10 20 30 40 50 60 70 80 1I22 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 05-FEB-01 1I22
TITLE MUTANT HUMAN LYSOZYME (A83K/Q86D/A92D)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME C; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 3.2.1.17; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 6 EXPRESSION_SYSTEM_COMMON: BAKER'S YEAST; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4932; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: AH22R-; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PERI8811
KEYWDS CALCIUM BINDING SITE, MUTANT HUMAN LYSOZYME, HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR R.KUROKI
REVDAT 3 24-FEB-09 1I22 1 VERSN REVDAT 2 31-DEC-02 1I22 1 REMARK REVDAT 1 28-FEB-01 1I22 0
JRNL AUTH R.KUROKI,K.YUTANI JRNL TITL STRUCTURAL AND THERMODYNAMIC RESPONSES OF JRNL TITL 2 MUTATIONS AT A CA2+ BINDING SITE ENGINEERED INTO JRNL TITL 3 HUMAN LYSOZYME. JRNL REF J.BIOL.CHEM. V. 273 34310 1998 JRNL REFN ISSN 0021-9258 JRNL PMID 9852096 JRNL DOI 10.1074/JBC.273.51.34310
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.KUROKI,K.NITTA,K.YUTANI REMARK 1 TITL THERMODYNAMIC CHANGES IN THE BINDING OF CA2+ TO A REMARK 1 TITL 2 MUTANT HUMAN LYSOZYME (D86/92). ENTHALPY-ENTROPY REMARK 1 TITL 3 COMPENSATION OBSERVED UPON CA2+ BINDING TO REMARK 1 TITL 4 PROTEINS. REMARK 1 REF J.BIOL.CHEM. V. 267 24297 1992 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 2 REMARK 1 AUTH R.KUROKI,S.KAWAKITA,H.NAKAMURA,K.YUTANI REMARK 1 TITL ENTROPIC STABILIZATION OF A MUTANT HUMAN LYSOZYME REMARK 1 TITL 2 INDUCED BY CALCIUM BINDING REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 89 6803 1992 REMARK 1 REFN ISSN 0027-8424 REMARK 1 REFERENCE 3 REMARK 1 AUTH K.INAKA,R.KUROKI,M.KIKUCHI,M.MATSUSHIMA REMARK 1 TITL CRYSTAL STRUCTURES OF THE APO- AND HOLOMUTANT REMARK 1 TITL 2 HUMAN LYSOZYMES WITH AN INTRODUCED CA2+ BINDING REMARK 1 TITL 3 SITE REMARK 1 REF J.BIOL.CHEM. V. 266 20666 1991 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH R.KUROKI,Y.TANIYAMA,C.SEKO,H.NAKAMURA,M.KIKUCHI, REMARK 1 AUTH 2 M.IKEHARA REMARK 1 TITL DESIGN AND CREATION OF A CA2+ BINDING SITE IN REMARK 1 TITL 2 HUMAN LYSOZYME TO ENHANCED STRUCTURAL STABILITY REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 86 6903 1989 REMARK 1 REFN ISSN 0027-8424
REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 77.0 REMARK 3 NUMBER OF REFLECTIONS : 39946 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.1720 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 51606 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4140 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 317 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.016 ; 6.000 ; 4236 REMARK 3 BOND ANGLES (DEGREES) : 2.976 ; 1.250 ; 5720 REMARK 3 TORSION ANGLES (DEGREES) : 16.900; 0.000 ; 2548 REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.014 ; 2.000 ; 116 REMARK 3 GENERAL PLANES (A) : 0.014 ; 6.000 ; 628 REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : 0.029 ; 10.000; 99 REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1I22 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-FEB-01. REMARK 100 THE RCSB ID CODE IS RCSB012805.