HEADER HYDROLASE/IMMUNE SYSTEM 05-MAY-17 5VPG TITLE CRYSTAL STRUCTURE OF DER P 1 COMPLEXED WITH FAB 4C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DER P 1 ALLERGEN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 99-320; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB 4C1 - LIGHT CHAIN; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: FAB 4C1 - HEAVY CHAIN; COMPND 11 CHAIN: D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DERMATOPHAGOIDES PTERONYSSINUS; SOURCE 3 ORGANISM_COMMON: EUROPEAN HOUSE DUST MITE; SOURCE 4 ORGANISM_TAXID: 6956; 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 ALLERGEN-ANTIBODY COMPLEX, HYDROLASE-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.CHRUSZCZ,L.D.VAILES,M.D.CHAPMAN,A.POMES,W.MINOR REVDAT 4 04-OCT-23 5VPG 1 REMARK REVDAT 3 13-APR-22 5VPG 1 AUTHOR JRNL HETSYN REVDAT 2 29-JUL-20 5VPG 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE REVDAT 1 24-MAY-17 5VPG 0 SPRSDE 24-MAY-17 5VPG 3RVW 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. 1.95 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 45003 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) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2401 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3094 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.1700 REMARK 3 BIN FREE R VALUE SET COUNT : 160 REMARK 3 BIN FREE R VALUE : 0.2110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5085 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 429 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.42000 REMARK 3 B22 (A**2) : 0.50000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.160 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.144 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.085 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.438 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5350 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3542 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7300 ; 1.580 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8619 ; 2.283 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 669 ; 6.822 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 235 ;33.948 ;23.830 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 824 ;14.362 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.833 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 800 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6032 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1104 ; 0.006 ; 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): 3307 ; 0.829 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1333 ; 0.127 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5381 ; 1.519 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2043 ; 2.727 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1919 ; 4.288 ; 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 : 5 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 222 REMARK 3 ORIGIN FOR THE GROUP (A): -20.7010 -1.1900 -8.6640 REMARK 3 T TENSOR REMARK 3 T11: 0.1459 T22: 0.0864 REMARK 3 T33: 0.1281 T12: -0.0061 REMARK 3 T13: -0.0120 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 0.7402 L22: 0.9402 REMARK 3 L33: 1.0244 L12: 0.2346 REMARK 3 L13: -0.2705 L23: -0.3262 REMARK 3 S TENSOR REMARK 3 S11: -0.0021 S12: 0.0355 S13: 0.0460 REMARK 3 S21: -0.0893 S22: 0.0217 S23: -0.0188 