HEADER HYDROLASE 24-JUN-08 3DKE TITLE POLAR AND NON-POLAR CAVITIES IN PHAGE T4 LYSOZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME; COMPND 3 CHAIN: X; COMPND 4 SYNONYM: LYSIS PROTEIN, MURAMIDASE, ENDOLYSIN; COMPND 5 EC: 3.2.1.17; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE T4; SOURCE 3 ORGANISM_TAXID: 10665; SOURCE 4 GENE: E; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS T4 LYSOZYME, CAVITY, EXPERIMENTAL PHASES, ANTIMICROBIAL, KEYWDS 2 BACTERIOLYTIC ENZYME, GLYCOSIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.J.LIU,B.W.MATTHEWS REVDAT 4 20-OCT-21 3DKE 1 SOURCE REMARK SEQADV LINK REVDAT 3 13-JUL-11 3DKE 1 VERSN REVDAT 2 24-FEB-09 3DKE 1 VERSN REVDAT 1 25-NOV-08 3DKE 0 JRNL AUTH L.LIU,M.L.QUILLIN,B.W.MATTHEWS JRNL TITL USE OF EXPERIMENTAL CRYSTALLOGRAPHIC PHASES TO EXAMINE THE JRNL TITL 2 HYDRATION OF POLAR AND NONPOLAR CAVITIES IN T4 LYSOZYME JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 14406 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18780783 JRNL DOI 10.1073/PNAS.0806307105 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 53423 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2851 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.29 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3840 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.1690 REMARK 3 BIN FREE R VALUE SET COUNT : 209 REMARK 3 BIN FREE R VALUE : 0.2040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1305 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 256 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 11.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.60000 REMARK 3 B22 (A**2) : -0.60000 REMARK 3 B33 (A**2) : 0.90000 REMARK 3 B12 (A**2) : -0.30000 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): 0.041 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.039 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.019 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.915 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1405 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1883 ; 1.142 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 172 ; 4.551 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 64 ;30.990 ;23.594 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 255 ; 9.729 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;12.380 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 206 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1016 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 722 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 974 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 191 ; 0.121 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.052 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 65 ; 0.196 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 41 ; 0.188 ; 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): 831 ; 0.671 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1337 ; 1.152 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 580 ; 2.393 