HEADER IMMUNE SYSTEM 23-JUL-14 4U3X TITLE STRUCTURE OF A HUMAN VH ANTIBODY DOMAIN BINDING TO THE CLEFT OF HEN TITLE 2 EGG LYSOZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN VH DOMAIN ANTIBODY; COMPND 3 CHAIN: A, C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: LYSOZYME C; COMPND 7 CHAIN: B, D; COMPND 8 SYNONYM: 1,4-BETA-N-ACETYLMURAMIDASE C,ALLERGEN GAL D IV; COMPND 9 EC: 3.2.1.17 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: K-12; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: BL21-GOLD (DE3); SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 10 ORGANISM_COMMON: CHICKEN; SOURCE 11 ORGANISM_TAXID: 9031 KEYWDS HUMAN VH DOMAIN ANTIBODY, PHAGE DISPLAY, ANTIBODY-ANTIGEN COMPLEX KEYWDS 2 STRUCTURE, HYDROLASE-IMMUNE SYSTEM COMPLEX, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR R.ROUET,D.B.LANGLEY,D.CHRIST REVDAT 4 08-NOV-23 4U3X 1 REMARK REVDAT 3 29-JAN-20 4U3X 1 SOURCE JRNL REMARK REVDAT 2 17-JUN-15 4U3X 1 JRNL REVDAT 1 11-MAR-15 4U3X 0 JRNL AUTH R.ROUET,K.DUDGEON,M.CHRISTIE,D.LANGLEY,D.CHRIST JRNL TITL FULLY HUMAN VH SINGLE DOMAINS THAT RIVAL THE STABILITY AND JRNL TITL 2 CLEFT RECOGNITION OF CAMELID ANTIBODIES JRNL REF J.BIOL.CHEM. V. 290 11905 2015 JRNL REFN ESSN 1083-351X JRNL PMID 25737448 JRNL DOI 10.1074/JBC.M114.614842 REMARK 2 REMARK 2 RESOLUTION. 2.26 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0071 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) : 2.26 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 97.14 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 22746 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1252 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) : 2.26 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.32 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1599 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 94 REMARK 3 BIN FREE R VALUE : 0.3340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3576 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 101 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.87000 REMARK 3 B22 (A**2) : -0.38000 REMARK 3 B33 (A**2) : -0.58000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.35000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.298 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.232 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.180 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.494 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.892 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3674 ; 0.016 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3187 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5000 ; 1.709 ; 1.912 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7243 ; 0.906 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 480 ; 7.248 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 158 ;34.824 ;23.418 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 495 ;13.985 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;24.604 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 