HEADER IMMUNOGLOBULIN/HYDROLASE(O-GLYCOSYL) 03-FEB-94 2IFF TITLE STRUCTURE OF AN ANTIBODY-LYSOZYME COMPLEX: EFFECT OF A CONSERVATIVE TITLE 2 MUTATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: IGG1 HYHEL-5 FAB (LIGHT CHAIN); COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: IGG1 HYHEL-5 FAB (HEAVY CHAIN); COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HEN EGG WHITE LYSOZYME; COMPND 11 CHAIN: Y; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 7 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 8 ORGANISM_TAXID: 10090; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 11 ORGANISM_COMMON: CHICKEN; SOURCE 12 ORGANISM_TAXID: 9031; SOURCE 13 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 14 EXPRESSION_SYSTEM_COMMON: BAKER'S YEAST; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 4932 KEYWDS IMMUNOGLOBULIN/HYDROLASE(O-GLYCOSYL), IMMUNOGLOBULIN-HYDROLASE(O- KEYWDS 2 GLYCOSYL) COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.CHACKO,D.R.DAVIES REVDAT 6 13-NOV-24 2IFF 1 REMARK REVDAT 5 05-JUN-24 2IFF 1 SEQADV REVDAT 4 10-AUG-11 2IFF 1 VERSN COMPND REVDAT 3 24-FEB-09 2IFF 1 VERSN REVDAT 2 15-MAY-95 2IFF 3 SEQRES ATOM HETATM TER REVDAT 2 2 3 CONECT REVDAT 1 31-MAY-94 2IFF 0 JRNL AUTH S.CHACKO,E.SILVERTON,L.KAM-MORGAN,S.SMITH-GILL,G.COHEN, JRNL AUTH 2 D.DAVIES JRNL TITL STRUCTURE OF AN ANTIBODY-LYSOZYME COMPLEX UNEXPECTED EFFECT JRNL TITL 2 OF CONSERVATIVE MUTATION. JRNL REF J.MOL.BIOL. V. 245 261 1995 JRNL REFN ISSN 0022-2836 JRNL PMID 7531245 JRNL DOI 10.1006/JMBI.1994.0022 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.SHERIFF,E.W.SILVERTON,E.A.PADLAN,G.H.COHEN,S.J.SMITH-GILL, REMARK 1 AUTH 2 B.C.FINZEL,D.R.DAVIES REMARK 1 TITL THREE-DIMENSIONAL STRUCTURE OF AN ANTIBODY-ANTIGEN COMPLEX REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 84 8075 1987 REMARK 1 REFN ISSN 0027-8424 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 69.2 REMARK 3 NUMBER OF REFLECTIONS : 12336 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL 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 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4241 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 80 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 3.010 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2IFF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000178242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL 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) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 37.40000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, Y 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 PGA H 1 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 HIS L 187 NE2 HIS L 187 CD2 -0.067 REMARK 500 HIS L 196 NE2 HIS L 196 CD2 -0.075 REMARK 500 HIS H 43 NE2 HIS H 43 CD2 -0.070 REMARK 500 HIS H 61 NE2 HIS H 61 CD2 -0.072 REMARK 500 HIS H 98 NE2 HIS H 98 CD2 -0.071 REMARK 500 HIS H 167 NE2 HIS H 167 CD2 -0.074 REMARK 500 HIS H 202 NE2 HIS H 202 CD2 -0.072 REMARK 500 HIS Y 15 