HEADER HYDROLASE 02-OCT-13 4N0J TITLE CRYSTAL STRUCTURE OF DIMETHYLLYSINE HEN EGG-WHITE LYSOZYME IN COMPLEX TITLE 2 WITH SCLX4 AT 1.9 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME C; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 1,4-BETA-N-ACETYLMURAMIDASE C, ALLERGEN GAL D IV; COMPND 5 EC: 3.2.1.17 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: BANTAM,CHICKENS; SOURCE 4 ORGANISM_TAXID: 9031 KEYWDS HYDROLASE (O-GLYCOSYL), HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR R.E.MCGOVERN,P.B.CROWLEY REVDAT 3 20-SEP-23 4N0J 1 REMARK SEQADV SSBOND LINK REVDAT 2 21-JAN-15 4N0J 1 JRNL REVDAT 1 12-NOV-14 4N0J 0 JRNL AUTH R.E.MCGOVERN,B.D.SNARR,J.A.LYONS,J.MCFARLANE,A.L.WHITING, JRNL AUTH 2 I.PACI,F.HOF,P.B.CROWLEY JRNL TITL STRUCTURAL STUDY OF A SMALL MOLECULE RECEPTOR BOUND TO JRNL TITL 2 DIMETHYLLYSINE IN LYSOZYME. JRNL REF CHEM SCI V. 6 442 2015 JRNL REFN ISSN 2041-6520 JRNL PMID 25530835 JRNL DOI 10.1039/C4SC02383H REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 18582 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1008 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1270 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.03 REMARK 3 BIN R VALUE (WORKING SET) : 0.2140 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.2720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2030 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 228 REMARK 3 SOLVENT ATOMS : 191 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.53000 REMARK 3 B33 (A**2) : 0.60000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.20000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.178 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.160 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2374 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3285 ; 1.194 ; 1.852 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 276 ; 5.743 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 106 ;35.612 ;23.208 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 299 ;12.975 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;15.619 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 336 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1817 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1052 ; 0.744 ; 1.233 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1317 ; 1.272 ; 1.841 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1340 ; 0.983 ; 1.453 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4N0J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-OCT-13. REMARK 100 THE DEPOSITION ID IS D_1000082598. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 198.8 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95372 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27755 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.674 REMARK 200 RESOLUTION RANGE LOW (A) : 31.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 1.02600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4IPQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6 % PEG 8000, 100 MM, MAGNESIUM REMARK 280 CHLORIDE, 50 MM SODIUM CHLORIDE, 100 MM SODIUM CACODYLATE, PH REMARK 280 6.1, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.15K 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 15.10000 REMARK 290 SMTRY3 2 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 OD1 ASN A 106 O5 T3Y A 201 2.16 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 24.48 -145.38 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 MG A 208 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 35 OE2 REMARK 620 2 HOH A 317 O 89.3 REMARK 620 3 HOH A 321 O 105.4 74.2 REMARK 620 4 HOH A 325 O 95.3 92.9 155.2 REMARK 620 5 HOH A 385 O 92.6 168.2 94.1 98.5 REMARK 620 6 HOH A 387 O 171.8 91.4 67.1 92.8 85.