PDB Short entry for 3CDO HEADER HYDROLASE 27-FEB-08 3CDO TITLE BACTERIOPHAGE T4 LYSOZYME MUTANT R96V IN WILDTYPE BACKGROUND AT LOW TITLE 2 TEMPERATURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME; COMPND 3 CHAIN: A, B, C, D; 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_COMMON: VIRUS; SOURCE 4 GENE: E; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: RR1; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHS1403 KEYWDS BACTERIOPHAGE T4 LYSOZYME, VIRAL LYSOZYME, MUTATIONAL ANALYSIS, KEYWDS 2 PROTEIN ENGINEERING, THERMAL STABILITY, PROTEIN STABILITY, PROTEIN KEYWDS 3 ELECTROSTATICS, PROTEIN STRUCTURE, CHARGE BURIAL, HYDROGEN BONDING, KEYWDS 4 HELIX DIPOLE, PROTEIN CREVICES, STERIC STRAIN, TEMPERATURE-SENSITIVE KEYWDS 5 MUTANT, PHOSPHATE BINDING SITE, MPD BINDING SITE, CHLORIDE BINDING KEYWDS 6 SITE, ANTIMICROBIAL, BACTERIOLYTIC ENZYME, GLYCOSIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR B.H.M.MOOERS REVDAT 4 30-AUG-23 3CDO 1 REMARK REVDAT 3 20-OCT-21 3CDO 1 REMARK SEQADV REVDAT 2 05-MAY-09 3CDO 1 JRNL REVDAT 1 17-FEB-09 3CDO 0 JRNL AUTH B.H.MOOERS,W.A.BAASE,J.W.WRAY,B.W.MATTHEWS JRNL TITL CONTRIBUTIONS OF ALL 20 AMINO ACIDS AT SITE 96 TO THE JRNL TITL 2 STABILITY AND STRUCTURE OF T4 LYSOZYME. JRNL REF PROTEIN SCI. V. 18 871 2009 JRNL REFN ISSN 0961-8368 JRNL PMID 19384988 JRNL DOI 10.1002/PRO.94 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.H.MOOERS,D.E.TRONRUD,B.W.MATTHEWS REMARK 1 TITL EVALUATION AT ATOMIC RESOLUTION OF THE ROLE OF STRAIN IN REMARK 1 TITL 2 DESTABILIZING THE TEMPERATURE-SENSITIVE T4 LYSOZYME MUTANT REMARK 1 TITL 3 ARG 96 --> HIS. REMARK 1 REF PROTEIN SCI. V. 18 863 2009 REMARK 1 REFN ISSN 0961-8368 REMARK 1 PMID 19384984 REMARK 1 DOI 10.1002/PRO.93 REMARK 2 REMARK 2 RESOLUTION. 1.87 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) : 1.87 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.82 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 57595 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1134 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) : 1.87 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.92 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3882 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5199 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 94 REMARK 3 SOLVENT ATOMS : 791 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.02000 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): 0.154 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.101 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.331 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5459 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7354 ; 1.112 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 675 ; 4.709 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 265 ;34.576 ;23.509 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1063 ;13.662 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 56 ;16.409 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 816 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4006 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2790 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3799 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 616 ; 0.126 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 117 ; 