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-FEB-93 REMARK 200 TEMPERATURE (KELVIN) : 293.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SDMS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SDMS REMARK 200 DATA SCALING SOFTWARE : SDMS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39085 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: TNT REMARK 200 STARTING MODEL: 3LHM (HOLO-Q86D/A92D MUTANT LYSOZYME) REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PHOSPHATE, SODIUM CHLORIDE, CALCIUM REMARK 280 CHLORIDE, PH 6.00, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K
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 56.50000 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, 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 4 CD GLU A 4 OE2 0.091 REMARK 500 GLU B 4 CD GLU B 4 OE2 0.095 REMARK 500 GLU B 7 CD GLU B 7 OE2 0.068 REMARK 500 GLU C 4 CD GLU C 4 OE2 0.086 REMARK 500 GLU D 4 CD GLU D 4 OE2 0.109 REMARK 500 GLU D 7 CD GLU D 7 OE2 0.067 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 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 5 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP A 18 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 41 CD - NE - CZ ANGL. DEV. = 8.8 DEGREES REMARK 500 ASP A 49 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP A 53 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 53 CB - CG - OD2 ANGL. DEV. = -8.3 DEGREES REMARK 500 TYR A 63 CB - CA - C ANGL. DEV. = -15.6 DEGREES REMARK 500 ASP A 67 CB - CG - OD1 ANGL. DEV. = 10.7 DEGREES REMARK 500 ASP A 67 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 LEU A 79 N - CA - CB ANGL. DEV. = -12.1 DEGREES REMARK 500 ASP A 86 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 87 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 87 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG A 98 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ASP A 120 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP A 120 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 TYR A 124 CB - CG - CD1 ANGL. DEV. = -4.9 DEGREES REMARK 500 ASP B 18 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 18 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ALA B 42 CB - CA - C ANGL. DEV. = -9.5 DEGREES REMARK 500 ASP B 53 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP B 53 CB - CG - OD2 ANGL. DEV. = -5.9 DEGREES REMARK 500 ASP B 67 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 67 CB - CG - OD2 ANGL. DEV. = -8.6 DEGREES REMARK 500 ASP B 87 