HEADER HYDROLASE 14-SEP-05 2B0P TITLE TRUNCATED S. AUREUS LYTM, P212121 CRYSTAL FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCYL-GLYCINE ENDOPEPTIDASE LYTM; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AUTOLYSIN LYTM; COMPND 5 EC: 3.4.24.75; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: LYTM; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS LYTM, LYSOSTAPHIN, PEPTIDOGLYCAN AMIDASE, PEPTIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.FIRCZUK,A.MUCHA,M.BOCHTLER REVDAT 4 23-AUG-23 2B0P 1 REMARK LINK REVDAT 3 13-JUL-11 2B0P 1 VERSN REVDAT 2 25-MAR-08 2B0P 1 REMARK VERSN REVDAT 1 10-JAN-06 2B0P 0 JRNL AUTH M.FIRCZUK,A.MUCHA,M.BOCHTLER JRNL TITL CRYSTAL STRUCTURES OF ACTIVE LYTM. JRNL REF J.MOL.BIOL. V. 354 578 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 16269153 JRNL DOI 10.1016/J.JMB.2005.09.082 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.G.ODINTSOV,I.SABALA,M.MARCYJANIAK,M.BOCHTLER REMARK 1 TITL LATENT LYTM AT 1.3A RESOLUTION. REMARK 1 REF J.MOL.BIOL. V. 335 775 2004 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 14687573 REMARK 1 DOI 10.1016/J.JMB.2003.11.009 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 39977 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2082 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2849 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2680 REMARK 3 BIN FREE R VALUE SET COUNT : 170 REMARK 3 BIN FREE R VALUE : 0.2550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1980 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 385 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 13.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.04000 REMARK 3 B22 (A**2) : -0.46000 REMARK 3 B33 (A**2) : -1.58000 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): 0.077 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.205 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2051 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1653 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2787 ; 1.703 ; 1.909 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3858 ; 4.003 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 256 ; 7.232 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 274 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2396 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 426 ; 0.015 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 365 ; 0.193 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1856 ; 0.296 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 997 ; 0.114 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 260 ; 0.174 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.094 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 5 ; 0.082 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 39 ; 0.332 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.212 ; 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): 1275 ; 1.075 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2014 ; 1.668 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 776 ; 2.616 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 773 ; 3.884 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 188 A 316 REMARK 3 ORIGIN FOR THE GROUP (A): 7.2780 -3.7800 0.3210 REMARK 3 T TENSOR REMARK 3 T11: 0.0002 T22: 0.1962 REMARK 3 T33: 0.1806 T12: 0.0046 REMARK 3 T13: -0.0037 T23: -0.0072 REMARK 3 L TENSOR REMARK 3 L11: 0.2403 L22: 1.0336 REMARK 3 L33: 1.2332 L12: 0.0854 REMARK 3 L13: 0.1711 L23: 0.4367 REMARK 3 S TENSOR REMARK 3 S11: 0.0103 S12: -0.0477 S13: 0.0174 REMARK 3 S21: 0.0006 S22: -0.0058 S23: -0.0420 REMARK 3 S31: 0.0404 S32: -0.0278 S33: -0.0045 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 