0.177 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 60 ; 0.144 ; 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): 3401 ; 0.585 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5288 ; 0.956 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2364 ; 1.668 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2066 ; 2.632 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 18 6 REMARK 3 1 B 1 B 18 6 REMARK 3 1 C 1 C 18 6 REMARK 3 1 D 1 D 18 6 REMARK 3 2 A 32 A 162 6 REMARK 3 2 B 32 B 162 6 REMARK 3 2 C 32 C 162 6 REMARK 3 2 D 32 D 162 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 1076 ; 0.42 ; 5.00 REMARK 3 LOOSE POSITIONAL 1 B (A): 1076 ; 0.48 ; 5.00 REMARK 3 LOOSE POSITIONAL 1 C (A): 1076 ; 0.42 ; 5.00 REMARK 3 LOOSE POSITIONAL 1 D (A): 1076 ; 0.45 ; 5.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 1076 ; 1.93 ; 10.00 REMARK 3 LOOSE THERMAL 1 B (A**2): 1076 ; 2.83 ; 10.00 REMARK 3 LOOSE THERMAL 1 C (A**2): 1076 ; 2.52 ; 10.00 REMARK 3 LOOSE THERMAL 1 D (A**2): 1076 ; 3.20 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 : 1.20 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 3CDO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1000046648. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58798 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.870 REMARK 200 RESOLUTION RANGE LOW (A) : 23.881 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : 0.05900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.87 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.23500 REMARK 200 R SYM FOR SHELL (I) : 0.23500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: 1L63 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES, 200 MM LITHIUM SULFATE, REMARK 280 35% MPD, 50 MM 1,6-HEXANEDIOL, 12.5 MG/ML, PH 6.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K, PH 6.00 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 28.91000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.50600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.65800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.50600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.91000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.65800 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, 3, 4 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 ASN A 163 REMARK 465 LEU A 164 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS B 60 CG CD CE NZ REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 119 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS A 135 N CA C O CB CG CD REMARK 480 LYS A 135 CE NZ 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 ASP A 20 -169.85 -79.26 REMARK 500 ILE A 29 74.24 -104.77 REMARK 500 ILE B 29 71.73 -103.40 REMARK 500 ASP C 20 -169.26 -78.91 REMARK 500 ILE C 29 73.99 -108.46 REMARK 500 ASN C 55 52.46 37.74 REMARK 500 ILE D 29 75.94 -105.43 REMARK 500 ASN D 55 48.27 35.