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 87 CB - CG - OD2 ANGL. DEV. = -8.1 DEGREES REMARK 500 ASP B 91 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG B 98 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG B 98 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG B 107 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 115 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 ASP C 18 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 ASP C 18 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG C 50 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 TYR C 54 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 TYR C 54 CZ - CE2 - CD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP C 67 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP C 67 CB - CG - OD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 SER C 82 CB - CA - C ANGL. DEV. = -11.6 DEGREES REMARK 500 ASP C 86 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP C 87 CB - CG - OD1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ASP C 87 CB - CG - OD2 ANGL. DEV. = -8.7 DEGREES REMARK 500 ASP C 91 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP C 91 CB - CG - OD2 ANGL. DEV. = -7.0 DEGREES REMARK 500 ASP C 92 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG C 101 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP C 102 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG C 113 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 77 ANGLE DEVIATIONS. 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 SER A 36 -1.40 -145.30 REMARK 500 LYS A 69 17.59 -150.13 REMARK 500 CYS A 116 -50.12 -121.15 REMARK 500 ASN A 118 -0.20 68.61 REMARK 500 ASN B 46 77.71 -116.44 REMARK 500 ARG B 107 5.81 -66.94 REMARK 500 ASP C 49 13.07 -145.61 REMARK 500 LYS C 69 20.18 -145.31 REMARK 500 ASP D 18 97.42 -64.91 REMARK 500 ARG D 107 3.82 -68.12 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH D 403 DISTANCE = 5.05 ANGSTROMS REMARK 525 HOH A 389 DISTANCE = 5.20 ANGSTROMS REMARK 525 HOH A 400 DISTANCE = 6.95 ANGSTROMS REMARK 525 HOH D 434 DISTANCE = 7.10 ANGSTROMS REMARK 525 HOH B 413 DISTANCE = 8.22 ANGSTROMS REMARK 525 HOH A 428 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH B 519 DISTANCE = 6.01 ANGSTROMS
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 CA A 198 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 91 OD2 REMARK 620 2 ASP A 86 OD2 133.9 REMARK 620 3 LYS A 83 O 93.9 84.9 REMARK 620 4 ASN A 88 O 93.1 78.3 162.0 REMARK 620 5 ASP A 92 OD1 84.9 139.4 107.0 90.1 REMARK 620 6 HOH A 420 O 151.6 74.1 93.5 88.2 66.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 197 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 92 OD1 REMARK 620 2 HOH B 257 O 70.5 REMARK 620 3 LYS B 83 O 107.8 96.6 REMARK 620 4 ASP B 86 OD2 145.5 78.5 90.2 REMARK 620 5 ASN B 88 O 82.4 89.2 169.5 82.3 REMARK 620 6 ASP B 91 OD2 71.1 141.4 98.8 136.3 81.8 REMARK 620 7 HOH B 518 O 139.5 146.4 87.6 68.2 82.8 69.