188 B 316 REMARK 3 ORIGIN FOR THE GROUP (A): 0.7030 -13.1700 -26.4790 REMARK 3 T TENSOR REMARK 3 T11: 0.0200 T22: 0.1818 REMARK 3 T33: 0.1888 T12: -0.0073 REMARK 3 T13: 0.0020 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.4382 L22: 0.8072 REMARK 3 L33: 0.7195 L12: 0.0199 REMARK 3 L13: -0.0222 L23: 0.0179 REMARK 3 S TENSOR REMARK 3 S11: 0.0107 S12: 0.0297 S13: -0.0326 REMARK 3 S21: 0.0168 S22: 0.0011 S23: -0.0022 REMARK 3 S31: 0.0082 S32: -0.0135 S33: -0.0119 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2B0P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1000034529. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42130 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.25600 REMARK 200 R SYM FOR SHELL (I) : 0.25600 REMARK 200 FOR SHELL : 2.700 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: 1QWY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 CACODYLATE, 0.1 M SODIUM ACETATE, PH 6.8, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 16.04650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.02450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.13050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.02450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.04650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.13050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 183 REMARK 465 ALA A 184 REMARK 465 HIS A 185 REMARK 465 ALA A 186 REMARK 465 LYS A 187 REMARK 465 MET B 183 REMARK 465 ALA B 184 REMARK 465 HIS B 185 REMARK 465 ALA B 186 REMARK 465 LYS B 187 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 B 228 CB - CG - OD1 ANGL. DEV. = 6.5 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 ASN A 253 59.41 -94.70 REMARK 500 ASN A 262 -121.58 -87.15 REMARK 500 ALA B 234 105.40 -161.38 REMARK 500 ASN B 262 -114.93 -89.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 210 NE2 REMARK 620 2 ASP A 214 OD1 103.3 REMARK 620 3 HIS A 293 ND1 105.8 103.7 REMARK 620 4 CAC A 500 O2 99.2 136.5 105.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 210 NE2 REMARK 620 2 ASP B 214 OD1 103.0 REMARK 620 3 HIS B 293 ND1 104.9 103.0 REMARK 620 4 CAC B 501 O2 102.8 133.0 107.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CAC A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CAC B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 701 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QWY RELATED DB: PDB REMARK 900 FULL-LENGTH LYTM REMARK 900 RELATED ID: 2B13 RELATED DB: PDB REMARK 900 TRUNCATED LYTM, DIFFERENT CRYSTAL FORM REMARK 900 RELATED ID: 2B44 RELATED DB: PDB REMARK 900 TRUNCATED S. AUREUS LYTM, P 32 2 1 CRYSTAL FORM DBREF 2B0P A 185 316 UNP O33599 LYTM_STAAU 185 316 DBREF 2B0P B 185 316 UNP O33599 LYTM_STAAU 185 316 SEQRES 1 A 134 MET ALA HIS ALA LYS ASP ALA SER TRP LEU THR SER ARG SEQRES 2 A 134 LYS GLN LEU GLN PRO TYR GLY GLN TYR HIS GLY GLY GLY SEQRES 3 A 134 ALA HIS TYR GLY VAL ASP TYR ALA MET PRO GLU ASN SER SEQRES 4 A 134 PRO VAL TYR SER LEU THR ASP GLY THR VAL VAL GLN ALA SEQRES 5 A 134 GLY TRP SER ASN TYR GLY GLY GLY ASN GLN VAL THR ILE SEQRES 6 A 134 LYS GLU ALA ASN SER ASN ASN TYR GLN TRP TYR MET HIS SEQRES 7 A 134 ASN ASN ARG LEU THR VAL SER ALA GLY ASP LYS VAL LYS SEQRES 8 A 134 ALA GLY ASP GLN ILE ALA TYR SER GLY SER THR GLY ASN SEQRES 9 A 134 SER THR ALA PRO HIS VAL HIS PHE GLN ARG MET SER GLY SEQRES 10 A 134 GLY ILE GLY ASN GLN TYR ALA VAL ASP PRO THR SER TYR SEQRES 11 A 134 LEU GLN SER ARG SEQRES 1 B 134 MET ALA HIS ALA LYS ASP ALA SER TRP LEU THR SER ARG SEQRES 2 B 134 LYS GLN LEU GLN PRO TYR GLY GLN TYR HIS GLY GLY GLY SEQRES 3 B 134 ALA HIS TYR GLY VAL ASP TYR ALA MET PRO GLU ASN SER SEQRES 4 B 134 PRO VAL TYR SER LEU THR ASP GLY