HEADER HYDROLASE/IMMUNE SYSTEM 06-MAY-11 3RVV OBSLTE 27-APR-22 3RVV 5VPL TITLE CRYSTAL STRUCTURE OF DER F 1 COMPLEXED WITH FAB 4C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 99-321; COMPND 5 SYNONYM: ALLERGEN DER F I, MAJOR MITE FECAL ALLERGEN DER F 1; COMPND 6 EC: 3.4.22.65; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 4C1 - LIGHT CHAIN; COMPND 9 CHAIN: C; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 4C1 - HEAVY CHAIN; COMPND 13 CHAIN: D; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DERMATOPHAGOIDES FARINAE; SOURCE 3 ORGANISM_COMMON: AMERICAN HOUSE DUST MITE; SOURCE 4 ORGANISM_TAXID: 6954; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 7 ORGANISM_COMMON: MOUSE; SOURCE 8 ORGANISM_TAXID: 10090; SOURCE 9 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 11 EXPRESSION_SYSTEM_CELL_LINE: HYBRIDOMA; SOURCE 12 MOL_ID: 3; SOURCE 13 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 14 ORGANISM_COMMON: MOUSE; SOURCE 15 ORGANISM_TAXID: 10090; SOURCE 16 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 18 EXPRESSION_SYSTEM_CELL_LINE: HYBRIDOMA KEYWDS COMPLEX BETWEEN AN ALLERGEN AND FAB FRAGMENT OF 4C1 ANTIBODY, KEYWDS 2 HYDROLASE-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.CHRUSZCZ,L.D.VAILES,M.D.CHAPMAN,A.POMES,W.MINOR REVDAT 5 27-APR-22 3RVV 1 OBSLTE REVDAT 4 13-APR-22 3RVV 1 AUTHOR JRNL HETSYN REVDAT 3 29-JUL-20 3RVV 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 23-MAY-12 3RVV 1 JRNL REVDAT 1 11-JAN-12 3RVV 0 JRNL AUTH M.CHRUSZCZ,A.POMES,J.GLESNER,L.D.VAILES,T.OSINSKI, JRNL AUTH 2 P.J.POREBSKI,K.A.MAJOREK,P.W.HEYMANN,T.A.PLATTS-MILLS, JRNL AUTH 3 W.MINOR,M.D.CHAPMAN JRNL TITL MOLECULAR DETERMINANTS FOR ANTIBODY BINDING ON GROUP 1 HOUSE JRNL TITL 2 DUST MITE ALLERGENS. JRNL REF J.BIOL.CHEM. V. 287 7388 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22210776 JRNL DOI 10.1074/JBC.M111.311159 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 53113 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2839 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3833 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.2090 REMARK 3 BIN FREE R VALUE SET COUNT : 201 REMARK 3 BIN FREE R VALUE : 0.2400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5097 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 640 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : 1.34000 REMARK 3 B33 (A**2) : -1.64000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.130 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.085 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.402 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5379 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3577 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7344 ; 1.578 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8715 ; 3.717 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 672 ; 6.683 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 237 ;35.281 ;23.840 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 