REMARK 3 S31: -0.0475 S32: -0.0150 S33: -0.0196 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 : C 1 C 104 REMARK 3 ORIGIN FOR THE GROUP (A): -33.1930 -7.7650 28.6020 REMARK 3 T TENSOR REMARK 3 T11: 0.2179 T22: 0.1128 REMARK 3 T33: 0.1167 T12: 0.0031 REMARK 3 T13: -0.0229 T23: 0.0121 REMARK 3 L TENSOR REMARK 3 L11: 1.6583 L22: 2.1692 REMARK 3 L33: 1.3995 L12: 0.7525 REMARK 3 L13: -0.3197 L23: -0.4193 REMARK 3 S TENSOR REMARK 3 S11: 0.0784 S12: -0.1968 S13: -0.1105 REMARK 3 S21: 0.2677 S22: -0.0718 S23: -0.0600 REMARK 3 S31: 0.0383 S32: -0.0325 S33: -0.0066 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 105 C 211 REMARK 3 ORIGIN FOR THE GROUP (A): -25.3660 -7.8930 64.7000 REMARK 3 T TENSOR REMARK 3 T11: 1.1042 T22: 0.1759 REMARK 3 T33: 0.0311 T12: 0.1181 REMARK 3 T13: -0.0784 T23: 0.0214 REMARK 3 L TENSOR REMARK 3 L11: 4.5450 L22: 4.3716 REMARK 3 L33: 8.6490 L12: 0.9058 REMARK 3 L13: 3.9535 L23: -1.4376 REMARK 3 S TENSOR REMARK 3 S11: -0.4726 S12: -0.4087 S13: 0.0285 REMARK 3 S21: 1.5240 S22: 0.3022 S23: -0.1443 REMARK 3 S31: -1.5488 S32: -0.6076 S33: 0.1704 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 119 REMARK 3 ORIGIN FOR THE GROUP (A): -13.4100 -1.0640 25.7090 REMARK 3 T TENSOR REMARK 3 T11: 0.1950 T22: 0.1280 REMARK 3 T33: 0.1480 T12: -0.0061 REMARK 3 T13: -0.0237 T23: 0.0005 REMARK 3 L TENSOR REMARK 3 L11: 1.7136 L22: 1.0113 REMARK 3 L33: 1.8330 L12: -0.0256 REMARK 3 L13: 0.5305 L23: 0.0374 REMARK 3 S TENSOR REMARK 3 S11: 0.0550 S12: -0.0607 S13: 0.0988 REMARK 3 S21: 0.1277 S22: -0.0469 S23: -0.1359 REMARK 3 S31: -0.0238 S32: 0.0940 S33: -0.0080 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 120 D 222 REMARK 3 ORIGIN FOR THE GROUP (A): -12.5280 -13.4380 57.4580 REMARK 3 T TENSOR REMARK 3 T11: 0.4853 T22: 0.1929 REMARK 3 T33: 0.2716 T12: -0.0049 REMARK 3 T13: -0.2064 T23: 0.0702 REMARK 3 L TENSOR REMARK 3 L11: 3.3410 L22: 7.6104 REMARK 3 L33: 5.4303 L12: 4.2125 REMARK 3 L13: -2.5907 L23: -5.3179 REMARK 3 S TENSOR REMARK 3 S11: -0.0554 S12: -0.2274 S13: -0.6000 REMARK 3 S21: 0.8501 S22: -0.4603 S23: -1.0808 REMARK 3 S31: -0.3419 S32: 0.5816 S33: 0.5158 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 5VPG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1000227810. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 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) : 0.9794 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 : 47483 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 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 (%) : 92.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : 26.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.53500 REMARK 200 R SYM FOR SHELL (I) : 0.53500 REMARK 200 FOR SHELL : 3.700 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 3F5V, 3RVV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NA CACODYLATE, 15% W/V PEG4000, REMARK 280 PH 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 24.90150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 111.88550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.88200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 111.88550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.90150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.88200 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 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 GLY D 135 REMARK 465 SER D 136 REMARK 