528 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4369 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 938 ; 0.001 ; 0.020 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): 1938 ; 0.962 ; 1.525 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1937 ; 0.949 ; 1.524 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2412 ; 1.594 ; 2.281 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2413 ; 1.594 ; 2.283 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1736 ; 1.159 ; 1.549 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1736 ; 1.159 ; 1.549 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2589 ; 1.750 ; 2.292 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4150 ; 3.332 ;12.172 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4141 ; 3.325 ;12.153 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 120 REMARK 3 ORIGIN FOR THE GROUP (A): -11.2947 -10.8769 10.2523 REMARK 3 T TENSOR REMARK 3 T11: 0.0317 T22: 0.1248 REMARK 3 T33: 0.0246 T12: 0.0032 REMARK 3 T13: -0.0265 T23: 0.0063 REMARK 3 L TENSOR REMARK 3 L11: 2.2165 L22: 1.9079 REMARK 3 L33: 1.4306 L12: 0.5242 REMARK 3 L13: 0.0253 L23: 0.5785 REMARK 3 S TENSOR REMARK 3 S11: -0.0003 S12: -0.0713 S13: 0.0485 REMARK 3 S21: 0.0348 S22: 0.0194 S23: 0.0115 REMARK 3 S31: 0.0495 S32: 0.0249 S33: -0.0191 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 201 REMARK 3 ORIGIN FOR THE GROUP (A): -28.0872 -22.1913 -10.2981 REMARK 3 T TENSOR REMARK 3 T11: 0.0650 T22: 0.1166 REMARK 3 T33: 0.0093 T12: 0.0019 REMARK 3 T13: -0.0217 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 2.9578 L22: 0.8423 REMARK 3 L33: 0.7896 L12: 0.6556 REMARK 3 L13: 0.3973 L23: 0.3756 REMARK 3 S TENSOR REMARK 3 S11: 0.0065 S12: 0.0633 S13: 0.0414 REMARK 3 S21: 0.0166 S22: -0.0042 S23: -0.0206 REMARK 3 S31: -0.0593 S32: 0.0354 S33: -0.0023 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 2 C 119 REMARK 3 ORIGIN FOR THE GROUP (A): -28.1263 3.9858 65.2592 REMARK 3 T TENSOR REMARK 3 T11: 0.0798 T22: 0.1341 REMARK 3 T33: 0.0592 T12: 0.0265 REMARK 3 T13: -0.0592 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 5.2869 L22: 2.4491 REMARK 3 L33: 1.6562 L12: -0.9164 REMARK 3 L13: 0.5183 L23: 0.7442 REMARK 3 S TENSOR REMARK 3 S11: -0.2071 S12: -0.2458 S13: 0.4082 REMARK 3 S21: 0.1396 S22: 0.1992 S23: -0.1387 REMARK 3 S31: 0.0784 S32: -0.0156 S33: 0.0079 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 128 REMARK 3 ORIGIN FOR THE GROUP (A): -37.6506 -6.2276 40.6618 REMARK 3 T TENSOR REMARK 3 T11: 0.1129 T22: 0.1655 REMARK 3 T33: 0.0069 T12: -0.0209 REMARK 3 T13: -0.0089 T23: -0.0106 REMARK 3 L TENSOR REMARK 3 L11: 1.8322 L22: 1.4540 REMARK 3 L33: 3.2888 L12: 0.2419 REMARK 3 L13: 1.1725 L23: 0.3205 REMARK 3 S TENSOR REMARK 3 S11: 0.0858 S12: -0.0783 S13: -0.0265 REMARK 3 S21: 0.0617 S22: -0.0250 S23: -0.0886 REMARK 3 S31: 0.0722 S32: 0.1670 S33: -0.0607 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: NULL REMARK 4 REMARK 4 4U3X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000202797. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24456 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.260 REMARK 200 RESOLUTION RANGE LOW (A) : 97.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 1.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.4000 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 1LYZ, 1OHQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 300 MM SODIUM CITRATE, 16% PEG 3350, REMARK 280 PH 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 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 19.62000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 GLU A 1 REMARK 465 SER A 121 REMARK 465 LEU B 129 REMARK 465 GLU C 1 REMARK 465 VAL C 12 REMARK 465 GLN C 13 REMARK 465 PRO C 14 REMARK 465 PRO C 41 REMARK 465 GLY C 42 REMARK 465 LYS C 43 REMARK 465 GLY C 44 REMARK 465 SER C 120 REMARK 465 SER C 121 REMARK 465 LEU D 129 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 GLN A 13 CG CD OE1 NE2 REMARK 470 ARG A 28 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 43 CG CD CE NZ REMARK 470 GLU A 46 CG CD OE1 OE2 REMARK 470 LYS A 65 CG CD CE NZ REMARK 470 SER A 71 OG REMARK 470 SER A 120 OG REMARK 470 LYS B 13 CG CD CE NZ REMARK 470 ARG B 45 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 68 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 73 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 77 CG OD1 ND2 REMARK 470 LYS B 97 CG CD CE NZ REMARK 470 ASP B 101 CG OD1 OD2 REMARK 470 ARG B 128 CG CD NE CZ NH1 NH2 REMARK 470 VAL C 2 CG1 CG2 REMARK 470 GLN C 3 CG CD OE1 NE2 REMARK 470 SER C 7 OG REMARK 470 LEU C 11 CG CD1 CD2 REMARK 470 SER C 17 OG REMARK 470 LEU C 18 CG CD1 CD2 REMARK 470 SER C 25 OG REMARK 470 ARG C 28 CG CD NE CZ NH1 NH2 REMARK 470 ASP C 30 CG OD1 OD2 REMARK 470 GLN C 39 CG CD OE1 NE2 REMARK 470 GLU C 46 CG CD OE1 OE2 REMARK 470 ASP C 62 CG OD1 OD2 REMARK 470 SER C 63 OG REMARK 470 VAL C 64 CG1 CG2 REMARK 470 LYS C 65 CG CD CE NZ REMARK 470 ASP C 73 CG OD1 OD2 REMARK 470 SER C 75 OG REMARK 470 LYS C 76 CG CD CE NZ REMARK 470 SER C 85 OG REMARK 470 LEU C 86 CG CD1 CD2 REMARK 470 ARG C 87 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 89 CG CD OE1 OE2 REMARK 470 THR C 91 OG1 CG2 REMARK 470 VAL C 117 CG1 CG2 REMARK 470 THR C 118 OG1 CG2 REMARK 470 VAL C 119 CG1 CG2 REMARK 470 ARG D 14 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 45 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 68 CG CD NE CZ NH1 NH2 REMARK 470 SER D 72 OG REMARK 470 ARG D 73 CG CD NE CZ NH1 NH2 REMARK 470 LEU D 75 CG CD1 CD2 REMARK 470 ASN D 77 CG OD1 ND2 REMARK 470 ILE D 78 CG1 CG2 CD1 REMARK 470 SER D 81 OG REMARK 470 ASP D 87 CG OD1 OD2 REMARK 470 LYS D 97 CG CD CE NZ REMARK 470 ASP D 101 CG OD1 OD2 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 19 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 19 NE - CZ - NH2 ANGL. DEV. = -4.1 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 ASN A 77 51.46 37.07 REMARK 500 HIS A 106 6.75 59.85 REMARK 500 LEU B 84 60.66 -106.48 REMARK 500 LYS C 76 8.58 -153.72 REMARK 500 ASN C 77 58.23 33.06 REMARK 500 SER C 101 74.46 -156.25 REMARK 500 SER D 81 -54.44 -28.