NE2 HIS Y 15 CD2 -0.069 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 TRP L 34 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP L 34 CE2 - CD2 - CG ANGL. DEV. = -5.6 DEGREES REMARK 500 TRP L 46 CD1 - CG - CD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 TRP L 46 CE2 - CD2 - CG ANGL. DEV. = -6.4 DEGREES REMARK 500 TRP L 90 CD1 - CG - CD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 TRP L 90 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 TRP L 146 CD1 - CG - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 TRP L 146 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP L 161 CD1 - CG - CD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 TRP L 161 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG L 209 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 TRP H 33 CD1 - CG - CD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 TRP H 33 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP H 36 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP H 36 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP H 47 CD1 - CG - CD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 TRP H 47 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 CYS H 96 CA - CB - SG ANGL. DEV. = 7.5 DEGREES REMARK 500 TRP H 106 CD1 - CG - CD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 TRP H 106 CE2 - CD2 - CG ANGL. DEV. = -5.4 DEGREES REMARK 500 TRP H 157 CD1 - CG - CD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 TRP H 157 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 PRO H 190 CA - C - N ANGL. DEV. = 17.3 DEGREES REMARK 500 PRO H 190 O - C - N ANGL. DEV. = -14.6 DEGREES REMARK 500 TRP Y 28 CD1 - CG - CD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 TRP Y 28 CE2 - CD2 - CG ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP Y 62 CD1 - CG - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 TRP Y 62 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP Y 63 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP Y 63 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP Y 108 CD1 - CG - CD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 TRP Y 108 CE2 - CD2 - CG ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP Y 111 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP Y 111 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 TRP Y 123 CD1 - CG - CD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 TRP Y 123 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 ARG Y 125 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG Y 125 NE - CZ - NH2 ANGL. DEV. = -3.4 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 TRP L 46 -66.19 -98.34 REMARK 500 ASP L 49 48.81 37.22 REMARK 500 THR L 50 -54.38 68.51 REMARK 500 SER L 55 96.95 -41.82 REMARK 500 SER L 66 143.61 -174.68 REMARK 500 SER L 75 -79.74 -82.73 REMARK 500 ALA L 83 -172.67 -173.00 REMARK 500 TRP L 90 51.34 -115.10 REMARK 500 ARG L 106 25.05 -143.55 REMARK 500 ALA L 107 152.76 78.97 REMARK 500 LYS L 140 -30.70 -39.35 REMARK 500 ASP L 168 115.87 