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1905 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 1906 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 1901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 1904 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEZ A 1901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEZ C 1921 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEZ C 1922 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEZ D 1923 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1911 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1914 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD D 1912 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD D 1913 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1L34 RELATED DB: PDB REMARK 900 MUTANT R96H LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 1L63 RELATED DB: PDB REMARK 900 WILDTYPE T4 LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C7W RELATED DB: PDB REMARK 900 MUTANT R96K LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C7Y RELATED DB: PDB REMARK 900 MUTANT R96A OF T4 LYSOZYME IN WILDTYPE BACKGROUND AT 298K REMARK 900 RELATED ID: 3C7Z RELATED DB: PDB REMARK 900 MUTANT D89A/R96H LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C80 RELATED DB: PDB REMARK 900 MUTANT R96Y LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C81 RELATED DB: PDB REMARK 900 MUTANT K85A LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C82 RELATED DB: PDB REMARK 900 MUTANT K85A/R96H LYSOZYME AT ROOM REMARK 900 RELATED ID: 3C83 RELATED DB: PDB REMARK 900 MUTANT D89A LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C8Q RELATED DB: PDB REMARK 900 MUTANT R96D LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C8R RELATED DB: PDB REMARK 900 MUTANT R96G LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3C8S RELATED DB: PDB REMARK 900 MUTANT R96E LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3CDQ RELATED DB: PDB REMARK 900 MUTANT R96S LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3CDR RELATED DB: PDB REMARK 900 MUTANT R96Q LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3CDT RELATED DB: PDB REMARK 900 MUTANT R96N LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3CDV RELATED DB: PDB REMARK 900 MUTANT R96M LYSOZYME AT ROOM TEMPERATURE REMARK 900 RELATED ID: 3F8V RELATED DB: PDB REMARK 900 R96H AT 1.08 ANG REMARK 900 RELATED ID: 3F9L RELATED DB: PDB REMARK 900 D72A AT 1.19 ANG REMARK 900 RELATED ID: 3FA0 RELATED DB: PDB REMARK 900 WILD TYPE AT 1.09 ANG REMARK 900 RELATED ID: 3FAD RELATED DB: PDB REMARK 900 D72A/R96H AT 1.20 ANG REMARK 900 RELATED ID: 3FI5 RELATED DB: PDB REMARK 900 R96W AT 1.73 ANG DBREF 3CDO A 1 164 UNP P00720 LYS_BPT4 1 164 DBREF 3CDO B 1 164 UNP P00720 LYS_BPT4 1 164 DBREF 3CDO C 1 164 UNP P00720 LYS_BPT4 1 164 DBREF 3CDO D 1 164 UNP P00720 LYS_BPT4 1 164 SEQADV 3CDO VAL A 96 UNP P00720 ARG 96 ENGINEERED MUTATION SEQADV 3CDO VAL B 96 UNP P00720 ARG 96 ENGINEERED MUTATION SEQADV 3CDO VAL C 96 UNP P00720 ARG 96 ENGINEERED MUTATION SEQADV 3CDO VAL D 96 UNP P00720 ARG 96 ENGINEERED MUTATION SEQRES 1 A 164 MET ASN ILE PHE GLU MET LEU ARG ILE ASP GLU GLY LEU SEQRES 2 A 164 ARG LEU LYS ILE TYR LYS ASP THR GLU GLY TYR TYR THR SEQRES 3 A 164 ILE GLY ILE GLY HIS LEU LEU THR LYS SER PRO SER LEU SEQRES 4 A 164 ASN ALA ALA LYS SER GLU LEU ASP LYS ALA ILE GLY ARG SEQRES 5 A 164 ASN CYS ASN GLY VAL ILE THR LYS ASP GLU ALA GLU LYS SEQRES 6 A 164 LEU PHE ASN GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE SEQRES 7 A 164 LEU ARG ASN ALA LYS LEU LYS PRO VAL TYR ASP SER LEU SEQRES 8 A 164 ASP ALA VAL ARG VAL CYS ALA LEU ILE ASN MET VAL PHE SEQRES 9 A 164 GLN MET GLY GLU THR GLY VAL ALA GLY PHE THR ASN SER SEQRES 10 A 