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 199 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 92 OD1 REMARK 620 2 LYS C 83 O 106.8 REMARK 620 3 ASN C 88 O 94.3 158.9 REMARK 620 4 ASP C 86 OD2 136.8 52.1 111.7 REMARK 620 5 HOH C 309 O 67.5 97.5 90.8 77.9 REMARK 620 6 ASP C 91 OD2 74.9 87.7 97.7 130.9 142.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D 200 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 91 OD2 REMARK 620 2 LYS D 83 O 79.3 REMARK 620 3 ASP D 86 OD2 137.1 85.6 REMARK 620 4 HOH D 201 O 140.4 104.9 82.2 REMARK 620 5 ASN D 88 O 104.5 167.6 83.7 79.9 REMARK 620 6 ASP D 92 OD1 77.6 104.1 145.3 63.1 88.3 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 CA B 197 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 198 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 199 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA D 200
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LZ1 RELATED DB: PDB REMARK 900 1LZ1 CONTAINS NATURAL HUMAN LYSOZYME REMARK 900 RELATED ID: 1I1Z RELATED DB: PDB REMARK 900 1I1Z CONTAINS MUTANT HUMAN LYSOZYME (Q86D) REMARK 900 RELATED ID: 1I20 RELATED DB: PDB REMARK 900 1I20 CONTAINS MUTANT HUMAN LYSOZYME (A92D) REMARK 900 RELATED ID: 2LHM RELATED DB: PDB REMARK 900 2LHM CONTAINS APO-Q86D/A92D MUTANT HUMAN LYSOZYME REMARK 900 RELATED ID: 3LHM RELATED DB: PDB REMARK 900 3LHM CONTAINS HOLO-Q86D/A92D MUTANT HUMAN LYSOZYME
DBREF 1I22 A 1 130 UNP P61626 LYSC_HUMAN 19 148 DBREF 1I22 B 1 130 UNP P61626 LYSC_HUMAN 19 148 DBREF 1I22 C 1 130 UNP P61626 LYSC_HUMAN 19 148 DBREF 1I22 D 1 130 UNP P61626 LYSC_HUMAN 19 148
SEQADV 1I22 LYS A 83 UNP P61626 ALA 101 ENGINEERED SEQADV 1I22 ASP A 86 UNP P61626 GLN 104 ENGINEERED SEQADV 1I22 ASP A 92 UNP P61626 ALA 110 ENGINEERED SEQADV 1I22 LYS B 83 UNP P61626 ALA 101 ENGINEERED SEQADV 1I22 ASP B 86 UNP P61626 GLN 104 ENGINEERED SEQADV 1I22 ASP B 92 UNP P61626 ALA 110 ENGINEERED SEQADV 1I22 LYS C 83 UNP P61626 ALA 101 ENGINEERED SEQADV 1I22 ASP C 86 UNP P61626 GLN 104 ENGINEERED SEQADV 1I22 ASP C 92 UNP P61626 ALA 110 ENGINEERED SEQADV 1I22 LYS D 83 UNP P61626 ALA 101 ENGINEERED SEQADV 1I22 ASP D 86 UNP P61626 GLN 104 ENGINEERED SEQADV 1I22 ASP D 92 UNP P61626 ALA 110 ENGINEERED
SEQRES 1 A 130 LYS VAL PHE GLU ARG CYS GLU LEU ALA ARG THR LEU LYS SEQRES 2 A 130 ARG LEU GLY MET ASP GLY TYR ARG GLY ILE SER LEU ALA SEQRES 3 A 130 ASN TRP MET CYS LEU ALA LYS TRP GLU SER GLY TYR ASN SEQRES 4 A 130 THR ARG ALA THR ASN TYR ASN ALA GLY ASP ARG SER THR SEQRES 5 A 130 ASP TYR GLY ILE PHE GLN ILE ASN SER ARG TYR TRP CYS SEQRES 6 A 130 ASN ASP GLY LYS THR PRO GLY ALA VAL ASN ALA CYS HIS SEQRES 7 A 130 LEU SER CYS SER LYS LEU LEU ASP ASP ASN ILE ALA ASP SEQRES 8 A 130 ASP VAL ALA CYS ALA LYS ARG VAL VAL ARG ASP PRO GLN SEQRES 9 A 130 GLY ILE