82.03 REMARK 500 ASN L 188 -44.83 -162.12 REMARK 500 LYS L 197 -47.74 -21.39 REMARK 500 ARG L 209 70.15 -171.86 REMARK 500 GLN H 3 -167.88 58.07 REMARK 500 GLN H 134 103.83 -36.54 REMARK 500 ASN H 136 -145.85 -179.12 REMARK 500 GLN H 174 -133.43 -114.20 REMARK 500 SER H 189 -45.13 -149.35 REMARK 500 PRO H 190 -72.22 -56.13 REMARK 500 SER H 205 -148.04 -122.04 REMARK 500 ARG Y 5 -74.35 -42.28 REMARK 500 HIS Y 15 23.42 -78.52 REMARK 500 ARG Y 21 -60.34 75.95 REMARK 500 SER Y 72 102.73 -56.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER L 169 -19.43 REMARK 500 LEU H 4 12.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE LIGHT CHAIN OF THE FAB HAS CHAIN INDICATOR L. THE REMARK 999 HEAVY CHAIN OF THE FAB HAS CHAIN INDICATOR H. THE LYSOZYME REMARK 999 HAS CHAIN INDICATOR Y. THE NUMBERING SYSTEM USED IN THIS REMARK 999 ENTRY IS SEQUENTIAL, FROM 1 - 212 FOR THE LIGHT CHAIN AND REMARK 999 FROM 1 - 215 FOR THE HEAVY CHAIN. THE CONVERSION TO KABAT REMARK 999 NUMBERING (E.A. KABAT, T.T. WU, M. REID-MILLER, H.M. PERRY, REMARK 999 K.S. GOTTESMAN (1991) SEQUENCES OF PROTEINS OF REMARK 999 IMMUNOLOGICAL INTEREST, 5TH ED, NATIONAL INSTITUTES OF REMARK 999 HEALTH, BETHESDA, MD) FOR THE VARIABLE REGIONS OF THE LIGHT REMARK 999 AND HEAVY CHAINS IS GIVEN BELOW. THE NUMBERING SYSTEM USED REMARK 999 IS THE SAME AS IN THE PDB COORDINATE FILE FOR THE WILD-TYPE REMARK 999 HYHEL-5-LYSOZYME COMPLEX. REMARK 999 REMARK 999 SEQUENTIAL NUMBERING KABAT NUMBERING REMARK 999 L1 - L27 1 - 27 REMARK 999 L28 - L94 29 - 95 REMARK 999 L95 - L106 97 - 108 REMARK 999 REMARK 999 H2 - H52 2 - 52 REMARK 999 H53 52A REMARK 999 H54 - H83 53 - 82 REMARK 999 H84 - H86 82A - 82C REMARK 999 H87 - H102 83 - 98 REMARK 999 H103 - H116 100 - 113 REMARK 999 REMARK 999 RESIDUE 84 IN THE LIGHT CHAIN WAS IDENTIFIED AS A GLUTAMATE REMARK 999 IN THE WILD-TYPE STRUCTURE (SHERIFF ET AL., 1987). THIS REMARK 999 RESIDUE HAS NOW BEEN SHOWN TO BE A THREONINE (M.A NEWMAN REMARK 999 AND S.J. SMITH-GILL, PERSONAL COMMUNICATION) AND THIS REMARK 999 STRUCTURE REFLECTS THE CHANGE. DBREF 2IFF L 2 212 GB 1042224 AAB34980 2 213 DBREF 2IFF Y 1 129 UNP P00698 LYSC_CHICK 19 147 DBREF 2IFF H 1 215 PDB 2IFF 2IFF 1 215 SEQADV 2IFF LYS L 18 GB 1042224 ARG 18 CONFLICT SEQADV 2IFF SER L 26 GB 1042224 ASN 26 CONFLICT SEQADV 2IFF ASN L 30 GB 1042224 SER 30 CONFLICT SEQADV 2IFF TYR L 33 GB 1042224 HIS 33 CONFLICT SEQADV 2IFF VAL L 59 GB 1042224 ALA 59 CONFLICT SEQADV 2IFF THR L 79 GB 1042224 ALA 79 CONFLICT SEQADV 2IFF GLY L 91 GB 1042224 SER 91 CONFLICT SEQADV 2IFF ARG L 92 GB 1042224 SER 92 CONFLICT SEQADV 2IFF ASN L 93 GB 1042224 HIS 93 CONFLICT SEQADV 2IFF L GB 1042224 TYR 95 DELETION SEQADV 2IFF PRO L 111 GB 1042224 GLN 112 CONFLICT SEQADV 2IFF LYS Y 68 UNP P00698 ARG 86 CONFLICT SEQRES 1 L 212 ASP ILE VAL LEU THR GLN SER PRO ALA ILE MET SER ALA SEQRES 2 L 212 SER PRO GLY GLU LYS VAL THR MET THR CYS SER ALA SER SEQRES 3 L 212 SER SER VAL ASN TYR MET TYR TRP TYR GLN GLN LYS SER SEQRES 4 L 212 GLY THR SER PRO LYS ARG TRP ILE TYR ASP THR SER LYS