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 543 ; 3.414 ; 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 : 8 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 : X 1 X 12 REMARK 3 ORIGIN FOR THE GROUP (A): 41.6860 5.8740 11.3120 REMARK 3 T TENSOR REMARK 3 T11: 0.0038 T22: -0.0098 REMARK 3 T33: -0.0440 T12: -0.0041 REMARK 3 T13: 0.0049 T23: -0.0007 REMARK 3 L TENSOR REMARK 3 L11: 1.0863 L22: 1.0630 REMARK 3 L33: 3.3799 L12: -0.1290 REMARK 3 L13: 0.7580 L23: 1.6234 REMARK 3 S TENSOR REMARK 3 S11: -0.0217 S12: -0.1132 S13: -0.0189 REMARK 3 S21: 0.1948 S22: 0.0917 S23: -0.0892 REMARK 3 S31: 0.0380 S32: 0.1214 S33: -0.0700 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 : X 13 X 62 REMARK 3 ORIGIN FOR THE GROUP (A): 39.9220 21.4310 21.5610 REMARK 3 T TENSOR REMARK 3 T11: 0.0109 T22: -0.0096 REMARK 3 T33: -0.0457 T12: -0.0047 REMARK 3 T13: 0.0070 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 0.9576 L22: 1.0037 REMARK 3 L33: 1.6309 L12: 0.1512 REMARK 3 L13: -0.3643 L23: 0.1170 REMARK 3 S TENSOR REMARK 3 S11: 0.0124 S12: -0.0288 S13: 0.0552 REMARK 3 S21: 0.0534 S22: 0.0296 S23: 0.0246 REMARK 3 S31: -0.1042 S32: 0.0611 S33: -0.0420 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 : X 63 X 73 REMARK 3 ORIGIN FOR THE GROUP (A): 35.8620 8.4970 20.9770 REMARK 3 T TENSOR REMARK 3 T11: 0.0226 T22: -0.0182 REMARK 3 T33: -0.0416 T12: 0.0050 REMARK 3 T13: 0.0145 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 5.4023 L22: 1.7331 REMARK 3 L33: 3.0208 L12: 0.8752 REMARK 3 L13: 1.8087 L23: 0.8838 REMARK 3 S TENSOR REMARK 3 S11: -0.0284 S12: -0.0484 S13: -0.0399 REMARK 3 S21: 0.0451 S22: 0.0073 S23: 0.0580 REMARK 3 S31: 0.0557 S32: -0.0247 S33: 0.0212 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 : X 74 X 84 REMARK 3 ORIGIN FOR THE GROUP (A): 21.8140 6.2310 12.0020 REMARK 3 T TENSOR REMARK 3 T11: -0.0157 T22: 0.0275 REMARK 3 T33: -0.0234 T12: 0.0026 REMARK 3 T13: 0.0142 T23: -0.0174 REMARK 3 L TENSOR REMARK 3 L11: 9.4172 L22: 2.6316 REMARK 3 L33: 11.4978 L12: 1.8573 REMARK 3 L13: 6.8078 L23: 2.2050 REMARK 3 S TENSOR REMARK 3 S11: -0.1344 S12: -0.4553 S13: 0.0882 REMARK 3 S21: 0.0098 S22: -0.0736 S23: 0.1425 REMARK 3 S31: -0.2209 S32: -0.6851 S33: 0.2081 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : X 85 X 105 REMARK 3 ORIGIN FOR THE GROUP (A): 29.2480 3.2600 6.1050 REMARK 3 T TENSOR REMARK 3 T11: 0.0130 T22: -0.0011 REMARK 3 T33: -0.0348 T12: -0.0102 REMARK 3 T13: -0.0011 T23: 0.0086 REMARK 3 L TENSOR REMARK 3 L11: 1.4516 L22: 1.6568 REMARK 3 L33: 0.7040 L12: 0.9028 REMARK 3 L13: 0.6679 L23: 0.9614 REMARK 3 S TENSOR REMARK 3 S11: 0.0509 S12: -0.0956 S13: -0.0324 REMARK 3 S21: 0.0579 S22: -0.0346 S23: 0.0155 REMARK 3 S31: 0.0192 S32: -0.0529 S33: -0.0163 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 : X 106 X 123 REMARK 3 ORIGIN FOR THE GROUP (A): 24.3860 10.5360 0.5690 REMARK 3 T TENSOR REMARK 3 T11: 0.0141 T22: -0.0042 REMARK 3 T33: -0.0302 T12: -0.0119 REMARK 3 T13: 0.0163 T23: 0.0195 REMARK 3 L TENSOR REMARK 3 L11: 1.3317 L22: 1.6367 REMARK 3 L33: 2.2770 L12: 0.1110 REMARK 3 L13: 1.0362 L23: 1.3535 