HEADER HYDROLASE 14-SEP-12 4BAF TITLE HEN EGG-WHITE LYSOZYME STRUCTURE IN COMPLEX WITH THE EUROPIUM TRIS- TITLE 2 HYDROXYETHYLTRIAZOLEDIPICOLINATE COMPLEX AT 1.51 A RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME C; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,4-BETA-N-ACETYLMURAMIDASE C, ALLERGEN GAL D IV, GAL D 4, COMPND 5 HEWL, MURAMIDASE, MUCOPEPTIDE N-ACETYLMURAMOYL-HYDROLASE; COMPND 6 EC: 3.2.1.17 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKENS, BANTAM; SOURCE 4 ORGANISM_TAXID: 9031; SOURCE 5 ORGAN: EGG; SOURCE 6 OTHER_DETAILS: ROCHE APPLIED SCIENCE POWDER, CATALOG NUMBER SOURCE 7 10837059001 KEYWDS HYDROLASE, CLICK-CHEMISTRY, ANOMALOUS SCATTERING, DE NOVO PHASING, KEYWDS 2 LANTHANIDE COMPLEX, DIPICOLINATE EXPDTA X-RAY DIFFRACTION AUTHOR R.TALON,R.KAHN,A.GAUTIER,L.NAUTON,E.GIRARD REVDAT 5 06-MAR-19 4BAF 1 REMARK REVDAT 4 01-APR-15 4BAF 1 JRNL REVDAT 3 29-MAY-13 4BAF 1 REMARK REVDAT 2 28-NOV-12 4BAF 1 JRNL REVDAT 1 14-NOV-12 4BAF 0 JRNL AUTH R.TALON,L.NAUTON,J.-L.CANET,R.KAHN,E.GIRARD,A.GAUTIER JRNL TITL CLICKED EUROPIUM DIPICOLINATE COMPLEXES FOR PROTEIN X-RAY JRNL TITL 2 STRUCTURE DETERMINATION. JRNL REF CHEM.COMMUN.(CAMB.) V. 48 11886 2012 JRNL REFN ISSN 1359-7345 JRNL PMID 23123834 JRNL DOI 10.1039/C2CC36982F REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.POMPIDOR,A.D'ALEO,J.VICAT,L.TOUPET,N.GIRAUD,R.KAHN,O.MAURY REMARK 1 TITL PROTEIN CRYSTALLOGRAPHY THROUGH SUPRAMOLECULAR INTERACTIONS REMARK 1 TITL 2 BETWEEN A LANTHANIDE COMPLEX AND ARGININE. REMARK 1 REF ANGEW.CHEM.INT.ED.ENGL. V. 47 3388 2008 REMARK 1 REFN ISSN 1433-7851 REMARK 1 PMID 18350532 REMARK 1 DOI 10.1002/ANIE.200704683 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.POMPIDOR,O.MAURY,J.VICAT,R.KAHN REMARK 1 TITL A DIPICOLINATE LANTHANIDE COMPLEX FOR SOLVING PROTEIN REMARK 1 TITL 2 STRUCTURES USING ANOMALOUS DIFFRACTION. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 66 762 2010 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 20606256 REMARK 1 DOI 10.1107/S0907444910010954 REMARK 1 REFERENCE 3 REMARK 1 AUTH E.GIRARD,L.CHANTALAT,J.VICAT,R.KAHN REMARK 1 TITL GD-HPDO3A, A COMPLEX TO OBTAIN HIGH-PHASING-POWER HEAVY-ATOM REMARK 1 TITL 2 DERIVATIVES FOR SAD AND MAD EXPERIMENTS: RESULTS WITH REMARK 1 TITL 3 TETRAGONAL HEN EGG-WHITE LYSOZYME. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 58 1 2002 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 11752774 REMARK 1 DOI 10.1107/S0907444901016444 REMARK 2 REMARK 2 RESOLUTION. 1.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 18848 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 963 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 31.2100 - 2.8813 1.00 2738 125 0.1671 0.1744 REMARK 3 2 2.8813 - 2.2872 1.00 2592 137 0.1524 0.1838 REMARK 3 3 2.2872 - 1.9981 1.00 2546 148 0.1437 0.1880 REMARK 3 4 1.9981 - 1.8154 1.00 2530 142 0.1442 0.1791 REMARK 3 5 1.8154 - 1.6853 1.00 2527 138 0.1506 0.1525 REMARK 3 6 1.6853 - 1.5860 1.00 2505 137 0.1456 0.1753 REMARK 3 7 1.5860 - 1.5065 0.98 2447 136 0.1806 0.2182 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.45 REMARK 3 B_SOL : 52.58 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.89 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.39800 REMARK 3 B22 (A**2) : -0.39800 REMARK 3 B33 (A**2) : 0.79600 