SEQRES 5 L 212 LEU ALA SER GLY VAL PRO VAL ARG PHE SER GLY SER GLY SEQRES 6 L 212 SER GLY THR SER TYR SER LEU THR ILE SER SER MET GLU SEQRES 7 L 212 THR GLU ASP ALA ALA THR TYR TYR CYS GLN GLN TRP GLY SEQRES 8 L 212 ARG ASN PRO THR PHE GLY GLY GLY THR LYS LEU GLU ILE SEQRES 9 L 212 LYS ARG ALA ASP ALA ALA PRO THR VAL SER ILE PHE PRO SEQRES 10 L 212 PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SER VAL SEQRES 11 L 212 VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP ILE ASN SEQRES 12 L 212 VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN ASN GLY SEQRES 13 L 212 VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS ASP SER SEQRES 14 L 212 THR TYR SER MET SER SER THR LEU THR LEU THR LYS ASP SEQRES 15 L 212 GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU ALA THR SEQRES 16 L 212 HIS LYS THR SER THR SER PRO ILE VAL LYS SER PHE ASN SEQRES 17 L 212 ARG ASN GLU CYS SEQRES 1 H 215 PGA VAL GLN LEU GLN GLN SER GLY ALA GLU LEU MET LYS SEQRES 2 H 215 PRO GLY ALA SER VAL LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 H 215 TYR THR PHE SER ASP TYR TRP ILE GLU TRP VAL LYS GLN SEQRES 4 H 215 ARG PRO GLY HIS GLY LEU GLU TRP ILE GLY GLU ILE LEU SEQRES 5 H 215 PRO GLY SER GLY SER THR ASN TYR HIS GLU ARG PHE LYS SEQRES 6 H 215 GLY LYS ALA THR PHE THR ALA ASP THR SER SER SER THR SEQRES 7 H 215 ALA TYR MET GLN LEU ASN SER LEU THR SER GLU ASP SER SEQRES 8 H 215 GLY VAL TYR TYR CYS LEU HIS GLY ASN TYR ASP PHE ASP SEQRES 9 H 215 GLY TRP GLY GLN GLY THR THR LEU THR VAL SER SER ALA SEQRES 10 H 215 LYS THR THR PRO PRO SER VAL TYR PRO LEU ALA PRO GLY SEQRES 11 H 215 SER ALA ALA GLN THR ASN SER MET VAL THR LEU GLY CYS SEQRES 12 H 215 LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL THR VAL THR SEQRES 13 H 215 TRP ASN SER GLY SER LEU SER SER GLY VAL HIS THR PHE SEQRES 14 H 215 PRO ALA VAL LEU GLN SER ASP LEU TYR THR LEU SER SER SEQRES 15 H 215 SER VAL THR VAL PRO SER SER PRO ARG PRO SER GLU THR SEQRES 16 H 215 VAL THR CYS ASN VAL ALA HIS PRO ALA SER SER THR LYS SEQRES 17 H 215 VAL ASP LYS LYS ILE VAL PRO SEQRES 1 Y 129 LYS VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET LYS SEQRES 2 Y 129 ARG HIS GLY LEU ASP ASN TYR ARG GLY TYR SER LEU GLY SEQRES 3 Y 129 ASN TRP VAL CYS ALA ALA LYS PHE GLU SER ASN PHE ASN SEQRES 4 Y 129 THR GLN ALA THR ASN ARG ASN THR ASP GLY SER THR ASP SEQRES 5 Y 129 TYR GLY ILE LEU GLN ILE ASN SER ARG TRP TRP CYS ASN SEQRES 6 Y 129 ASP GLY LYS THR PRO GLY SER ARG ASN LEU CYS ASN ILE SEQRES 7 Y 129 PRO CYS SER ALA LEU LEU SER SER ASP ILE THR ALA SER SEQRES 8 Y 129 VAL ASN CYS ALA LYS LYS ILE VAL SER ASP GLY ASN GLY SEQRES 9 Y 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS LYS GLY SEQRES 10 Y 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU FORMUL 4 HOH *80(H2 O) HELIX 1 1 GLU L 78 ALA L 82 5 5 HELIX 2 2 SER L 119 SER L 125 1 7 HELIX 3 3 LYS L 181 ARG L 186 1 6 HELIX 4 4 THR H 28 TYR H 32 5 5 HELIX 5 5 GLU H 62 PHE H 64 5 3 HELIX 6 6 THR H 87 SER H 91 5 5 HELIX 7 7 SER H 159 SER H 161 5 3 HELIX 8 8 GLY Y 4 HIS Y 15 1 12 