164 LEU ARG MET LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA SEQRES 11 A 164 VAL ASN LEU ALA LYS SER ARG TRP TYR ASN GLN THR PRO SEQRES 12 A 164 ASN ARG ALA LYS ARG VAL ILE THR THR PHE ARG THR GLY SEQRES 13 A 164 THR TRP ASP ALA TYR LYS ASN LEU SEQRES 1 B 164 MET ASN ILE PHE GLU MET LEU ARG ILE ASP GLU GLY LEU SEQRES 2 B 164 ARG LEU LYS ILE TYR LYS ASP THR GLU GLY TYR TYR THR SEQRES 3 B 164 ILE GLY ILE GLY HIS LEU LEU THR LYS SER PRO SER LEU SEQRES 4 B 164 ASN ALA ALA LYS SER GLU LEU ASP LYS ALA ILE GLY ARG SEQRES 5 B 164 ASN CYS ASN GLY VAL ILE THR LYS ASP GLU ALA GLU LYS SEQRES 6 B 164 LEU PHE ASN GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE SEQRES 7 B 164 LEU ARG ASN ALA LYS LEU LYS PRO VAL TYR ASP SER LEU SEQRES 8 B 164 ASP ALA VAL ARG VAL CYS ALA LEU ILE ASN MET VAL PHE SEQRES 9 B 164 GLN MET GLY GLU THR GLY VAL ALA GLY PHE THR ASN SER SEQRES 10 B 164 LEU ARG MET LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA SEQRES 11 B 164 VAL ASN LEU ALA LYS SER ARG TRP TYR ASN GLN THR PRO SEQRES 12 B 164 ASN ARG ALA LYS ARG VAL ILE THR THR PHE ARG THR GLY SEQRES 13 B 164 THR TRP ASP ALA TYR LYS ASN LEU SEQRES 1 C 164 MET ASN ILE PHE GLU MET LEU ARG ILE ASP GLU GLY LEU SEQRES 2 C 164 ARG LEU LYS ILE TYR LYS ASP THR GLU GLY TYR TYR THR SEQRES 3 C 164 ILE GLY ILE GLY HIS LEU LEU THR LYS SER PRO SER LEU SEQRES 4 C 164 ASN ALA ALA LYS SER GLU LEU ASP LYS ALA ILE GLY ARG SEQRES 5 C 164 ASN CYS ASN GLY VAL ILE THR LYS ASP GLU ALA GLU LYS SEQRES 6 C 164 LEU PHE ASN GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE SEQRES 7 C 164 LEU ARG ASN ALA LYS LEU LYS PRO VAL TYR ASP SER LEU SEQRES 8 C 164 ASP ALA VAL ARG VAL CYS ALA LEU ILE ASN MET VAL PHE SEQRES 9 C 164 GLN MET GLY GLU THR GLY VAL ALA GLY PHE THR ASN SER SEQRES 10 C 164 LEU ARG MET LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA SEQRES 11 C 164 VAL ASN LEU ALA LYS SER ARG TRP TYR ASN GLN THR PRO SEQRES 12 C 164 ASN ARG ALA LYS ARG VAL ILE THR THR PHE ARG THR GLY SEQRES 13 C 164 THR TRP ASP ALA TYR LYS ASN LEU SEQRES 1 D 164 MET ASN ILE PHE GLU MET LEU ARG ILE ASP GLU GLY LEU SEQRES 2 D 164 ARG LEU LYS ILE TYR LYS ASP THR GLU GLY TYR TYR THR SEQRES 3 D 164 ILE GLY ILE GLY HIS LEU LEU THR LYS SER PRO SER LEU SEQRES 4 D 164 ASN ALA ALA LYS SER GLU LEU ASP LYS ALA ILE GLY ARG SEQRES 5 D 164 ASN CYS ASN GLY VAL ILE THR LYS ASP GLU ALA GLU LYS SEQRES 6 D 164 LEU PHE ASN GLN ASP VAL ASP ALA ALA VAL ARG GLY ILE SEQRES 7 D 164 LEU ARG ASN ALA LYS LEU LYS PRO VAL TYR ASP SER LEU SEQRES 8 D 164 ASP ALA VAL ARG VAL CYS ALA LEU ILE ASN MET VAL PHE SEQRES 9 D 164 GLN MET GLY GLU THR GLY VAL ALA GLY PHE THR ASN SER SEQRES 10 D 164 LEU ARG MET LEU GLN GLN LYS ARG TRP ASP GLU ALA ALA SEQRES 11 D 164 VAL ASN LEU ALA LYS SER ARG TRP TYR ASN GLN THR PRO SEQRES 12 D 164 ASN ARG ALA LYS ARG VAL ILE THR THR PHE ARG THR GLY SEQRES 13 D 164 THR TRP ASP ALA TYR LYS ASN LEU HET HEZ A1901 8 HET MPD A1911 8 HET MPD A1914 8 HET SO4 B1902 5 HET SO4 B1903 5 HET SO4 B1905 5 HET SO4 C1906 5 HET HEZ C1921 8 HET HEZ C1922 8 HET SO4 D1901 5 HET SO4 D1904 5 HET HEZ D1923 8 HET MPD D1912 8 HET MPD D1913 8 HETNAM HEZ HEXANE-1,6-DIOL HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM SO4 SULFATE ION FORMUL 5 HEZ 4(C6 H14 O2) FORMUL 6 MPD 4(C6 H14 O2) FORMUL 8 SO4 6(O4 S 2-) FORMUL 19 HOH *791(H2 O) HELIX 1 1 