ARG ALA TRP VAL ALA TRP ARG ASN ARG CYS GLN SEQRES 10 A 130 ASN ARG ASP VAL ARG GLN TYR VAL GLN GLY CYS GLY VAL SEQRES 1 B 130 LYS VAL PHE GLU ARG CYS GLU LEU ALA ARG THR LEU LYS SEQRES 2 B 130 ARG LEU GLY MET ASP GLY TYR ARG GLY ILE SER LEU ALA SEQRES 3 B 130 ASN TRP MET CYS LEU ALA LYS TRP GLU SER GLY TYR ASN SEQRES 4 B 130 THR ARG ALA THR ASN TYR ASN ALA GLY ASP ARG SER THR SEQRES 5 B 130 ASP TYR GLY ILE PHE GLN ILE ASN SER ARG TYR TRP CYS SEQRES 6 B 130 ASN ASP GLY LYS THR PRO GLY ALA VAL ASN ALA CYS HIS SEQRES 7 B 130 LEU SER CYS SER LYS LEU LEU ASP ASP ASN ILE ALA ASP SEQRES 8 B 130 ASP VAL ALA CYS ALA LYS ARG VAL VAL ARG ASP PRO GLN SEQRES 9 B 130 GLY ILE ARG ALA TRP VAL ALA TRP ARG ASN ARG CYS GLN SEQRES 10 B 130 ASN ARG ASP VAL ARG GLN TYR VAL GLN GLY CYS GLY VAL SEQRES 1 C 130 LYS VAL PHE GLU ARG CYS GLU LEU ALA ARG THR LEU LYS SEQRES 2 C 130 ARG LEU GLY MET ASP GLY TYR ARG GLY ILE SER LEU ALA SEQRES 3 C 130 ASN TRP MET CYS LEU ALA LYS TRP GLU SER GLY TYR ASN SEQRES 4 C 130 THR ARG ALA THR ASN TYR ASN ALA GLY ASP ARG SER THR SEQRES 5 C 130 ASP TYR GLY ILE PHE GLN ILE ASN SER ARG TYR TRP CYS SEQRES 6 C 130 ASN ASP GLY LYS THR PRO GLY ALA VAL ASN ALA CYS HIS SEQRES 7 C 130 LEU SER CYS SER LYS LEU LEU ASP ASP ASN ILE ALA ASP SEQRES 8 C 130 ASP VAL ALA CYS ALA LYS ARG VAL VAL ARG ASP PRO GLN SEQRES 9 C 130 GLY ILE ARG ALA TRP VAL ALA TRP ARG ASN ARG CYS GLN SEQRES 10 C 130 ASN ARG ASP VAL ARG GLN TYR VAL GLN GLY CYS GLY VAL SEQRES 1 D 130 LYS VAL PHE GLU ARG CYS GLU LEU ALA ARG THR LEU LYS SEQRES 2 D 130 ARG LEU GLY MET ASP GLY TYR ARG GLY ILE SER LEU ALA SEQRES 3 D 130 ASN TRP MET CYS LEU ALA LYS TRP GLU SER GLY TYR ASN SEQRES 4 D 130 THR ARG ALA THR ASN TYR ASN ALA GLY ASP ARG SER THR SEQRES 5 D 130 ASP TYR GLY ILE PHE GLN ILE ASN SER ARG TYR TRP CYS SEQRES 6 D 130 ASN ASP GLY LYS THR PRO GLY ALA VAL ASN ALA CYS HIS SEQRES 7 D 130 LEU SER CYS SER LYS LEU LEU ASP ASP ASN ILE ALA ASP SEQRES 8 D 130 ASP VAL ALA CYS ALA LYS ARG VAL VAL ARG ASP PRO GLN SEQRES 9 D 130 GLY ILE ARG ALA TRP VAL ALA TRP ARG ASN ARG CYS GLN SEQRES 10 D 130 ASN ARG ASP VAL ARG GLN TYR VAL GLN GLY CYS GLY VAL
HET CA B 197 1 HET CA A 198 1 HET CA C 199 1 HET CA D 200 1
HETNAM CA CALCIUM ION
FORMUL 5 CA 4(CA 2+) FORMUL 9 HOH *317(H2 O)
HELIX 1 1 GLU A 4 LEU A 15 1 12 HELIX 2 2 SER A 24 GLY A 37 1 14 HELIX 3 3 CYS A 81 ASP A 86 5 6 HELIX 4 4 ILE A 89 VAL A 100 1 12 HELIX 5 5 GLN A 104 ALA A 108 5 5 HELIX 6 6 TRP A 109 CYS A 116 1 8 HELIX 7 7 VAL A 121 GLN A 126 1 6 HELIX 8 8 GLU B 4 LEU B 15 1 12 HELIX 9 9 SER B 24 GLY B 37 1 14 HELIX 10 10 CYS B 81 ASP B 86 5 6 HELIX 11 11 ILE B 89 VAL B 100 1 12 HELIX 12 12 GLN B 104 ALA B 108 5 5 HELIX 13 13 TRP B 109 CYS B 116 1 8 HELIX 14 14 VAL B 121 GLN B 126 5 6 HELIX 15 15 GLU C 4 LEU C 15 1 12 HELIX 16 16 SER C 24 GLY C 37 1 14 HELIX 17 17 SER C 82 LEU C 85 5 4 HELIX 18 18 ILE C 89 VAL C 100 1 12 HELIX 19 19 GLN C 104 ALA C 108 5 5 HELIX 20 20 TRP C 109 CYS C 116 1 8 HELIX 21 21 VAL C 121 GLN C 126 5 6 HELIX 22 22 GLU D 4 LEU D 15 1 12 HELIX 23 23 GLY D 19 ILE D 23 5 5 HELIX 24 24 SER D 24 GLY D 37 1 14 HELIX 25 25 CYS D 81 LEU D 85 5 5 HELIX 26 26 ILE D 89 VAL D 100 1 12 HELIX 27 27 GLN D 104 ALA D 108 5 5 HELIX 28 28 TRP D 109 CYS D 116 1 8 HELIX 29 29 VAL D 121 GLN D 126 1 6