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 7 GLY A 8 -34.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4PGJ RELATED DB: PDB DBREF 4U3X A 1 121 PDB 4U3X 4U3X 1 121 DBREF 4U3X B 1 129 UNP P00698 LYSC_CHICK 19 147 DBREF 4U3X C 1 121 PDB 4U3X 4U3X 1 121 DBREF 4U3X D 1 129 UNP P00698 LYSC_CHICK 19 147 SEQRES 1 A 121 GLU VAL GLN LEU LEU GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 A 121 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 A 121 PHE ARG PHE ASP ALA GLU ASP MET GLY TRP VAL ARG GLN SEQRES 4 A 121 ALA PRO GLY LYS GLY LEU GLU TRP VAL SER SER ILE TYR SEQRES 5 A 121 GLY PRO SER GLY SER THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 A 121 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 A 121 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 A 121 ALA VAL TYR TYR CYS ALA LYS TYR THR SER PRO PRO GLN SEQRES 9 A 121 ASN HIS GLY PHE ASP TYR TRP GLY GLN GLY THR LEU VAL SEQRES 10 A 121 THR VAL SER SER SEQRES 1 B 129 LYS VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET LYS 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 LYS 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 LYS LYS ILE VAL SER ASP GLY ASN GLY SEQRES 9 B 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS LYS GLY SEQRES 10 B 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU SEQRES 1 C 121 GLU VAL GLN LEU LEU GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 C 121 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 C 121 PHE ARG PHE ASP ALA GLU ASP MET GLY TRP VAL ARG GLN SEQRES 4 C 121 ALA PRO GLY LYS GLY LEU GLU TRP VAL SER SER ILE TYR SEQRES 5 C 121 GLY PRO SER GLY SER THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 C 121 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 C 121 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 C 121 ALA VAL TYR TYR CYS ALA LYS TYR THR SER PRO PRO GLN SEQRES 9 C 121 ASN HIS GLY PHE ASP TYR TRP GLY GLN GLY THR LEU VAL SEQRES 10 C 121 THR VAL SER SER SEQRES 1 D 129 LYS VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET LYS SEQRES 2 D 129 ARG HIS GLY LEU ASP ASN TYR ARG GLY TYR SER LEU GLY SEQRES 3 D 129 ASN TRP VAL CYS ALA ALA LYS PHE GLU SER ASN PHE ASN SEQRES 4 D 129 THR GLN ALA THR ASN ARG ASN THR ASP GLY SER THR ASP SEQRES 5 D 129 TYR GLY ILE LEU GLN ILE ASN SER ARG TRP TRP CYS ASN SEQRES 6 D 129 ASP GLY ARG THR PRO GLY SER ARG ASN LEU CYS ASN ILE SEQRES 7 D 129 PRO CYS SER ALA LEU LEU SER SER ASP ILE THR ALA SER SEQRES 8 D 129 VAL ASN CYS ALA LYS LYS ILE VAL SER ASP GLY ASN GLY SEQRES 9 D 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS LYS GLY SEQRES 10 D 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU HET EDO B 201 4 HET EDO D 201 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 HOH *101(H2 O) HELIX 1 AA1 ARG A 28 GLU A 32 5 5 HELIX 2 AA2 ASP A 62 LYS A 65 5 4 HELIX 3 AA3 ASN A 74 LYS A 76 5 3 HELIX 4 AA4 ARG A 87 THR A 91 5 5 HELIX 5 AA5 GLY B 4 HIS B 15 1 12 HELIX 6 AA6 ASN B 19 TYR B 23 5 5 HELIX 7 AA7 