850 ;14.013 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;21.172 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 805 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6055 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1105 ; 0.010 ; 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): 3314 ; 1.796 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1335 ; 0.168 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5411 ; 2.402 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2065 ; 3.724 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1933 ; 5.035 ; 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 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 1 A 104 REMARK 3 ORIGIN FOR THE GROUP (A): 34.7090 13.3570 30.1260 REMARK 3 T TENSOR REMARK 3 T11: 0.0108 T22: 0.0278 REMARK 3 T33: 0.1215 T12: -0.0048 REMARK 3 T13: -0.0165 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 1.4531 L22: 1.6116 REMARK 3 L33: 1.4652 L12: -0.0701 REMARK 3 L13: 0.1691 L23: 0.3841 REMARK 3 S TENSOR REMARK 3 S11: 0.0251 S12: 0.0253 S13: 0.0835 REMARK 3 S21: -0.0376 S22: -0.0427 S23: 0.1697 REMARK 3 S31: -0.0459 S32: -0.1239 S33: 0.0175 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 : A 105 A 223 REMARK 3 ORIGIN FOR THE GROUP (A): 43.0520 4.4000 34.5500 REMARK 3 T TENSOR REMARK 3 T11: 0.0264 T22: 0.0169 REMARK 3 T33: 0.1002 T12: -0.0052 REMARK 3 T13: 0.0030 T23: 0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.4456 L22: 1.0710 REMARK 3 L33: 1.5287 L12: -0.2179 REMARK 3 L13: 0.2918 L23: 0.0161 REMARK 3 S TENSOR REMARK 3 S11: 0.0248 S12: -0.1471 S13: -0.1250 REMARK 3 S21: 0.0083 S22: 0.0085 S23: 0.0685 REMARK 3 S31: 0.1603 S32: -0.0201 S33: -0.0333 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 1 C 107 REMARK 3 ORIGIN FOR THE GROUP (A): 76.6430 -0.5270 20.1720 REMARK 3 T TENSOR REMARK 3 T11: 0.0127 T22: 0.0175 REMARK 3 T33: 0.1083 T12: 0.0028 REMARK 3 T13: -0.0064 T23: -0.0123 REMARK 3 L TENSOR REMARK 3 L11: 1.5147 L22: 1.6402 REMARK 3 L33: 1.3914 L12: -0.8130 REMARK 3 L13: -0.2227 L23: 0.1016 REMARK 3 S TENSOR REMARK 3 S11: 0.0327 S12: -0.0292 S13: -0.0552 REMARK 3 S21: -0.0536 S22: -0.0343 S23: -0.0009 REMARK 3 S31: 0.0692 S32: 0.1031 S33: 0.0017 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 : C 108 C 211 REMARK 3 ORIGIN FOR THE GROUP (A): 101.0150 2.1740 -7.9660 REMARK 3 T TENSOR REMARK 3 T11: 0.0142 T22: 0.2460 REMARK 3 T33: 0.1633 T12: -0.0440 REMARK 3 T13: 0.0175 T23: -0.0923 REMARK 3 L TENSOR REMARK 3 L11: 2.0079 L22: 2.9049 REMARK 3 L33: 8.3542 L12: 0.4778 REMARK 3 L13: -1.6348 L23: -3.0017 REMARK 3 S TENSOR REMARK 3 S11: 0.0488 S12: -0.1394 S13: 0.0186 REMARK 3 S21: -0.0266 S22: -0.0239 S23: -0.2905 REMARK 3 S31: -0.2031 S32: 1.1145 S33: -0.0248 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 121 REMARK 3 ORIGIN FOR THE GROUP (A): 64.3120 12.2750 8.2690 REMARK 3 T TENSOR REMARK 3 T11: 0.0519 T22: 0.0303 REMARK 3 T33: 0.1185 T12: 0.0286 REMARK 3 T13: -0.0078 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 