ASN A 2 GLY A 12 1 11 HELIX 2 2 SER A 38 GLY A 51 1 14 HELIX 3 3 THR A 59 ASN A 81 1 23 HELIX 4 4 LEU A 84 LEU A 91 1 8 HELIX 5 5 VAL A 94 GLY A 107 1 14 HELIX 6 6 GLY A 107 GLY A 113 1 7 HELIX 7 7 PHE A 114 GLN A 123 1 10 HELIX 8 8 ARG A 125 ALA A 134 1 10 HELIX 9 9 SER A 136 THR A 142 1 7 HELIX 10 10 THR A 142 GLY A 156 1 15 HELIX 11 11 TRP A 158 LYS A 162 5 5 HELIX 12 12 ASN B 2 GLY B 12 1 11 HELIX 13 13 SER B 38 GLY B 51 1 14 HELIX 14 14 THR B 59 ASN B 81 1 23 HELIX 15 15 LEU B 84 LEU B 91 1 8 HELIX 16 16 VAL B 94 GLY B 113 1 20 HELIX 17 17 PHE B 114 GLN B 123 1 10 HELIX 18 18 ARG B 125 LYS B 135 1 11 HELIX 19 19 SER B 136 THR B 142 1 7 HELIX 20 20 THR B 142 GLY B 156 1 15 HELIX 21 21 TRP B 158 ASN B 163 1 6 HELIX 22 22 ASN C 2 GLY C 12 1 11 HELIX 23 23 SER C 38 GLY C 51 1 14 HELIX 24 24 THR C 59 ASN C 81 1 23 HELIX 25 25 LEU C 84 LEU C 91 1 8 HELIX 26 26 VAL C 94 GLY C 113 1 20 HELIX 27 27 PHE C 114 GLN C 123 1 10 HELIX 28 28 ARG C 125 ALA C 134 1 10 HELIX 29 29 SER C 136 THR C 142 1 7 HELIX 30 30 THR C 142 GLY C 156 1 15 HELIX 31 31 TRP C 158 LYS C 162 5 5 HELIX 32 32 ASN D 2 GLY D 12 1 11 HELIX 33 33 SER D 38 GLY D 51 1 14 HELIX 34 34 THR D 59 ASN D 81 1 23 HELIX 35 35 LEU D 84 ASP D 89 1 6 HELIX 36 36 VAL D 94 GLY D 107 1 14 HELIX 37 37 GLY D 107 GLY D 113 1 7 HELIX 38 38 PHE D 114 GLN D 123 1 10 HELIX 39 39 ARG D 125 LYS D 135 1 11 HELIX 40 40 SER D 136 THR D 142 1 7 HELIX 41 41 THR D 142 GLY D 156 1 15 HELIX 42 42 TRP D 158 ASN D 163 1 6 SHEET 1 A 3 ARG A 14 LYS A 19 0 SHEET 2 A 3 TYR A 25 GLY A 28 -1 O THR A 26 N TYR A 18 SHEET 3 A 3 HIS A 31 THR A 34 -1 O LEU A 33 N TYR A 25 SHEET 1 B 3 ARG B 14 LYS B 19 0 SHEET 2 B 3 TYR B 25 GLY B 28 -1 O THR B 26 N TYR B 18 SHEET 3 B 3 HIS B 31 LEU B 32 -1 O HIS B 31 N ILE B 27 SHEET 1 C 3 ARG C 14 LYS C 19 0 SHEET 2 C 3 TYR C 25 GLY C 28 -1 O THR C 26 N TYR C 18 SHEET 3 C 3 HIS C 31 LEU C 32 -1 O HIS C 31 N ILE C 27 SHEET 1 D 3 ARG D 14 LYS D 19 0 SHEET 2 D 3 TYR D 25 GLY D 28 -1 O THR D 26 N TYR D 18 SHEET 3 D 3 HIS D 31 THR D 34 -1 O HIS D 31 N ILE D 27 SITE 1 AC1 7 ARG A 125 SER B 38 LEU B 39 ASN B 40 SITE 2 AC1 7 HOH B2014 HOH B2033 HOH B2047 SITE 1 AC2 7 SER B 44 LYS B 48 PHE B 114 THR B 115 SITE 2 AC2 7 ASN B 116 SER B 117 HOH B1955 SITE 1 AC3 5 THR B 142 PRO B 143 ASN B 144 ARG B 145 SITE 2 AC3 5 HOH B2052 SITE 1 AC4 8 SER C 44 LYS C 48 PHE C 114 THR C 115 SITE 2 AC4 8 ASN C 116 SER C 117 ASN C 132 HOH C2136 SITE 1 AC5 8 SER C 38 LEU C 39 ASN C 40 ARG D 125 SITE 2 AC5 8 HOH D2136 HOH D2146 HOH D2160 HOH D2170 SITE 1 AC6 6 THR D 142 PRO D 143 ASN D 144 ARG D 145 SITE 2 AC6 6 HOH D2128 HOH D2133 SITE 1 AC7 4 ASP A 89 SER A 90 LYS A 124 HOH A2103 SITE 1 AC8 2 LEU C 33 HEZ C1922 SITE 1 AC9 3 LYS C 35 MET C 106 HEZ C1921 SITE 1 BC1 2 ASP D 89 LYS D 124 SITE 1 BC2 7 ASP A 72 ARG A 76 HOH A2064 ILE B 3 SITE 2 BC2 7 VAL B 75 TYR B 88 HOH B1970 SITE 1 BC3 5 TYR A 88 HOH A1927 HOH A2068 ASP B 72 SITE 2 BC3 5 ARG B 76 SITE 1 BC4 5 ASP C 72 ARG C 76 TYR D 88 HOH D2052 SITE 2 BC4 5 HOH D2060 SITE 1 BC5 6 TYR C 88 HOH C2144 VAL D 71 ASP D 72 SITE 2 BC5 6 ARG D 76 HOH D2186 CRYST1 57.820 99.316 123.012 90.00 90.00 90.00 P 21 21 21 16 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 0.017295 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010069 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008129 0.00000