SHEET 1 A 3 THR A 43 ASN A 46 0 SHEET 2 A 3 SER A 51 TYR A 54 -1 O SER A 51 N ASN A 46 SHEET 3 A 3 ILE A 59 ASN A 60 -1 N ILE A 59 O TYR A 54 SHEET 1 B 3 THR B 43 ASN B 46 0 SHEET 2 B 3 SER B 51 TYR B 54 -1 O SER B 51 N ASN B 46 SHEET 3 B 3 ILE B 59 ASN B 60 -1 N ILE B 59 O TYR B 54 SHEET 1 C 3 THR C 43 TYR C 45 0 SHEET 2 C 3 THR C 52 TYR C 54 -1 N ASP C 53 O ASN C 44 SHEET 3 C 3 ILE C 59 ASN C 60 -1 N ILE C 59 O TYR C 54 SHEET 1 D 2 CYS C 65 ASN C 66 0 SHEET 2 D 2 LEU C 79 SER C 80 1 O LEU C 79 N ASN C 66 SHEET 1 E 3 THR D 43 ASN D 46 0 SHEET 2 E 3 SER D 51 TYR D 54 -1 O SER D 51 N ASN D 46 SHEET 3 E 3 ILE D 59 ASN D 60 -1 O ILE D 59 N TYR D 54
SSBOND 1 CYS A 77 CYS A 95 1555 1555 2.10 SSBOND 2 CYS A 65 CYS A 81 1555 1555 2.08 SSBOND 3 CYS A 30 CYS A 116 1555 1555 1.97 SSBOND 4 CYS A 6 CYS A 128 1555 1555 2.03
LINK CA CA A 198 OD2 ASP A 91 1555 1555 2.57 LINK CA CA A 198 OD2 ASP A 86 1555 1555 2.32 LINK CA CA A 198 O LYS A 83 1555 1555 2.37 LINK CA CA A 198 O ASN A 88 1555 1555 2.41 LINK CA CA A 198 OD1 ASP A 92 1555 1555 2.81 LINK CA CA A 198 O HOH A 420 1555 1555 2.23 LINK CA CA B 197 OD1 ASP B 92 1555 1555 2.60 LINK CA CA B 197 O HOH B 257 1555 1555 2.30 LINK CA CA B 197 O LYS B 83 1555 1555 2.32 LINK CA CA B 197 OD2 ASP B 86 1555 1555 2.43 LINK CA CA B 197 O ASN B 88 1555 1555 2.19 LINK CA CA B 197 OD2 ASP B 91 1555 1555 2.77 LINK CA CA B 197 O HOH B 518 1555 1555 2.34 LINK CA CA C 199 OD1 ASP C 92 1555 1555 2.46 LINK CA CA C 199 O LYS C 83 1555 1555 2.38 LINK CA CA C 199 O ASN C 88 1555 1555 2.36 LINK CA CA C 199 OD2 ASP C 86 1555 1555 2.77 LINK CA CA C 199 O HOH C 309 1555 1555 2.35 LINK CA CA C 199 OD2 ASP C 91 1555 1555 2.64 LINK CA CA D 200 OD2 ASP D 91 1555 1555 2.24 LINK CA CA D 200 O LYS D 83 1555 1555 2.48 LINK CA CA D 200 OD2 ASP D 86 1555 1555 2.56 LINK CA CA D 200 O HOH D 201 1555 1555 2.32 LINK CA CA D 200 O ASN D 88 1555 1555 2.49 LINK CA CA D 200 OD1 ASP D 92 1555 1555 2.76
SITE 1 AC1 7 LYS B 83 ASP B 86 ASN B 88 ASP B 91 SITE 2 AC1 7 ASP B 92 HOH B 257 HOH B 518 SITE 1 AC2 6 LYS A 83 ASP A 86 ASN A 88 ASP A 91 SITE 2 AC2 6 ASP A 92 HOH A 420 SITE 1 AC3 6 LYS C 83 ASP C 86 ASN C 88 ASP C 91 SITE 2 AC3 6 ASP C 92 HOH C 309 SITE 1 AC4 6 LYS D 83 ASP D 86 ASN D 88 ASP D 91 SITE 2 AC4 6 ASP D 92 HOH D 201
CRYST1 62.000 113.000 41.200 90.00 74.60 90.00 P 1 21 1 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 0.016129 0.000000 -0.004443 0.00000
SCALE2 0.000000 0.008850 0.000000 0.00000
SCALE3 0.000000 0.000000 0.025176 0.00000