1.4118 L22: 0.9282 REMARK 3 L33: 2.0052 L12: 0.3104 REMARK 3 L13: -0.8157 L23: -0.3220 REMARK 3 S TENSOR REMARK 3 S11: 0.0370 S12: 0.1241 S13: 0.1114 REMARK 3 S21: -0.1031 S22: 0.0307 S23: 0.0400 REMARK 3 S31: -0.1455 S32: -0.1952 S33: -0.0676 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 122 D 222 REMARK 3 ORIGIN FOR THE GROUP (A): 86.4030 0.4040 -13.6100 REMARK 3 T TENSOR REMARK 3 T11: 0.0376 T22: 0.0258 REMARK 3 T33: 0.0451 T12: 0.0049 REMARK 3 T13: 0.0098 T23: -0.0058 REMARK 3 L TENSOR REMARK 3 L11: 2.2102 L22: 3.6890 REMARK 3 L33: 2.3861 L12: -1.3863 REMARK 3 L13: -0.7367 L23: 1.4896 REMARK 3 S TENSOR REMARK 3 S11: 0.0952 S12: 0.1426 S13: 0.0279 REMARK 3 S21: -0.1756 S22: 0.0257 S23: -0.1893 REMARK 3 S31: -0.0154 S32: 0.0316 S33: -0.1210 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 3RVV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000065440. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55979 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 23.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.55700 REMARK 200 R SYM FOR SHELL (I) : 0.55700 REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: HKL-3000, MOLREP REMARK 200 STARTING MODEL: PDB ENTRIES 3D6S, 1MLB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES, 18% W/V PEG12K, PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 39.71400 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 300 REMARK: THIS IS COMPLEX OF ANTIBODY FRAGMENT WITH AN ALLERGEN 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ASN C 212 REMARK 465 GLU C 213 REMARK 465 GLY D 135 REMARK 465 SER D 136 REMARK 465 ALA D 137 REMARK 465 ALA D 138 REMARK 465 GLN D 139 REMARK 465 THR D 140 REMARK 465 CYS D 223 REMARK 465 GLY D 224 REMARK 465 CYS D 225 REMARK 465 LYS D 226 REMARK 465 PRO D 227 REMARK 465 CYS D 228 REMARK 465 ILE D 229 REMARK 465 CYS D 230 REMARK 465 THR D 231 REMARK 465 VAL D 232 REMARK 465 PRO D 233 REMARK 465 GLU D 234 REMARK 465 VAL D 235 REMARK 465 SER D 236 REMARK 465 SER D 237 REMARK 465 VAL D 238 REMARK 465 PHE D 239 REMARK 465 ILE D 240 REMARK 465 PHE D 241 REMARK 465 PRO D 242 REMARK 465 PRO D 243 REMARK 465 LYS D 244 REMARK 465 PRO D 245 REMARK 465 LYS D 246 REMARK 465 ASP D 247 REMARK 465 VAL D 248 REMARK 465 LEU D 249 REMARK 465 THR D 250 REMARK 465 ILE D 251 REMARK 465 THR D 252 REMARK 465 LEU D 253 REMARK 465 THR D 254 REMARK 465 PRO D 255 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 ASP D 222 CG OD1 OD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CG ASN A 53 C1 NAG A 224 2.18 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 HIS A 70 57.70 -161.07 REMARK 500 TYR A 95 76.96 -161.22 REMARK 500 ASP A 124 127.62 -175.23 REMARK 500 ASP A 124 129.09 -175.23 REMARK 500 TYR A 166 -121.58 -96.96 REMARK 500 ASP A 194 172.62 72.26 REMARK 500 ALA C 51 -41.24 67.82 REMARK 500 SER D 15 -10.04 85.90 REMARK 500 ASP D 32 176.65 174.32 REMARK 500 TYR D 33 166.19 77.58 REMARK 500 ASN D 44 -10.10 96.17 REMARK 500 ASN D 44 -8.47 96.17 REMARK 500 SER D 180 58.65 37.