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 1144 REMARK 3 ANGLE : 1.384 1553 REMARK 3 CHIRALITY : 0.090 154 REMARK 3 PLANARITY : 0.006 206 REMARK 3 DIHEDRAL : 26.479 445 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:43) REMARK 3 ORIGIN FOR THE GROUP (A): 20.1386 5.3972 4.6033 REMARK 3 T TENSOR REMARK 3 T11: 0.1120 T22: 0.0861 REMARK 3 T33: 0.1101 T12: -0.0090 REMARK 3 T13: -0.0241 T23: 0.0211 REMARK 3 L TENSOR REMARK 3 L11: 1.4570 L22: 0.9933 REMARK 3 L33: 0.7808 L12: 0.3109 REMARK 3 L13: 0.3334 L23: 0.2701 REMARK 3 S TENSOR REMARK 3 S11: -0.0960 S12: 0.0192 S13: 0.1398 REMARK 3 S21: -0.1084 S22: 0.0505 S23: 0.0634 REMARK 3 S31: -0.1073 S32: -0.0353 S33: 0.0380 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 44:82) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3194 -7.0669 17.7943 REMARK 3 T TENSOR REMARK 3 T11: 0.1344 T22: 0.1306 REMARK 3 T33: 0.1166 T12: -0.0194 REMARK 3 T13: -0.0088 T23: 0.0334 REMARK 3 L TENSOR REMARK 3 L11: 1.7656 L22: 1.6608 REMARK 3 L33: 1.1295 L12: -0.0522 REMARK 3 L13: -0.0542 L23: 0.2903 REMARK 3 S TENSOR REMARK 3 S11: -0.0371 S12: -0.2777 S13: -0.1520 REMARK 3 S21: 0.2102 S22: -0.0147 S23: 0.0315 REMARK 3 S31: 0.0525 S32: 0.1567 S33: 0.0202 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 83:122) REMARK 3 ORIGIN FOR THE GROUP (A): 23.8271 2.7874 11.1114 REMARK 3 T TENSOR REMARK 3 T11: 0.1121 T22: 0.0858 REMARK 3 T33: 0.0963 T12: -0.0009 REMARK 3 T13: -0.0024 T23: 0.0179 REMARK 3 L TENSOR REMARK 3 L11: 1.9150 L22: 0.8553 REMARK 3 L33: 0.8702 L12: 0.1300 REMARK 3 L13: 0.0548 L23: 0.4592 REMARK 3 S TENSOR REMARK 3 S11: 0.0004 S12: -0.0619 S13: 0.0877 REMARK 3 S21: -0.0006 S22: 0.0079 S23: 0.0318 REMARK 3 S31: 0.0335 S32: -0.0042 S33: -0.0122 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 123:129) REMARK 3 ORIGIN FOR THE GROUP (A): 23.6749 11.9627 -3.9767 REMARK 3 T TENSOR REMARK 3 T11: 0.2798 T22: 0.1800 REMARK 3 T33: 0.1794 T12: -0.0155 REMARK 3 T13: -0.0092 T23: 0.0769 REMARK 3 L TENSOR REMARK 3 L11: 2.6884 L22: 4.5335 REMARK 3 L33: 2.7783 L12: -1.5417 REMARK 3 L13: 0.9694 L23: -1.5962 REMARK 3 S TENSOR REMARK 3 S11: -0.0155 S12: 0.2683 S13: 0.3721 REMARK 3 S21: -0.2825 S22: 0.0185 S23: 0.0326 REMARK 3 S31: -0.2958 S32: -0.0978 S33: 0.0101 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 1130:1132) REMARK 3 ORIGIN FOR THE GROUP (A): 22.7704 1.3460 -9.2033 REMARK 3 T TENSOR REMARK 3 T11: 0.1426 T22: 0.1711 REMARK 3 T33: 0.0567 T12: -0.0039 REMARK 3 T13: -0.0096 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 0.3757 L22: 1.1653 REMARK 3 L33: 1.5878 L12: 0.6324 REMARK 3 L13: 0.4654 L23: 0.4604 REMARK 3 S TENSOR REMARK 3 S11: 0.0532 S12: 0.1733 S13: 0.0232 REMARK 3 S21: -0.1549 S22: -0.0637 S23: 0.0279 REMARK 3 S31: 0.1148 S32: 0.0397 S33: -0.0034 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 1133) REMARK 3 ORIGIN FOR THE GROUP (A): 21.9927 -2.9581 15.4704 REMARK 3 T TENSOR REMARK 3 T11: 0.3550 T22: 0.4006 REMARK 3 T33: 0.2817 T12: -0.0987 REMARK 3 T13: 0.0124 T23: -0.0087 REMARK 3 L TENSOR REMARK 3 L11: 2.2015 L22: 3.5974 REMARK 3 L33: 3.3405 L12: 1.7153 REMARK 3 L13: -1.6320 L23: -3.2675 REMARK 3 S TENSOR REMARK 3 S11: -0.1059 S12: 0.8159 S13: -1.2030 REMARK 3 S21: -0.1134 S22: -0.2568 S23: 1.7101 REMARK 3 S31: 0.8869 S32: -1.3833 S33: 0.3666 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: LIGAND OCCUPANCIES WERE FIXED ACCORDING REMARK 3 TO THE ANTHANIDE ION OCCUPANCY REMARK 4 REMARK 4 4BAF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1290054060. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A 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 : EITHER SI111 OR SI311 CRYSTALS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18899 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.510 REMARK 200 RESOLUTION RANGE LOW (A) : 38.880 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 13.60 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.70 REMARK 200 R MERGE FOR SHELL (I) : 0.32000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: MAD DATA AT TWO WAVELENGTHS WERE COLLECTED. THE FIRST DATA REMARK 200 SET AT THE EUROPIUM LIII EDGE AND THE SECOND ONE AT THE SELENIUM REMARK 200 K EDGE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 27.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE PH 4.6, 0.4-1.5 M REMARK 280 SODIUM CHLORIDE, 0.00046 M PROTEIN, 0.001.4 M LANTHANIDE COMPLEX, REMARK 280 293 K, 3-7 DAYS REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 18.94800 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.88150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.88150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.42200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.88150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.88150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 9.47400 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.88150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.88150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.42200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.88150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.88150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 9.47400 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 18.94800 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2065 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2092 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2139 LIES ON A SPECIAL POSITION. 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 O HOH A 2144 O HOH A 2145 1.98 REMARK 500 NH1 ARG A 68 O HOH A 2076 1.98 REMARK 500 O3 IKX A 1132 O HOH A 2012 2.12 REMARK 500 O HOH A 2067 O HOH A 2068 2.13 REMARK 500 O HOH A 2011 O HOH A 2147 2.13 REMARK 500 O LEU A 129 O HOH A 2138 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2068 O HOH A 2068 8555 1.76 REMARK 500 O HOH A 2018 O HOH A 2018 7555 2.09 REMARK 500 O HOH A 2016 O HOH A 2056 4555 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 18 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 68 28.38 -140.67 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 EU3 A1129 EU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 IKX A1130 O1 REMARK 620 2 IKX A1130 N1 63.1 REMARK 620 3 IKX A1130 O4 127.1 64.1 REMARK 620 4 IKX A1131 O1 88.1 71.2 78.4 REMARK 620 5 IKX A1131 O4 75.4 134.2 149.0 127.9 REMARK 620 6 IKX A1131 N1 71.8 115.4 137.5 63.4 64.6 REMARK 620 7 IKX A1132 O1 146.7 136.0 79.7 77.9 89.6 74.9 REMARK 620 8 IKX A1132 N1 135.4 124.9 75.9 136.3 73.3 119.6 63.3 REMARK 620 9 IKX A1132 O4 80.2 75.6 83.9 146.6 79.3 138.5 126.6 63.5 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EU3 