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: -0.1046 S13: 0.0825 REMARK 3 S21: 0.1017 S22: -0.0288 S23: 0.2744 REMARK 3 S31: -0.0165 S32: -0.1773 S33: 0.0874 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : X 124 X 153 REMARK 3 ORIGIN FOR THE GROUP (A): 34.4500 10.3890 -3.5740 REMARK 3 T TENSOR REMARK 3 T11: 0.0167 T22: -0.0012 REMARK 3 T33: -0.0352 T12: -0.0224 REMARK 3 T13: -0.0024 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.5261 L22: 0.6959 REMARK 3 L33: 0.5496 L12: 0.3302 REMARK 3 L13: 0.3437 L23: 0.0458 REMARK 3 S TENSOR REMARK 3 S11: -0.0236 S12: 0.0506 S13: -0.0136 REMARK 3 S21: -0.0972 S22: 0.0320 S23: -0.0197 REMARK 3 S31: -0.0196 S32: 0.0153 S33: -0.0084 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : X 154 X 164 REMARK 3 ORIGIN FOR THE GROUP (A): 41.2980 0.5080 0.0610 REMARK 3 T TENSOR REMARK 3 T11: -0.0098 T22: -0.0150 REMARK 3 T33: -0.0394 T12: -0.0071 REMARK 3 T13: 0.0071 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 3.8798 L22: 7.8753 REMARK 3 L33: 2.6194 L12: 0.5820 REMARK 3 L13: 1.5560 L23: 0.9994 REMARK 3 S TENSOR REMARK 3 S11: 0.0586 S12: 0.1075 S13: -0.2443 REMARK 3 S21: -0.1289 S22: 0.1023 S23: -0.2514 REMARK 3 S31: 0.1167 S32: 0.2142 S33: -0.1609 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 REMARK 4 REMARK 4 3DKE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000048147. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JAN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9796,0.9797,0.9742,0.9807 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56299 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 52.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.21400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 13.90 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0-2.2 M NAH2PO4 AND K2HPO4, PH 6.9, REMARK 280 5MM BME, 5MM OXIDIZED BME, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 64.45133 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 32.22567 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 32.22567 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 64.45133 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: X 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 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 O1S EPE X 901 O HOH X 1105 2.01 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 ILE X 29 77.26 -109.40 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 K X 601 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU X 11 O REMARK 620 2 TYR X 18 OH 86.0 REMARK 620 3 HOH X 906 O 131.2 87.7 REMARK 620 4 HOH X 947 O 130.5 97.9 98.3 REMARK 620 5 HOH X 956 O 86.4 161.3 110.0 74.4 REMARK 620 6 HOH X1045 O 63.8 76.4 157.8 69.3 85.