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 225 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 57 OD1 REMARK 620 2 LEU A 58 O 99.1 REMARK 620 3 GLU A 60 OE1 168.5 82.0 REMARK 620 4 GLU A 92 OE1 97.8 89.9 93.7 REMARK 620 5 EDO A 227 O1 91.6 166.8 89.1 81.0 REMARK 620 6 HOH A 361 O 85.0 93.1 83.5 175.6 95.6 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RVT RELATED DB: PDB REMARK 900 RELATED ID: 3RVU RELATED DB: PDB REMARK 900 RELATED ID: 3RVW RELATED DB: PDB REMARK 900 RELATED ID: 3RVX RELATED DB: PDB DBREF 3RVV A 1 223 UNP P16311 PEPT1_DERFA 99 321 DBREF 3RVV C 1 213 PDB 3RVV 3RVV 1 213 DBREF 3RVV D 1 243 PDB 3RVV 3RVV 1 243 SEQRES 1 A 223 THR SER ALA CYS ARG ILE ASN SER VAL ASN VAL PRO SER SEQRES 2 A 223 GLU LEU ASP LEU ARG SER LEU ARG THR VAL THR PRO ILE SEQRES 3 A 223 ARG MET GLN GLY GLY CYS GLY SER CYS TRP ALA PHE SER SEQRES 4 A 223 GLY VAL ALA ALA THR GLU SER ALA TYR LEU ALA TYR ARG SEQRES 5 A 223 ASN THR SER LEU ASP LEU SER GLU GLN GLU LEU VAL ASP SEQRES 6 A 223 CYS ALA SER GLN HIS GLY CYS HIS GLY ASP THR ILE PRO SEQRES 7 A 223 ARG GLY ILE GLU TYR ILE GLN GLN ASN GLY VAL VAL GLU SEQRES 8 A 223 GLU ARG SER TYR PRO TYR VAL ALA ARG GLU GLN ARG CYS SEQRES 9 A 223 ARG ARG PRO ASN SER GLN HIS TYR GLY ILE SER ASN TYR SEQRES 10 A 223 CYS GLN ILE TYR PRO PRO ASP VAL LYS GLN ILE ARG GLU SEQRES 11 A 223 ALA LEU THR GLN THR HIS THR ALA ILE ALA VAL ILE ILE SEQRES 12 A 223 GLY ILE LYS ASP LEU ARG ALA PHE GLN HIS TYR ASP GLY SEQRES 13 A 223 ARG THR ILE ILE GLN HIS ASP ASN GLY TYR GLN PRO ASN SEQRES 14 A 223 TYR HIS ALA VAL ASN ILE VAL GLY TYR GLY SER THR GLN SEQRES 15 A 223 GLY ASP ASP TYR TRP ILE VAL ARG ASN SER TRP ASP THR SEQRES 16 A 223 THR TRP GLY ASP SER GLY TYR GLY TYR PHE GLN ALA GLY SEQRES 17 A 223 ASN ASN LEU MET MET ILE GLU GLN TYR PRO TYR VAL VAL SEQRES 18 A 223 ILE MET SEQRES 1 C 213 GLN ILE VAL MET THR GLN SER PRO PHE SER MET TYR ALA SEQRES 2 C 213 THR LEU GLY GLU ARG VAL THR ILE THR CYS LYS ALA SER SEQRES 3 C 213 GLN ASP ILE TYR SER TYR LEU SER TRP LEU GLN GLN LYS SEQRES 4 C 213 PRO GLY LYS SER LEU LYS THR LEU ILE TYR ARG ALA ASN SEQRES 5 C 213 ARG LEU ILE THR GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 C 213 GLY SER GLY GLN ASP TYR SER LEU THR ILE SER SER LEU SEQRES 7 C 213 GLU TYR GLU ASP MET GLY ILE TYR TYR CYS LEU GLN TYR SEQRES 8 C 213 ASP GLU PHE PRO TYR THR PHE GLY GLY GLY THR LYS LEU SEQRES 9 C 213 GLU MET LYS ARG ALA ASP ALA ALA PRO THR VAL SER ILE SEQRES 10 C 213 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 C 213 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 C 213 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 C 213 ASN GLY VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS SEQRES 14 C 213 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 C 213 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 C 213 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 C 213 PHE ASN ARG ASN GLU SEQRES 1 D 255 GLU VAL GLN LEU GLN GLU SER GLY PRO GLY LEU VAL LYS SEQRES 2 D 255 PRO SER GLN SER LEU SER LEU