HELIX 9 9 SER Y 24 ASN Y 37 1 14 HELIX 10 10 CYS Y 80 SER Y 85 5 6 HELIX 11 11 ILE Y 88 SER Y 100 1 13 HELIX 12 12 ASP Y 101 GLY Y 102 5 2 HELIX 13 13 ASN Y 103 ALA Y 107 5 5 HELIX 14 14 TRP Y 108 LYS Y 116 1 9 HELIX 15 15 ASP Y 119 ARG Y 125 5 7 SHEET 1 A 3 LEU L 4 SER L 7 0 SHEET 2 A 3 VAL L 19 VAL L 29 -1 O THR L 22 N SER L 7 SHEET 3 A 3 PHE L 61 ILE L 74 -1 O GLY L 67 N VAL L 29 SHEET 1 B 6 ILE L 10 ALA L 13 0 SHEET 2 B 6 THR L 100 ILE L 104 1 O LYS L 101 N MET L 11 SHEET 3 B 6 THR L 84 GLN L 89 -1 N TYR L 85 O THR L 100 SHEET 4 B 6 TYR L 33 GLN L 37 -1 O TYR L 33 N GLN L 88 SHEET 5 B 6 LYS L 44 TYR L 48 -1 O LYS L 44 N GLN L 36 SHEET 6 B 6 LYS L 52 LEU L 53 -1 O LYS L 52 N TYR L 48 SHEET 1 C 4 ILE L 10 ALA L 13 0 SHEET 2 C 4 THR L 100 ILE L 104 1 O LYS L 101 N MET L 11 SHEET 3 C 4 THR L 84 GLN L 89 -1 N TYR L 85 O THR L 100 SHEET 4 C 4 THR L 95 PHE L 96 -1 N THR L 95 O GLN L 89 SHEET 1 D 4 THR L 112 PHE L 116 0 SHEET 2 D 4 GLY L 127 PHE L 137 -1 O VAL L 131 N PHE L 116 SHEET 3 D 4 TYR L 171 THR L 180 -1 O TYR L 171 N PHE L 137 SHEET 4 D 4 VAL L 157 TRP L 161 -1 N LEU L 158 O THR L 176 SHEET 1 E 3 ASN L 143 ILE L 148 0 SHEET 2 E 3 SER L 189 HIS L 196 -1 N THR L 191 O LYS L 147 SHEET 3 E 3 SER L 199 ASN L 208 -1 N SER L 199 O HIS L 196 SHEET 1 F 4 LEU H 4 GLN H 6 0 SHEET 2 F 4 SER H 17 ALA H 24 -1 N LYS H 23 O GLN H 5 SHEET 3 F 4 THR H 78 ASN H 84 -1 N ALA H 79 O CYS H 22 SHEET 4 F 4 ALA H 68 ASP H 73 -1 O THR H 69 N GLN H 82 SHEET 1 G 6 GLU H 10 MET H 12 0 SHEET 2 G 6 THR H 110 VAL H 114 1 O THR H 111 N GLU H 10 SHEET 3 G 6 GLY H 92 LEU H 97 -1 O GLY H 92 N LEU H 112 SHEET 4 G 6 ILE H 34 ARG H 40 -1 O GLU H 35 N LEU H 97 SHEET 5 G 6 GLY H 44 ILE H 51 -1 N GLY H 44 O ARG H 40 SHEET 6 G 6 THR H 58 TYR H 60 -1 O ASN H 59 N GLU H 50 SHEET 1 H 4 SER H 123 LEU H 127 0 SHEET 2 H 4 MET H 138 TYR H 148 -1 O GLY H 142 N LEU H 127 SHEET 3 H 4 TYR H 178 PRO H 187 -1 N TYR H 178 O TYR H 148 SHEET 4 H 4 HIS H 167 LEU H 173 -1 O HIS H 167 N SER H 183 SHEET 1 I 3 THR H 154 TRP H 157 0 SHEET 2 I 3 THR H 197 HIS H 202 -1 N ASN H 199 O THR H 156 SHEET 3 I 3 THR H 207 LYS H 212 -1 O THR H 207 N HIS H 202 SHEET 1 J 3 THR Y 43 ARG Y 45 0 SHEET 2 J 3 THR Y 51 TYR Y 53 -1 N ASP Y 52 O ASN Y 44 SHEET 3 J 3 ILE Y 58 ASN Y 59 -1 O ILE Y 58 N TYR Y 53 SSBOND 1 CYS L 23 CYS L 87 1555 1555 2.02 SSBOND 2 CYS L 132 CYS L 192 1555 1555 2.02 SSBOND 3 CYS H 22 CYS H 96 1555 1555 2.02 SSBOND 4 CYS H 143 CYS H 198 1555 1555 2.02 SSBOND 5 CYS Y 6 CYS Y 127 1555 1555 2.02 SSBOND 6 CYS Y 30 CYS Y 115 1555 1555 2.02 SSBOND 7 CYS Y 64 CYS Y 80 1555 1555 2.03 SSBOND 8 CYS Y 76 CYS Y 94 1555 1555 2.02 CISPEP 1 SER L 7 PRO L 8 0 -11.89 CISPEP 2 TYR L 138 PRO L 139 0 -14.14 CISPEP 3 PHE H 149 PRO H 150 0 -19.07 CISPEP 4 GLU H 151 PRO H 152 0 21.17 CISPEP 5 ARG H 191 PRO H 192 0 -11.41 CRYST1 54.800 74.800 79.000 90.00 101.80 90.00 P 1 21 1 2 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 0.018248 0.000000 0.003812 0.00000 SCALE2 0.000000 0.013369 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012932 0.00000