SER A 107 N ASP A 102 SHEET 1 AE 1 GLU A 121 ILE A 125 0 SHEET 2 AE 1 LYS A 128 PHE A 132 -1 O LYS A 128 N ILE A 125 SHEET 1 AF 1 GLN A 142 GLN A 144 0 SHEET 2 AF 1 TYR A 147 LEU A 149 -1 O TYR A 147 N GLN A 144 SHEET 1 AG 1 GLU A 159 TYR A 162 0 SHEET 2 AG 1 TYR A 169 LEU A 172 -1 O PHE A 170 N LEU A 161 SHEET 1 AH 1 GLU A 182 VAL A 186 0 SHEET 2 AH 1 LYS A 189 PHE A 193 -1 O LYS A 189 N VAL A 186 SHEET 1 AI 1 GLU A 203 GLN A 205 0 SHEET 2 AI 1 TYR A 208 LEU A 210 -1 O TYR A 208 N GLN A 205 SHEET 1 AJ 2 GLU A 220 MET A 223 0 SHEET 2 AJ 2 ALA A 226 PHE A 230 -1 O ALA A 226 N MET A 223 SHEET 3 AJ 2 LEU A 236 ASP A 241 -1 N LYS A 237 O ILE A 229 SHEET 1 AK 2 GLY A 245 ARG A 249 0 SHEET 2 AK 2 LYS A 252 PHE A 256 -1 O LYS A 252 N ARG A 249 SHEET 3 AK 2 GLN A 262 VAL A 263 -1 O VAL A 263 N PHE A 255 SHEET 1 AL 9 LYS A 269 ILE A 274 0 SHEET 2 AL 9 VAL A 462 TYR A 468 -1 O ASP A 463 N ASP A 273 SHEET 3 AL 9 LYS A 445 GLU A 453 -1 O LYS A 445 N TYR A 468 SHEET 4 AL 9 VAL A 424 ALA A 428 1 O ASN A 425 N GLY A 446 SHEET 5 AL 9 VAL A 402 TYR A 407 1 O VAL A 404 N ASN A 425 SHEET 6 AL 9 ILE A 360 ASP A 363 1 O ILE A 360 N TYR A 403 SHEET 7 AL 9 TYR A 324 TYR A 329 1 O VAL A 326 N TYR A 361 SHEET 8 AL 9 GLY A 295 TYR A 302 1 O VAL A 296 N GLY A 325 SHEET 9 AL 9 LYS A 269 ILE A 274 SITE 1 AC1 4 TYR A 41 TRP A 42 ASP A 62 HOH A2488 SITE 1 AC2 7 ASN A 72 ASP A 74 ARG A 76 TYR A 77 SITE 2 AC2 7 GLU A 81 ARG A 408 GLN A 412 SITE 1 AC3 4 ILE A 100 TYR A 101 HOH A2489 HOH A2490 SITE 1 AC4 5 TRP A 135 TYR A 137 GLU A 260 HOH A2296 SITE 2 AC4 5 HOH A2491 SITE 1 AC5 6 TYR A 117 HIS A 119 LYS A 134 TRP A 135 SITE 2 AC5 6 ARG A 227 HOH A2061 SITE 1 AC6 6 TRP A 122 GLN A 144 GLY A 145 SER A 146 SITE 2 AC6 6 TYR A 147 HOH A2493 SITE 1 AC7 5 ASN A 127 LYS A 128 TRP A 129 GLN A 157 SITE 2 AC7 5 HOH A2494 SITE 1 AC8 4 GLN A 142 TRP A 143 ASP A 163 ALA A 165 SITE 1 AC9 2 TRP A 204 GLY A 206 SITE 1 BC1 6 ARG A 253 GLU A 266 ASP A 294 HOH A2306 SITE 2 BC1 6 HOH A2307 HOH A2495 SITE 1 BC2 6 HIS A 267 LYS A 269 GLU A 444 TRP A 467 SITE 2 BC2 6 TYR A 468 HOH A2300 SITE 1 BC3 8 ASN A 258 TYR A 430 TYR A 449 THR A 450 SITE 2 BC3 8 HOH A2251 HOH A2497 HOH A2498 HOH A2499 SITE 1 BC4 6 LYS A 269 SER A 357 TYR A 358 GLU A 444 SITE 2 BC4 6 HOH A2417 HOH A2500 SITE 1 BC5 9 ASP A 273 ASP A 363 GLN A 365 TYR A 405 SITE 2 BC5 9 GLN A 448 ASP A 463 HOH A2395 HOH A2501 SITE 3 BC5 9 HOH A2502 SITE 1 BC6 6 TRP A 42 TYR A 65 PHE A 69 TYR A 77 SITE 2 BC6 6 GLY A 91 TYR A 93 SITE 1 BC7 5 TRP A 59 TRP A 68 TYR A 86 MET A 94 SITE 2 BC7 5 ASP A 114 SITE 1 BC8 7 TRP A 82 GLY A 84 TYR A 105 PHE A 109 SITE 2 BC8 7 TYR A 117 TRP A 135 HOH A2503 SITE 1 BC9 5 TRP A 99 TRP A 108 TYR A 130 MET A 138 SITE 2 BC9 5 GLN A 152 SITE 1 CC1 4 TRP A 122 TRP A 129 TYR A 147 ASP A 175 SITE 1 CC2 6 TRP A 143 GLY A 145 TYR A 166 PHE A 170 SITE 2 CC2 6 TYR A 178 TRP A 196 SITE 1 CC3 4 TYR A 169 TYR A 191 MET A 199 SER A 213 SITE 1 CC4 3 TYR A 302 TYR A 369 VAL A 370 CRYST1 59.540 68.800 75.640 90.00 105.45 90.00 P 1 21 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 0.016795 0.000000 0.004642 0.00000 SCALE2 0.000000 0.014535 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013716 0.00000