THR CYS THR VAL THR GLY SEQRES 3 D 255 TYR SER ILE THR SER ASP TYR ALA TRP ASN TRP ILE ARG SEQRES 4 D 255 GLN PHE PRO GLY ASN LYS LEU GLU TRP MET GLY TYR ILE SEQRES 5 D 255 SER TYR SER GLY THR THR SER TYR ASN PRO SER LEU LYS SEQRES 6 D 255 SER ARG ILE SER ILE THR ARG ASP THR SER LYS ASN GLN SEQRES 7 D 255 PHE PHE LEU GLN LEU ASN SER VAL THR THR GLU ASP THR SEQRES 8 D 255 ALA THR TYR TYR CYS GLY ARG THR GLY VAL TYR ARG TYR SEQRES 9 D 255 PRO GLU ARG ALA PRO TYR TRP GLY GLN GLY THR LEU VAL SEQRES 10 D 255 THR VAL SER ALA ALA LYS THR THR PRO PRO SER VAL TYR SEQRES 11 D 255 PRO LEU ALA PRO GLY SER ALA ALA GLN THR ASN SER MET SEQRES 12 D 255 VAL THR LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU SEQRES 13 D 255 PRO VAL THR VAL THR TRP ASN SER GLY SER LEU SER SER SEQRES 14 D 255 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER ASP LEU SEQRES 15 D 255 TYR THR LEU SER SER SER VAL THR VAL PRO SER SER THR SEQRES 16 D 255 TRP PRO SER GLU THR VAL THR CYS ASN VAL ALA HIS PRO SEQRES 17 D 255 ALA SER SER THR LYS VAL ASP LYS LYS ILE VAL PRO ARG SEQRES 18 D 255 ASP CYS GLY CYS LYS PRO CYS ILE CYS THR VAL PRO GLU SEQRES 19 D 255 VAL SER SER VAL PHE ILE PHE PRO PRO LYS PRO LYS ASP SEQRES 20 D 255 VAL LEU THR ILE THR LEU THR PRO MODRES 3RVV ASN A 53 ASN GLYCOSYLATION SITE HET NAG A 224 14 HET CA A 225 1 HET EDO A 226 4 HET EDO A 227 4 HET EDO C 214 4 HET EDO C 215 4 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN EDO ETHYLENE GLYCOL FORMUL 4 NAG C8 H15 N O6 FORMUL 5 CA CA 2+ FORMUL 6 EDO 4(C2 H6 O2) FORMUL 10 HOH *640(H2 O) HELIX 1 1 SER A 34 ASN A 53 1 20 HELIX 2 2 SER A 59 ALA A 67 1 9 HELIX 3 3 THR A 76 GLY A 88 1 13 HELIX 4 4 GLU A 91 TYR A 95 5 5 HELIX 5 5 ASP A 124 HIS A 136 1 13 HELIX 6 6 ASP A 147 HIS A 153 1 7 HELIX 7 7 ASN A 210 ILE A 214 5 5 HELIX 8 8 GLU C 79 MET C 83 5 5 HELIX 9 9 SER C 121 SER C 127 1 7 HELIX 10 10 LYS C 183 GLU C 187 1 5 HELIX 11 11 PRO D 62 LYS D 65 5 4 HELIX 12 12 THR D 87 THR D 91 5 5 HELIX 13 13 SER D 164 SER D 166 5 3 HELIX 14 14 SER D 194 TRP D 196 5 3 HELIX 15 15 PRO D 208 SER D 211 5 4 SHEET 1 A 3 LEU A 15 ASP A 16 0 SHEET 2 A 3 ASN A 169 THR A 181 -1 O TYR A 178 N LEU A 15 SHEET 3 A 3 ILE A 139 ILE A 145 -1 N ILE A 143 O HIS A 171 SHEET 1 B 4 LEU A 15 ASP A 16 0 SHEET 2 B 4 ASN A 169 THR A 181 -1 O TYR A 178 N LEU A 15 SHEET 3 B 4 ASP A 184 ARG A 190 -1 O ILE A 188 N VAL A 176 SHEET 4 B 4 TYR A 202 GLN A 206 -1 O PHE A 205 N TRP A 187 SHEET 1 C 2 ASN A 116 GLN A 119 0 SHEET 2 C 2 TYR A 219 ILE A 222 -1 O ILE A 222 N ASN A 116 SHEET 1 D 4 MET C 4 SER C 7 0 SHEET 2 D 4 VAL C 19 ALA C 25 -1 O THR C 22 N SER C 7 SHEET 3 D 4 ASP C 70 ILE C 75 -1 O LEU C 73 N ILE C 21 SHEET 4 D 4 PHE C 62 SER C 67 -1 N SER C 63 O THR C 74 SHEET 1 E 6 SER C 10 ALA C 13 0 SHEET 2 E 6 THR C 102 MET C 106 1 O GLU C 105 N MET C 11 SHEET 3 E 6 GLY C 84 GLN C 90 -1 N GLY C 84 O LEU C 104 SHEET 4 E 6 LEU C 33 GLN C 38 -1 N LEU C 36 O TYR C 87 SHEET 5 E 6 LEU C 44 TYR C 49 -1 O LYS C 45 N GLN C 37 SHEET 6 E 6 ARG C 53 LEU C 54 -1 O ARG C 53 N TYR C 49 SHEET 