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 207 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 60 O REMARK 620 2 CYS A 64 O 87.6 REMARK 620 3 SER A 72 OG 83.6 167.1 REMARK 620 4 ARG A 73 O 95.2 90.2 100.1 REMARK 620 5 HOH A 308 O 89.5 85.7 84.7 173.6 REMARK 620 6 HOH A 338 O 169.9 101.2 86.8 89.7 86.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 207 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 35 OE2 REMARK 620 2 HOH B 357 O 155.7 REMARK 620 3 HOH B 358 O 116.4 76.2 REMARK 620 4 HOH B 391 O 86.9 84.9 155.7 REMARK 620 5 HOH B 394 O 75.9 83.4 91.2 101.8 REMARK 620 6 HOH B 395 O 96.9 106.0 80.6 90.2 165.4 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 T3Y A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T3Y A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T3Y B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE T3Y B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 207 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4IPQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEN EGG WHITE LYSOZYME IN COMPLEX WITH SCLX4 REMARK 900 AT 2.2 A RESOLUTION REMARK 900 RELATED ID: 4IPR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEN EGG WHITE LYSOZYME IN COMPLEX WITH SCLX4 REMARK 900 AT 1.7 A RESOLUTION DBREF 4N0J A 2 129 UNP P00698 LYSC_CHICK 20 147 DBREF 4N0J B 2 129 UNP P00698 LYSC_CHICK 20 147 SEQADV 4N0J DM0 A 1 UNP P00698 EXPRESSION TAG SEQADV 4N0J DM0 B 1 UNP P00698 EXPRESSION TAG SEQRES 1 A 129 DM0 VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET MLY 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 MLY 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 MLY MLY ILE VAL SER ASP GLY ASN GLY SEQRES 9 A 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS MLY GLY SEQRES 10 A 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU SEQRES 1 B 129 DM0 VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET MLY SEQRES 2 B 129 ARG HIS GLY LEU ASP ASN TYR ARG GLY TYR SER LEU GLY SEQRES 3 B 129 ASN TRP VAL CYS ALA ALA MLY PHE GLU SER ASN PHE ASN SEQRES 4 B 129 THR GLN ALA THR ASN ARG ASN THR ASP GLY SER THR ASP SEQRES 5 B 129 TYR GLY ILE LEU GLN ILE ASN SER ARG TRP TRP CYS ASN SEQRES 6 B 129 ASP GLY ARG THR PRO GLY SER ARG ASN LEU CYS ASN ILE SEQRES 7 B 129 PRO CYS SER ALA LEU LEU SER SER ASP ILE THR ALA SER SEQRES 8 B 129 VAL ASN CYS ALA MLY MLY ILE VAL SER ASP GLY ASN GLY SEQRES 9 B 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS MLY GLY SEQRES 10 B 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU MODRES 4N0J DM0 A 1 LYS MODRES 4N0J MLY A 13 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY A 33 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY A 96 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY A 97 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY A 116 LYS N-DIMETHYL-LYSINE MODRES 4N0J DM0 B 1 LYS MODRES 4N0J MLY B 13 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY B 33 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY B 96 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY B 97 LYS N-DIMETHYL-LYSINE MODRES 4N0J MLY B 116 LYS N-DIMETHYL-LYSINE HET DM0 A 1 13 HET MLY A 13 11 HET MLY A 33 11 HET MLY A 96 11 HET MLY A 97 11 HET MLY A 116 11 HET DM0 B 1 13 HET MLY B 13 11 HET MLY B 33 11 HET MLY B 96 11 HET MLY B 97 11 HET MLY B 116 11 HET T3Y A 201 48 HET T3Y A 202 48 HET CL A 203 1 HET GOL A 204 6 HET GOL A 205 6 HET GOL A 206 6 HET NA A 207 1 HET MG A 208 1 HET T3Y B 201 48 HET T3Y B 202 48 HET CL B 203 1 HET CL B 204 1 HET GOL B 205 6 HET GOL B 206 6 HET MG B 207 1 HETNAM DM0 N~2~,N~2~,N~6~,N~6~-TETRAMETHYL-L-LYSINE HETNAM MLY N-DIMETHYL-LYSINE HETNAM T3Y 25,26,27,28-TETRAHYDROXYPENTACYCLO[19.3.1.1~3,7~.1~9, HETNAM 2 T3Y 13~.1~15,19~]OCTACOSA-1(25),3(28),4,6,9(27),10,12, HETNAM 3 T3Y 15(26),16,18,21,23-DODECAENE-5,11,17,23-TETRASULFONIC HETNAM 4 T3Y ACID HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETNAM MG MAGNESIUM ION HETSYN T3Y 5,11,17,23-TETRA-SULPHONATO-CALIX[4]ARENE-25,26,27,28- HETSYN 2 T3Y TETROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 DM0 2(C10 H22 N2 O2) FORMUL 1 MLY 10(C8 H18 N2 O2) FORMUL 3 T3Y 4(C28 H24 O16 S4) FORMUL 5 CL 3(CL 1-) FORMUL 6 GOL 5(C3 H8 O3) FORMUL 9 NA NA 1+ FORMUL 10 MG 2(MG 2+) FORMUL 18 HOH *191(H2 O) HELIX 1 1 GLY A 4 HIS A 15 1 12 HELIX 2 2 ASN A 19 TYR A 23 5 5 HELIX 3 3 SER A 24 ASN A 37 1 14 HELIX 4 4 PRO A 79 SER A 85 5 7 HELIX 5 5 ILE A 88 ASP A 101 1 14 HELIX 6 6 GLY A 104 ALA A 107 5 4 HELIX 7 7 TRP A 108 CYS A 115 1 8 HELIX 8 8 ASP A 119 ILE A 124 5 6 HELIX 9 9 GLY B 4 HIS B 15 1 12 HELIX 10 10 ASN B 19 TYR B 23 5 5 HELIX 11 11 SER B 24 ASN B 37 1 14 HELIX 12 12 PRO B 79 SER B 85 5 7 HELIX 13 13 ILE B 88 GLY B 102 1 15 HELIX 14 14 GLY B 104 ALA B 107 5 4 HELIX 15 15 TRP B 108 CYS B 115 1 8 HELIX 16 16 ASP B 119 ILE B 124 5 6 SHEET 1 A 3 THR A 43 ARG A 45 0 SHEET 2 A 3 THR A 51 TYR A 53 -1 O ASP A 52 N ASN A 44 SHEET 3 A 3 ILE A 58 ASN A 59 -1 O ILE A 58 N TYR A 53 SHEET 1 B 3 THR B 43 ARG B 45 0 SHEET 2 B 3 THR B 51 TYR B 53 -1 O ASP B 52 N ASN B 44 SHEET 3 B 3 ILE B 58 ASN B 59 -1 O ILE B 58 N TYR B 53 SSBOND 1 CYS A 6 CYS A 127 1555 1555 2.03 SSBOND 2 CYS A 30 CYS A 115 1555 1555 2.04 SSBOND 3 CYS A 64 CYS A 80 1555 1555 2.05 SSBOND 4 CYS A 76 CYS A 94 1555 1555 2.04 SSBOND 5 CYS B 6 CYS B 127 1555 1555 2.04 SSBOND 6 CYS B 30 CYS B 115 1555 1555 2.03 SSBOND 7 CYS B 64 CYS B 80 1555 1555 2.05 SSBOND 8 CYS B 76 CYS B 94 1555 1555 2.06 LINK C DM0 A 1 N VAL A 2 1555 1555 1.33 LINK C MET A 12 N MLY A 13 1555 1555 1.34 LINK C MLY A 13 N ARG A 14 1555 1555 1.34 LINK C ALA A 32 N MLY A 33 1555 1555 1.33 LINK C MLY A 33 N PHE A 34 1555 1555 1.32 LINK C ALA A 95 N MLY A 96 1555 1555 1.33 LINK C MLY A 96 N MLY A 97 1555 1555 1.34 LINK C MLY A 97 N ILE A 98 1555 1555 1.33 LINK C CYS A 115 N MLY A 116 1555 1555 1.33 LINK C MLY A 116 N GLY A 117 1555 1555 1.33 LINK C DM0 B 1 N VAL B 2 1555 1555 1.33 LINK C MET B 12 N MLY B 13 1555 1555 1.33 LINK C MLY B 13 N ARG B 14 1555 1555 1.33 LINK C ALA B 32 N MLY B 33 1555 1555 1.33 LINK C MLY B 33 N PHE B 34 1555 1555 1.33 LINK C ALA B 95 N MLY B 96 1555 1555 1.33 LINK C MLY B 96 N MLY B 97 1555 1555 1.34 LINK C MLY B 97 N ILE B 98 1555 1555 1.33 LINK C CYS B 115 N MLY B 116 1555 1555 1.34 LINK C MLY B 116 N GLY B 117 1555 1555 1.33 LINK OE2 GLU A 35 MG MG A 208 1555 1555 2.13 LINK O SER A 60 NA NA A 207 1555 1555 2.38 LINK O CYS A 64 NA NA