THR VAL VAL GLN ALA SEQRES 5 B 134 GLY TRP SER ASN TYR GLY GLY GLY ASN GLN VAL THR ILE SEQRES 6 B 134 LYS GLU ALA ASN SER ASN ASN TYR GLN TRP TYR MET HIS SEQRES 7 B 134 ASN ASN ARG LEU THR VAL SER ALA GLY ASP LYS VAL LYS SEQRES 8 B 134 ALA GLY ASP GLN ILE ALA TYR SER GLY SER THR GLY ASN SEQRES 9 B 134 SER THR ALA PRO HIS VAL HIS PHE GLN ARG MET SER GLY SEQRES 10 B 134 GLY ILE GLY ASN GLN TYR ALA VAL ASP PRO THR SER TYR SEQRES 11 B 134 LEU GLN SER ARG HET ZN A 400 1 HET CAC A 500 5 HET ACT A 700 4 HET ACT A 702 4 HET ZN B 401 1 HET CAC B 501 5 HET ACT B 701 4 HETNAM ZN ZINC ION HETNAM CAC CACODYLATE ION HETNAM ACT ACETATE ION HETSYN CAC DIMETHYLARSINATE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 CAC 2(C2 H6 AS O2 1-) FORMUL 5 ACT 3(C2 H3 O2 1-) FORMUL 10 HOH *385(H2 O) HELIX 1 1 ALA A 189 SER A 194 1 6 HELIX 2 2 GLY A 302 GLN A 304 5 3 HELIX 3 3 PRO A 309 ARG A 316 1 8 HELIX 4 4 ALA B 189 SER B 194 1 6 HELIX 5 5 GLY B 302 GLN B 304 5 3 HELIX 6 6 PRO B 309 SER B 315 1 7 SHEET 1 A 7 GLN A 197 GLN A 199 0 SHEET 2 A 7 VAL A 213 ALA A 216 -1 O ASP A 214 N GLN A 199 SHEET 3 A 7 HIS A 291 SER A 298 -1 O VAL A 292 N TYR A 215 SHEET 4 A 7 ASN A 254 ASN A 261 -1 N TYR A 255 O MET A 297 SHEET 5 A 7 GLY A 242 GLU A 249 -1 N GLU A 249 O ASN A 254 SHEET 6 A 7 GLY A 229 SER A 237 -1 N THR A 230 O LYS A 248 SHEET 7 A 7 LYS A 271 VAL A 272 -1 O VAL A 272 N GLY A 229 SHEET 1 B 4 GLN A 197 GLN A 199 0 SHEET 2 B 4 VAL A 213 ALA A 216 -1 O ASP A 214 N GLN A 199 SHEET 3 B 4 HIS A 291 SER A 298 -1 O VAL A 292 N TYR A 215 SHEET 4 B 4 ALA A 306 VAL A 307 -1 O VAL A 307 N ARG A 296 SHEET 1 C 2 GLY A 202 GLN A 203 0 SHEET 2 C 2 ALA A 209 HIS A 210 -1 O HIS A 210 N GLY A 202 SHEET 1 D 2 PRO A 222 TYR A 224 0 SHEET 2 D 2 GLN A 277 TYR A 280 -1 O ILE A 278 N VAL A 223 SHEET 1 E 7 GLN B 197 GLN B 199 0 SHEET 2 E 7 VAL B 213 ALA B 216 -1 O ASP B 214 N GLN B 199 SHEET 3 E 7 HIS B 291 SER B 298 -1 O VAL B 292 N TYR B 215 SHEET 4 E 7 ASN B 254 ASN B 261 -1 N TYR B 255 O MET B 297 SHEET 5 E 7 GLY B 242 GLU B 249 -1 N GLU B 249 O ASN B 254 SHEET 6 E 7 GLY B 229 SER B 237 -1 N THR B 230 O LYS B 248 SHEET 7 E 7 LYS B 271 VAL B 272 -1 O VAL B 272 N GLY B 229 SHEET 1 F 4 GLN B 197 GLN B 199 0 SHEET 2 F 4 VAL B 213 ALA B 216 -1 O ASP B 214 N GLN B 199 SHEET 3 F 4 HIS B 291 SER B 298 -1 O VAL B 292 N TYR B 215 SHEET 4 F 4 ALA B 306 VAL B 307 -1 O VAL B 307 N ARG B 296 SHEET 1 G 2 GLY B 202 GLN B 203 0 SHEET 2 G 2 ALA B 209 HIS B 210 -1 O HIS B 210 N GLY B 202 SHEET 1 H 2 PRO B 222 TYR B 224 0 SHEET 2 H 2 GLN B 277 TYR B 280 -1 O ALA B 279 N VAL B 223 LINK NE2 HIS A 210 ZN ZN A 400 1555 1555 2.08 LINK OD1 ASP A 214 ZN ZN A 400 1555 1555 1.99 LINK ND1 HIS A 293 ZN ZN A 400 1555 1555 2.12 LINK ZN ZN A 400 O2 CAC A 500 1555 1555 1.95 LINK NE2 HIS B 210 ZN ZN B 401 1555 1555 2.10 LINK OD1 ASP B 214 ZN ZN B 401 1555 1555 2.05 LINK ND1 HIS B 293 ZN ZN B 401 1555 1555 2.06 LINK ZN ZN B 401 O2 CAC B 501 1555 1555 1.88 SITE 1 AC1 4 HIS A 210 ASP A 214 HIS A 293 CAC A 500 SITE 1 AC2 8 TYR A 204 HIS A 210 ASP A 214 HIS A 260 SITE 2 AC2 8 ASN A 286 HIS A 291 HIS A 293 ZN A 400 SITE 1 AC3 3 ASN A 220 ARG A 263 HOH A 716 SITE 1 AC4 6 LYS A 248 ALA A 250 ASN A 251 HOH A 731 SITE 2 AC4 6 HOH A 778 SER B 311 SITE 1 AC5 4 HIS B 210 ASP B 214 HIS B 293 CAC B 501 SITE 1 AC6 8 TYR B 204 HIS B 210 ASP B 214 HIS B 260 SITE 2 AC6 8 ASN B 286 HIS B 291 HIS B 293 ZN B 401 SITE 1 AC7 5 ASN B 220 ARG B 263 TYR B 280 HOH B 719 SITE 2 AC7 5 HOH B 832 CRYST1 32.093 78.261 102.049 90.00 90.00 90.00 P 21 21 21 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 0.031159 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012778 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009799 0.00000