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K X 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL X 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL X 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AZI X 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EPE X 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME X 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME X 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HED X 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HED X 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL X 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL X 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 181L RELATED DB: PDB REMARK 900 T4 LYSOZYME L99A BOUND WITH BENZENE AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3DMV RELATED DB: PDB REMARK 900 RELATED ID: 3DMX RELATED DB: PDB REMARK 900 RELATED ID: 3DMZ RELATED DB: PDB REMARK 900 RELATED ID: 3DN0 RELATED DB: PDB REMARK 900 RELATED ID: 3DN1 RELATED DB: PDB REMARK 900 RELATED ID: 3DN2 RELATED DB: PDB REMARK 900 RELATED ID: 3DN3 RELATED DB: PDB REMARK 900 RELATED ID: 3DN4 RELATED DB: PDB REMARK 900 RELATED ID: 3DN6 RELATED DB: PDB REMARK 900 RELATED ID: 3DN8 RELATED DB: PDB REMARK 900 RELATED ID: 3DNA RELATED DB: PDB DBREF 3DKE X 1 164 UNP P00720 LYS_BPT4 1 164 SEQADV 3DKE THR X 54 UNP P00720 CYS 54 ENGINEERED MUTATION SEQADV 3DKE ALA X 97 UNP P00720 CYS 97 ENGINEERED MUTATION SEQADV 3DKE ALA X 99 UNP P00720 LEU 99 ENGINEERED MUTATION SEQADV 3DKE LEU X 102 UNP P00720 MET 102 ENGINEERED MUTATION SEQRES 1 X 164 MSE ASN ILE PHE GLU MSE LEU ARG ILE ASP GLU GLY LEU SEQRES 2 X 164 ARG LEU LYS ILE TYR LYS ASP THR GLU GLY TYR TYR THR SEQRES 3 X 164 ILE GLY ILE GLY HIS LEU LEU THR LYS SER PRO SER LEU SEQRES 4 X 164 ASN ALA ALA LYS SER GLU LEU ASP LYS ALA ILE GLY ARG SEQRES 5 X 164 ASN THR ASN GLY VAL ILE THR LYS ASP GLU ALA GLU LYS SEQRES 6 X 164 LEU PHE ASN GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE SEQRES 7 X 164 LEU ARG ASN ALA LYS LEU LYS PRO VAL TYR ASP SER LEU SEQRES 8 X 164 ASP ALA VAL ARG ARG ALA ALA ALA ILE ASN LEU VAL PHE SEQRES 9 X 164 GLN MSE GLY GLU THR GLY VAL ALA GLY PHE THR ASN SER SEQRES 10 X 164 LEU ARG MSE LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA SEQRES 11 X 164 VAL ASN LEU ALA LYS SER ARG TRP TYR ASN GLN THR PRO SEQRES 12 X 164 ASN ARG ALA LYS ARG VAL ILE THR THR PHE ARG THR GLY SEQRES 13 X 164 THR TRP ASP ALA TYR LYS ASN LEU MODRES 3DKE MSE X 1 MET SELENOMETHIONINE MODRES 3DKE MSE X 6 MET SELENOMETHIONINE MODRES 3DKE MSE X 106 MET SELENOMETHIONINE MODRES 3DKE MSE X 120 MET SELENOMETHIONINE HET MSE X 1 16 HET MSE X 6 8 HET MSE X 106 8 HET MSE X 120 8 HET K X 601 1 HET CL X 701 1 HET CL X 702 1 HET AZI X 401 3 HET EPE X 901 15 HET BME X 805 4 HET BME X 806 4 HET HED X 801 8 HET HED X 802 8 HET GOL X 501 6 HET GOL X 502 6 HETNAM MSE SELENOMETHIONINE HETNAM K POTASSIUM ION HETNAM CL CHLORIDE ION HETNAM AZI AZIDE ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM BME BETA-MERCAPTOETHANOL HETNAM HED 2-HYDROXYETHYL DISULFIDE HETNAM GOL GLYCEROL HETSYN EPE HEPES HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 K K 1+ FORMUL 3 CL 2(CL 1-) FORMUL 5 AZI N3 1- FORMUL 6 EPE C8 H18 N2 O4 S FORMUL 7 BME 2(C2 H6 O S) FORMUL 9 HED 2(C4 H10 O2 S2) FORMUL 11 GOL 2(C3 H8 O3) FORMUL 13 HOH *256(H2 O) HELIX 1 1 ASN X 2 GLY X 12 1 11 HELIX 2 2 SER X 38 GLY X 51 1 14 HELIX 3 3 THR X 59 ASN X 81 1 23 HELIX 4 4 LYS