A 207 1555 1555 2.37 LINK OG SER A 72 NA NA A 207 1555 1555 2.30 LINK O ARG A 73 NA NA A 207 1555 1555 2.47 LINK NA NA A 207 O HOH A 308 1555 1555 2.47 LINK NA NA A 207 O HOH A 338 1555 1555 2.43 LINK MG MG A 208 O HOH A 317 1555 1555 2.44 LINK MG MG A 208 O HOH A 321 1555 1555 2.30 LINK MG MG A 208 O HOH A 325 1555 1555 2.11 LINK MG MG A 208 O HOH A 385 1555 1555 1.97 LINK MG MG A 208 O HOH A 387 1555 1555 2.45 LINK OE2 GLU B 35 MG MG B 207 1555 1555 2.31 LINK MG MG B 207 O HOH B 357 1555 1555 2.29 LINK MG MG B 207 O HOH B 358 1555 1555 2.21 LINK MG MG B 207 O HOH B 391 1555 1555 1.93 LINK MG MG B 207 O HOH B 394 1555 1555 2.29 LINK MG MG B 207 O HOH B 395 1555 1555 2.08 SITE 1 AC1 20 TYR A 23 ASN A 106 TRP A 111 ARG A 112 SITE 2 AC1 20 MLY A 116 GLY A 117 GOL A 204 HOH A 326 SITE 3 AC1 20 HOH A 370 ARG B 5 MLY B 33 PHE B 38 SITE 4 AC1 20 PRO B 70 GLY B 71 TRP B 123 HOH B 336 SITE 5 AC1 20 HOH B 338 HOH B 383 HOH B 390 HOH B 392 SITE 1 AC2 15 DM0 A 1 PHE A 3 GLU A 7 ALA A 10 SITE 2 AC2 15 ALA A 11 ARG A 14 HIS A 15 HOH A 330 SITE 3 AC2 15 HOH A 331 HOH A 332 HOH A 353 HOH A 354 SITE 4 AC2 15 HOH A 355 HOH A 364 HOH A 365 SITE 1 AC3 3 SER A 24 GLY A 26 GLN A 121 SITE 1 AC4 6 ASN A 27 GLY A 117 THR A 118 T3Y A 201 SITE 2 AC4 6 HOH A 306 ARG B 114 SITE 1 AC5 6 DM0 A 1 GLY A 16 ASP A 18 ASN A 19 SITE 2 AC5 6 TYR A 20 GLN A 41 SITE 1 AC6 7 PHE A 34 ARG A 114 THR A 118 ASP A 119 SITE 2 AC6 7 ALA A 122 TRP A 123 T3Y B 201 SITE 1 AC7 6 SER A 60 CYS A 64 SER A 72 ARG A 73 SITE 2 AC7 6 HOH A 308 HOH A 338 SITE 1 AC8 6 GLU A 35 HOH A 317 HOH A 321 HOH A 325 SITE 2 AC8 6 HOH A 385 HOH A 387 SITE 1 AC9 22 ARG A 5 MLY A 33 GLY A 71 SER A 72 SITE 2 AC9 22 ARG A 73 ALA A 122 TRP A 123 GOL A 206 SITE 3 AC9 22 HOH A 314 HOH A 318 HOH A 384 ASN B 106 SITE 4 AC9 22 TRP B 111 ARG B 112 MLY B 116 GLY B 117 SITE 5 AC9 22 GOL B 205 HOH B 301 HOH B 306 HOH B 315 SITE 6 AC9 22 HOH B 323 HOH B 350 SITE 1 BC1 12 DM0 B 1 PHE B 3 GLU B 7 ALA B 10 SITE 2 BC1 12 ALA B 11 ARG B 14 HIS B 15 HOH B 333 SITE 3 BC1 12 HOH B 343 HOH B 344 HOH B 378 HOH B 396 SITE 1 BC2 4 GLY B 4 ARG B 5 CYS B 6 GLU B 7 SITE 1 BC3 5 SER B 24 GLY B 26 GLN B 121 GOL B 206 SITE 2 BC3 5 HOH B 352 SITE 1 BC4 7 PHE A 34 ARG A 114 ASN B 27 MLY B 116 SITE 2 BC4 7 GLY B 117 T3Y B 201 HOH B 388 SITE 1 BC5 6 MLY B 13 ASP B 18 SER B 24 GLN B 121 SITE 2 BC5 6 ILE B 124 CL B 204 SITE 1 BC6 6 GLU B 35 HOH B 357 HOH B 358 HOH B 391 SITE 2 BC6 6 HOH B 394 HOH B 395 CRYST1 45.850 30.200 94.210 90.00 96.31 90.00 P 1 21 1 4 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 0.021810 0.000000 0.002412 0.00000 SCALE2 0.000000 0.033113 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010679 0.00000 HETATM 1 N DM0 A 1 8.059 -5.355 -40.336 1.00 15.09 N HETATM 2 CA DM0 A 1 9.360 -4.708 -40.709 1.00 15.12 C HETATM 3 CB DM0 A 1 9.059 -3.702 -41.834 1.00 16.48 C HETATM 4 CG DM0 A 1 9.898 -2.435 -41.810 1.00 19.06 C HETATM 5 CD DM0 A 1 10.621 -2.211 -43.121 1.00 20.97 C HETATM 6 CE DM0 A 1 11.802 -1.270 -42.894 1.00 23.32 C HETATM 7 NZ DM0 A 1 12.704 -1.205 -44.062 1.00 25.42 N HETATM 8 CH1 DM0 A 1 13.131 -2.553 -44.507 1.00 25.80 C HETATM 9 CH2 DM0 A 1 12.046 -0.454 -45.153 1.00 26.22 C HETATM 10 C DM0 A 1 9.984 -3.997 -39.526 1.00 14.01 C HETATM 11 O DM0 A 1 9.296 -3.339 -38.744 1.00 12.71 O HETATM 12 CM1 DM0 A 1 7.474 -6.078 -41.485 1.00 15.73 C HETATM 13 CM2 DM0 A 1 8.237 -6.312 -39.231 1.00 15.55 C