SER B 24 ASN B 37 1 14 HELIX 8 AA8 PRO B 79 LEU B 84 5 6 HELIX 9 AA9 ILE B 88 SER B 100 1 13 HELIX 10 AB1 ASN B 103 ALA B 107 5 5 HELIX 11 AB2 TRP B 108 CYS B 115 1 8 HELIX 12 AB3 ASP B 119 ARG B 125 5 7 HELIX 13 AB4 ARG C 28 GLU C 32 5 5 HELIX 14 AB5 ARG C 87 THR C 91 5 5 HELIX 15 AB6 GLY D 4 HIS D 15 1 12 HELIX 16 AB7 ASN D 19 TYR D 23 5 5 HELIX 17 AB8 SER D 24 ASN D 37 1 14 HELIX 18 AB9 PRO D 79 LEU D 84 5 6 HELIX 19 AC1 ILE D 88 ASP D 101 1 14 HELIX 20 AC2 ASN D 103 ALA D 107 5 5 HELIX 21 AC3 TRP D 108 CYS D 115 1 8 HELIX 22 AC4 ASP D 119 ILE D 124 5 6 SHEET 1 AA1 4 GLN A 3 SER A 7 0 SHEET 2 AA1 4 LEU A 18 SER A 25 -1 O SER A 21 N SER A 7 SHEET 3 AA1 4 THR A 78 MET A 83 -1 O MET A 83 N LEU A 18 SHEET 4 AA1 4 PHE A 68 ASP A 73 -1 N THR A 69 O GLN A 82 SHEET 1 AA2 6 LEU A 11 VAL A 12 0 SHEET 2 AA2 6 THR A 115 VAL A 119 1 O THR A 118 N VAL A 12 SHEET 3 AA2 6 ALA A 92 LYS A 98 -1 N TYR A 94 O THR A 115 SHEET 4 AA2 6 MET A 34 GLN A 39 -1 N VAL A 37 O TYR A 95 SHEET 5 AA2 6 LEU A 45 TYR A 52 -1 O GLU A 46 N ARG A 38 SHEET 6 AA2 6 SER A 57 TYR A 60 -1 O SER A 57 N TYR A 52 SHEET 1 AA3 4 LEU A 11 VAL A 12 0 SHEET 2 AA3 4 THR A 115 VAL A 119 1 O THR A 118 N VAL A 12 SHEET 3 AA3 4 ALA A 92 LYS A 98 -1 N TYR A 94 O THR A 115 SHEET 4 AA3 4 TYR A 110 TRP A 111 -1 O TYR A 110 N LYS A 98 SHEET 1 AA4 3 THR B 43 ARG B 45 0 SHEET 2 AA4 3 THR B 51 TYR B 53 -1 O ASP B 52 N ASN B 44 SHEET 3 AA4 3 ILE B 58 ASN B 59 -1 O ILE B 58 N TYR B 53 SHEET 1 AA5 4 GLN C 3 SER C 7 0 SHEET 2 AA5 4 LEU C 18 SER C 25 -1 O SER C 21 N SER C 7 SHEET 3 AA5 4 THR C 78 MET C 83 -1 O MET C 83 N LEU C 18 SHEET 4 AA5 4 PHE C 68 ASP C 73 -1 N SER C 71 O TYR C 80 SHEET 1 AA6 5 SER C 57 TYR C 60 0 SHEET 2 AA6 5 GLU C 46 TYR C 52 -1 N TYR C 52 O SER C 57 SHEET 3 AA6 5 MET C 34 GLN C 39 -1 N ARG C 38 O GLU C 46 SHEET 4 AA6 5 ALA C 92 LYS C 98 -1 O TYR C 95 N VAL C 37 SHEET 5 AA6 5 TYR C 110 TRP C 111 -1 O TYR C 110 N LYS C 98 SHEET 1 AA7 5 SER C 57 TYR C 60 0 SHEET 2 AA7 5 GLU C 46 TYR C 52 -1 N TYR C 52 O SER C 57 SHEET 3 AA7 5 MET C 34 GLN C 39 -1 N ARG C 38 O GLU C 46 SHEET 4 AA7 5 ALA C 92 LYS C 98 -1 O TYR C 95 N VAL C 37 SHEET 5 AA7 5 THR C 115 VAL C 117 -1 O THR C 115 N TYR C 94 SHEET 1 AA8 3 THR D 43 ARG D 45 0 SHEET 2 AA8 3 THR D 51 TYR D 53 -1 O ASP D 52 N ASN D 44 SHEET 3 AA8 3 ILE D 58 ASN D 59 -1 O ILE D 58 N TYR D 53 SSBOND 1 CYS A 22 CYS A 96 1555 1555 2.08 SSBOND 2 CYS B 6 CYS B 127 1555 1555 2.10 SSBOND 3 CYS B 30 CYS B 115 1555 1555 2.11 SSBOND 4 CYS B 64 CYS B 80 1555 1555 2.06 SSBOND 5 CYS B 76 CYS B 94 1555 1555 2.11 SSBOND 6 CYS C 22 CYS C 96 1555 1555 2.08 SSBOND 7 CYS D 6 CYS D 127 1555 1555 2.08 SSBOND 8 CYS D 30 CYS D 115 1555 1555 2.08 SSBOND 9 CYS D 64 CYS D 80 1555 1555 2.07 SSBOND 10 CYS D 76 CYS D 94 1555 1555 2.08 CISPEP 1 PRO A 102 PRO A 103 0 -4.11 CISPEP 2 PRO C 102 PRO C 103 0 -5.20 CRYST1 68.070 39.240 100.180 90.00 104.16 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 0.014691 0.000000 0.003706 0.00000 SCALE2 0.000000 0.025484 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010295 0.00000