X 83 LEU X 91 1 9 HELIX 5 5 ASP X 92 GLY X 107 1 16 HELIX 6 6 GLU X 108 GLY X 110 5 3 HELIX 7 7 VAL X 111 GLY X 113 5 3 HELIX 8 8 PHE X 114 GLN X 123 1 10 HELIX 9 9 ARG X 125 LYS X 135 1 11 HELIX 10 10 SER X 136 THR X 142 1 7 HELIX 11 11 THR X 142 GLY X 156 1 15 SHEET 1 A 3 ARG X 14 LYS X 19 0 SHEET 2 A 3 TYR X 25 GLY X 28 -1 O THR X 26 N TYR X 18 SHEET 3 A 3 HIS X 31 LEU X 32 -1 O HIS X 31 N ILE X 27 LINK C AMSE X 1 N ASN X 2 1555 1555 1.33 LINK C BMSE X 1 N ASN X 2 1555 1555 1.33 LINK C GLU X 5 N MSE X 6 1555 1555 1.33 LINK C MSE X 6 N LEU X 7 1555 1555 1.33 LINK C GLN X 105 N MSE X 106 1555 1555 1.33 LINK C MSE X 106 N GLY X 107 1555 1555 1.33 LINK C ARG X 119 N MSE X 120 1555 1555 1.33 LINK C MSE X 120 N LEU X 121 1555 1555 1.33 LINK O GLU X 11 K K X 601 1555 1555 2.87 LINK OH TYR X 18 K K X 601 1555 1555 2.76 LINK K K X 601 O HOH X 906 1555 1555 2.83 LINK K K X 601 O HOH X 947 1555 1555 2.72 LINK K K X 601 O HOH X 956 1555 1555 2.75 LINK K K X 601 O HOH X1045 1555 1555 2.88 SITE 1 AC1 6 GLU X 11 TYR X 18 HOH X 906 HOH X 947 SITE 2 AC1 6 HOH X 956 HOH X1045 SITE 1 AC2 6 LYS X 124 THR X 142 ASN X 144 ARG X 145 SITE 2 AC2 6 HOH X 941 HOH X1042 SITE 1 AC3 3 ASN X 132 LYS X 135 HOH X 910 SITE 1 AC4 7 LYS X 19 ARG X 125 TRP X 126 ASP X 127 SITE 2 AC4 7 GLU X 128 HOH X 924 HOH X 935 SITE 1 AC5 13 ASP X 47 LYS X 48 GLY X 51 ASN X 53 SITE 2 AC5 13 GLY X 110 ALA X 112 GLY X 113 PHE X 114 SITE 3 AC5 13 SER X 136 ARG X 137 TRP X 138 HOH X1025 SITE 4 AC5 13 HOH X1105 SITE 1 AC6 5 THR X 34 SER X 36 GLU X 45 ASN X 116 SITE 2 AC6 5 HOH X1098 SITE 1 AC7 7 GLN X 69 ASP X 72 ARG X 96 ASN X 140 SITE 2 AC7 7 HOH X 960 HOH X1027 HOH X1121 SITE 1 AC8 5 ASN X 81 LYS X 83 THR X 115 LEU X 118 SITE 2 AC8 5 HOH X1147 SITE 1 AC9 9 GLU X 22 LYS X 35 GLN X 105 THR X 109 SITE 2 AC9 9 ARG X 137 HOH X 919 HOH X 985 HOH X1067 SITE 3 AC9 9 HOH X1105 SITE 1 BC1 6 GLY X 30 LEU X 32 ASP X 70 PHE X 104 SITE 2 BC1 6 GLY X 107 HOH X1096 SITE 1 BC2 3 ASN X 68 ASP X 72 ILE X 100 CRYST1 60.226 60.226 96.677 90.00 90.00 120.00 P 32 2 1 6 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 0.016604 0.009586 0.000000 0.00000 SCALE2 0.000000 0.019173 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010344 0.00000 HETATM 1 N AMSE X 1 43.725 -2.954 9.223 0.52 12.49 N HETATM 2 N BMSE X 1 43.558 -3.130 8.847 0.48 11.96 N HETATM 3 CA AMSE X 1 42.929 -1.712 9.026 0.52 12.14 C HETATM 4 CA BMSE X 1 42.851 -1.826 8.965 0.48 11.35 C HETATM 5 C AMSE X 1 41.471 -1.882 9.466 0.52 11.26 C HETATM 6 C BMSE X 1 41.490 -1.985 9.634 0.48 10.72 C HETATM 7 O AMSE X 1 40.812 -2.871 9.138 0.52 11.41 O HETATM 8 O BMSE X 1 40.920 -3.077 9.646 0.48 10.69 O HETATM 9 CB AMSE X 1 43.021 -1.252 7.573 0.52 12.67 C HETATM 10 CB BMSE X 1 42.701 -1.193 7.585 0.48 11.68 C HETATM 11 CG AMSE X 1 42.522 0.152 7.325 0.52 14.88 C HETATM 12 CG BMSE X 1 44.028 -0.788 6.959 0.48 13.01 C HETATM 13 SE AMSE X 1 43.465 1.618 8.183 0.52 18.74 SE HETATM 14 SE BMSE X 1 44.698 0.869 7.720 0.48 17.68 SE HETATM 15 CE AMSE X 1 45.310 1.173 7.716 0.52 17.60 C HETATM 16 CE BMSE X 1 43.165 1.913 7.105 0.48 12.29 C