1 F 4 SER C 10 ALA C 13 0 SHEET 2 F 4 THR C 102 MET C 106 1 O GLU C 105 N MET C 11 SHEET 3 F 4 GLY C 84 GLN C 90 -1 N GLY C 84 O LEU C 104 SHEET 4 F 4 THR C 97 PHE C 98 -1 O THR C 97 N GLN C 90 SHEET 1 G 4 THR C 114 PHE C 118 0 SHEET 2 G 4 GLY C 129 PHE C 139 -1 O ASN C 137 N THR C 114 SHEET 3 G 4 TYR C 173 THR C 182 -1 O LEU C 181 N ALA C 130 SHEET 4 G 4 VAL C 159 TRP C 163 -1 N SER C 162 O SER C 176 SHEET 1 H 4 SER C 153 GLU C 154 0 SHEET 2 H 4 ASN C 145 ILE C 150 -1 N ILE C 150 O SER C 153 SHEET 3 H 4 SER C 191 THR C 197 -1 O GLU C 195 N LYS C 147 SHEET 4 H 4 ILE C 205 ASN C 210 -1 O LYS C 207 N CYS C 194 SHEET 1 I 4 GLN D 3 SER D 7 0 SHEET 2 I 4 LEU D 18 THR D 25 -1 O THR D 21 N SER D 7 SHEET 3 I 4 GLN D 78 LEU D 83 -1 O PHE D 79 N CYS D 22 SHEET 4 I 4 ILE D 68 ASP D 73 -1 N ASP D 73 O GLN D 78 SHEET 1 J 6 LEU D 11 VAL D 12 0 SHEET 2 J 6 THR D 115 VAL D 119 1 O THR D 118 N VAL D 12 SHEET 3 J 6 ALA D 92 THR D 99 -1 N TYR D 94 O THR D 115 SHEET 4 J 6 ALA D 34 GLN D 40 -1 N ALA D 34 O THR D 99 SHEET 5 J 6 LEU D 46 SER D 53 -1 O ILE D 52 N TRP D 35 SHEET 6 J 6 THR D 58 TYR D 60 -1 O SER D 59 N TYR D 51 SHEET 1 K 4 LEU D 11 VAL D 12 0 SHEET 2 K 4 THR D 115 VAL D 119 1 O THR D 118 N VAL D 12 SHEET 3 K 4 ALA D 92 THR D 99 -1 N TYR D 94 O THR D 115 SHEET 4 K 4 TYR D 110 TRP D 111 -1 O TYR D 110 N ARG D 98 SHEET 1 L 4 SER D 128 LEU D 132 0 SHEET 2 L 4 MET D 143 TYR D 153 -1 O LEU D 149 N TYR D 130 SHEET 3 L 4 LEU D 182 PRO D 192 -1 O LEU D 185 N VAL D 150 SHEET 4 L 4 VAL D 171 THR D 173 -1 N HIS D 172 O SER D 188 SHEET 1 M 4 SER D 128 LEU D 132 0 SHEET 2 M 4 MET D 143 TYR D 153 -1 O LEU D 149 N TYR D 130 SHEET 3 M 4 LEU D 182 PRO D 192 -1 O LEU D 185 N VAL D 150 SHEET 4 M 4 VAL D 177 GLN D 179 -1 N GLN D 179 O LEU D 182 SHEET 1 N 3 THR D 159 TRP D 162 0 SHEET 2 N 3 THR D 202 HIS D 207 -1 O ASN D 204 N THR D 161 SHEET 3 N 3 THR D 212 LYS D 217 -1 O VAL D 214 N VAL D 205 SSBOND 1 CYS A 4 CYS A 118 1555 1555 2.17 SSBOND 2 CYS A 32 CYS A 72 1555 1555 2.08 SSBOND 3 CYS A 66 CYS A 104 1555 1555 2.08 SSBOND 4 CYS C 23 CYS C 88 1555 1555 2.18 SSBOND 5 CYS C 134 CYS C 194 1555 1555 2.07 SSBOND 6 CYS D 22 CYS D 96 1555 1555 2.19 SSBOND 7 CYS D 148 CYS D 203 1555 1555 2.07 LINK ND2 ASN A 53 C1 NAG A 224 1555 1555 1.41 LINK OD1 ASP A 57 CA CA A 225 1555 1555 2.23 LINK O LEU A 58 CA CA A 225 1555 1555 2.29 LINK OE1 GLU A 60 CA CA A 225 1555 1555 2.34 LINK OE1 GLU A 92 CA CA A 225 1555 1555 2.37 LINK CA CA A 225 O1 EDO A 227 1555 1555 2.45 LINK CA CA A 225 O HOH A 361 1555 1555 2.41 CISPEP 1 TYR A 121 PRO A 122 0 -3.65 CISPEP 2 SER C 7 PRO C 8 0 -9.31 CISPEP 3 PHE C 94 PRO C 95 0 -5.45 CISPEP 4 TYR C 140 PRO C 141 0 0.15 CISPEP 5 TYR D 104 PRO D 105 0 -9.11 CISPEP 6 PHE D 154 PRO D 155 0 -8.07 CISPEP 7 GLU D 156 PRO D 157 0 -2.30 CISPEP 8 TRP D 196 PRO D 197 0 12.14 CRYST1 65.403 79.428 72.199 90.00 105.20 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 0.015290 0.000000 0.004154 0.00000 SCALE2 0.000000 0.012590 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014353 0.00000