A 1129 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IKX A 1130 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IKX A 1131 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IKX A 1132 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1133 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1134 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1135 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1136 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1137 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1138 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1139 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1140 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1141 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1142 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1144 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZVQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PROTEOLYZED LYSOZYME REMARK 900 RELATED ID: 4A7D RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF HEWL FLASH-COOLED AT HIGH PRESSURE REMARK 900 RELATED ID: 4A8A RELATED DB: PDB REMARK 900 ASYMMETRIC CRYO-EM RECONSTRUCTION OF E. COLI DEGQ 12- MER IN REMARK 900 COMPLEX WITH LYSOZYME REMARK 900 RELATED ID: 4A8B RELATED DB: PDB REMARK 900 SYMMETRIZED CRYO-EM RECONSTRUCTION OF E. COLI DEGQ 12 -MER IN REMARK 900 COMPLEX WITH LYSOZYMES REMARK 900 RELATED ID: 4AGA RELATED DB: PDB REMARK 900 HOFMEISTER EFFECTS OF IONIC LIQUIDS IN PROTEIN CRYSTALLIZATION: REMARK 900 DIRECT AND WATER-MEDIATED INTERACTIONS REMARK 900 RELATED ID: 4AXT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEN EGG WHITE LYSOZYME FROM AN AUTO HARVESTED REMARK 900 CRYSTAL, CONTROL EXPERIMENT REMARK 900 RELATED ID: 4B0D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEN EGG WHITE LYSOZYME FROM AN AUTO HARVESTED REMARK 900 CRYSTAL REMARK 900 RELATED ID: 4B1A RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LYSOZYME WITH KEGGIN MOLECULE REMARK 900 RELATED ID: 4B49 RELATED DB: PDB REMARK 900 1.15 A STRUCTURE OF LYSOZYME CRYSTALLIZED WITHOUT 2- METHYL-2,4- REMARK 900 PENTANEDIOL REMARK 900 RELATED ID: 4B4E RELATED DB: PDB REMARK 900 1.00 A STRUCTURE OF LYSOZYME CRYSTALLIZED WITH (R)-2 -METHYL-2,4- REMARK 900 PENTANEDIOL REMARK 900 RELATED ID: 4B4I RELATED DB: PDB REMARK 900 1.20 A STRUCTURE OF LYSOZYME CRYSTALLIZED WITH (S)-2 -METHYL-2,4- REMARK 900 PENTANEDIOL REMARK 900 RELATED ID: 4B4J RELATED DB: PDB REMARK 900 1.25 A STRUCTURE OF LYSOZYME CRYSTALLIZED WITH (RS)- 2-METHYL-2,4- REMARK 900 PENTANEDIOL REMARK 900 RELATED ID: 4BAD RELATED DB: PDB REMARK 900 HEN EGG-WHITE LYSOZYME STRUCTURE IN COMPLEX WITH THE EUROPIUM TRIS- REMARK 900 HYDROXYMETHYLTRIAZOLEDIPICOLINATE COMPLEX AT 1 .35 A RESOLUTION. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE PROVIDED CORRESPOND TO THE RESIDUES 19 TO 147, REMARK 999 I.E WITHOUT THE SIGNAL PEPTIDE DBREF 4BAF A 1 129 UNP P00698 LYSC_CHICK 19 147 SEQRES 1 A 129 LYS VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET LYS SEQRES 2 A 129 ARG HIS GLY LEU ASP ASN TYR ARG GLY TYR SER LEU GLY SEQRES 3 A 129 ASN TRP VAL CYS ALA ALA LYS PHE GLU SER ASN PHE ASN SEQRES 4 A 129 THR GLN ALA THR ASN ARG ASN THR ASP GLY SER THR ASP SEQRES 5 A 129 TYR GLY ILE LEU GLN ILE ASN SER ARG TRP TRP CYS ASN SEQRES 6 A 129 ASP GLY ARG THR PRO GLY SER ARG ASN LEU CYS ASN ILE SEQRES 7 A 129 PRO CYS SER ALA LEU LEU SER SER ASP ILE THR ALA SER SEQRES 8 A 129 VAL ASN CYS ALA LYS LYS ILE VAL SER ASP GLY ASN GLY SEQRES 9 A 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS LYS GLY SEQRES 10 A 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU HET EU3 A1129 1 HET IKX A1130 20 HET IKX A1131 20 HET IKX A1132 20 HET ACT A1133 4 HET CL A1134 1 HET CL A1135 1 HET CL A1136 1 HET CL A1137 1 HET CL A1138 1 HET CL A1139 1 HET NA A1140 1 HET NA A1141 1 HET CL A1142 1 HET CL A1143 1 HET CL A1144 1 HETNAM EU3 EUROPIUM (III) ION HETNAM IKX 4-(4-(2-HYDROXYETHYL)-1H-1,2,3-TRIAZOL-1-YL)PYRIDINE-2, HETNAM 2 IKX 6-DICARBOXYLIC ACID HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 2 EU3 EU 3+ FORMUL 3 IKX 3(C11 H12 N4 O5) FORMUL 6 ACT C2 H3 O2 1- FORMUL 7 CL 9(CL 1-) FORMUL 13 NA 2(NA 1+) FORMUL 18 HOH *148(H2 O) HELIX 1 1 GLY A 4 HIS A 15 1 12 HELIX 2 2 SER A 24 ASN A 37 1 14 HELIX 3 3 CYS A 80 SER A 85 5 6 HELIX 4 4 ILE A 88 SER A 100 1 13 HELIX 5 5 ASN A 103 ALA A 107 5 5 HELIX 6 6 TRP A 108 CYS A 115 1 8 HELIX 7 7 ASP A 119 ARG A 125 5 7 SHEET 1 AA 3 THR A 43 ARG A 45 0 SHEET 2 AA 3 THR A 51 TYR A 53 -1 O ASP A 52 N ASN A 44 SHEET 3 AA 3 ILE A 58 ASN A 59 -1 O ILE A 58 N TYR A 53 SSBOND 1 CYS A 6 CYS A 127 1555 1555 2.04 SSBOND 2 CYS A 30 CYS A 115 1555 1555 2.04 SSBOND 3 CYS A 64 CYS A 80 1555 1555 2.03 SSBOND 4 CYS A 76 CYS A 94 1555 1555 2.05 LINK O1 IKX A1130 EU EU3 A1129 1555 1555 2.52 LINK N1 IKX A1130 EU EU3 A1129 1555 1555 2.57 LINK O4 IKX A1130 EU EU3 A1129 1555 1555 2.45 LINK O1 IKX A1131 EU EU3 A1129 1555 1555 2.57 LINK O4 IKX A1131 EU EU3 A1129 1555 1555 2.51 LINK N1 IKX A1131 EU EU3 A1129 1555 1555 2.55 LINK O1 IKX A1132 EU EU3 A1129 1555 1555 2.52 LINK N1 IKX A1132 EU EU3 A1129 1555 1555 2.56 LINK O4 IKX A1132 EU EU3 A1129 1555 1555 2.53 SITE 1 AC1 3 IKX A1130 IKX A1131 IKX A1132 SITE 1 AC2 12 LYS A 33 PHE A 38 ASP A 101 GLY A 117 SITE 2 AC2 12 TRP A 123 EU3 A1129 IKX A1131 IKX A1132 SITE 3 AC2 12 HOH A2010 HOH A2011 HOH A2141 HOH A2142 SITE 1 AC3 12 TRP A 62 TRP A 63 LEU A 75 ASP A 101 SITE 2 AC3 12 ARG A 125 EU3 A1129 IKX A1130 IKX A1132 SITE 3 AC3 12 CL A1143 HOH A2120 HOH A2143 HOH A2144 SITE 1 AC4 14 GLY A 4 ARG A 5 GLU A 7 ARG A 14 SITE 2 AC4 14 LEU A 75 EU3 A1129 IKX A1130 IKX A1131 SITE 3 AC4 14 CL A1138 HOH A2010 HOH A2011 HOH A2012 SITE 4 AC4 14 HOH A2051 HOH A2146 SITE 1 AC5 8 GLN A 57 ILE A 58 ASN A 59 TRP A 63 SITE 2 AC5 8 ALA A 107 TRP A 108 CL A1143 HOH A2080 SITE 1 AC6 2 TYR A 23 ASN A 113 SITE 1 AC7 4 SER A 24 GLY A 26 GLN A 121 NA A1141 SITE 1 AC8 3 ASN A 65 PRO A 79 NA A1140 SITE 1 AC9 5 ASN A 65 GLY A 67 ARG A 68 THR A 69 SITE 2 AC9 5 HOH A2085 SITE 1 BC1 6 GLY A 4 CYS A 6 GLU A 7 IKX A1132 SITE 2 BC1 6 HOH A2012 HOH A2022 SITE 1 BC2 5 ALA A 42 ASN A 44 ARG A 68 HOH A2059 SITE 2 BC2 5 HOH A2060 SITE 1 BC3 4 ASN A 74 ILE A 78 PRO A 79 CL A1136 SITE 1 BC4 1 CL A1135 SITE 1 BC5 1 ILE A 88 SITE 1 BC6 4 ASN A 59 TRP A 63 IKX A1131 ACT A1133 SITE 1 BC7 2 ARG A 73 ASN A 74 CRYST1 77.763 77.763 37.896 90.00 90.00 90.00 P 43 21 2 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 0.012860 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012860 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026388 0.00000