465 ALA D 137 REMARK 465 ALA D 138 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 GLN C 156 CG CD OE1 NE2 REMARK 470 LYS C 183 CG CD CE NZ REMARK 470 GLN D 139 CG CD OE1 NE2 REMARK 470 LYS D 216 CG CD CE NZ REMARK 470 ASP D 222 OD1 OD2 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 69 60.26 -157.65 REMARK 500 ASP A 74 -169.66 -163.23 REMARK 500 TYR A 94 77.57 -160.03 REMARK 500 ASP A 193 176.96 74.41 REMARK 500 ASN A 207 5.19 81.08 REMARK 500 ALA C 51 -39.27 70.49 REMARK 500 ASP C 151 48.96 28.87 REMARK 500 ASN C 190 -66.42 -103.35 REMARK 500 SER D 15 -16.61 86.89 REMARK 500 TYR D 33 166.30 72.29 REMARK 500 ASN D 44 -7.93 91.15 REMARK 500 SER D 180 74.87 40.81 REMARK 500 ASP D 181 -0.76 73.74 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 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 56 OD1 REMARK 620 2 LEU A 57 O 95.9 REMARK 620 3 GLU A 59 OE2 167.4 83.9 REMARK 620 4 GLU A 91 OE2 100.1 87.5 92.4 REMARK 620 5 EDO A 302 O2 90.7 171.8 90.7 86.5 REMARK 620 6 HOH A 430 O 82.5 93.1 84.9 177.2 92.6 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: 3RVV RELATED DB: PDB REMARK 900 RELATED ID: 3RVX RELATED DB: PDB REMARK 900 RELATED ID: 5VPH RELATED DB: PDB REMARK 900 RELATED ID: 5VPK RELATED DB: PDB REMARK 900 RELATED ID: 5VPL RELATED DB: PDB DBREF 5VPG A 1 222 UNP Q3HWZ5 Q3HWZ5_DERPT 81 302 DBREF 5VPG C 1 212 PDB 5VPG 5VPG 1 212 DBREF 5VPG D 1 255 PDB 5VPG 5VPG 1 255 SEQRES 1 A 222 THR ASN ALA CYS SER ILE ASN GLY ASN ALA PRO ALA GLU SEQRES 2 A 222 ILE ASP LEU ARG GLN MET ARG THR VAL THR PRO ILE ARG SEQRES 3 A 222 MET GLN GLY GLY CYS GLY SER CYS TRP ALA PHE SER GLY SEQRES 4 A 222 VAL ALA ALA THR GLU SER ALA TYR LEU ALA TYR ARG ASN SEQRES 5 A 222 GLN SER LEU ASP LEU ALA GLU GLN GLU LEU VAL ASP CYS SEQRES 6 A 222 ALA SER GLN HIS GLY CYS HIS GLY ASP THR ILE PRO ARG SEQRES 7 A 222 GLY ILE GLU TYR ILE GLN HIS ASN GLY VAL VAL GLN GLU SEQRES 8 A 222 SER TYR TYR ARG TYR VAL ALA ARG GLU GLN SER CYS ARG SEQRES 9 A 222 ARG PRO ASN ALA GLN ARG PHE GLY ILE SER ASN TYR CYS SEQRES 10 A 222 GLN ILE TYR PRO PRO ASN ALA ASN LYS ILE ARG GLU ALA SEQRES 11 A 222 LEU ALA GLN THR HIS SER ALA ILE ALA VAL ILE ILE GLY SEQRES 12 A 222 ILE LYS ASP LEU ASP ALA PHE ARG HIS TYR ASP GLY ARG SEQRES 13 A 222 THR ILE ILE GLN ARG ASP ASN GLY TYR GLN PRO ASN TYR SEQRES 14 A 222 HIS ALA VAL ASN ILE VAL GLY TYR SER ASN ALA GLN GLY SEQRES 15 A 222 VAL ASP TYR TRP ILE VAL ARG ASN SER TRP ASP THR ASN SEQRES 16 A 222 TRP GLY ASP ASN GLY TYR GLY TYR PHE ALA ALA ASN ILE SEQRES 17 A 222 ASP LEU MET MET ILE GLU GLU TYR PRO TYR VAL VAL ILE SEQRES 18 A 222 LEU SEQRES 1 C 212 GLN ILE VAL MET THR GLN SER PRO PHE SER MET TYR ALA SEQRES 2 C 212 THR LEU GLY GLU ARG VAL THR ILE THR CYS LYS ALA SER SEQRES 3 C 212 GLN ASP ILE TYR SER TYR LEU SER TRP LEU GLN GLN LYS SEQRES 4 C 212 PRO GLY LYS SER LEU LYS THR LEU ILE TYR ARG ALA ASN SEQRES 5 C 212 ARG LEU ILE THR GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 C 212 GLY SER GLY GLN ASP TYR SER LEU THR ILE SER SER LEU SEQRES 7 C 212 GLU TYR GLU ASP MET GLY ILE TYR TYR CYS LEU GLN TYR SEQRES 8 C 212 ASP GLU PHE PRO TYR THR PHE GLY GLY GLY THR LYS LEU SEQRES 9 C 212 GLU MET LYS ARG ALA ASP ALA ALA PRO THR VAL SER ILE SEQRES 10 C 212 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 C 212 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 C 212 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 C 212 ASN GLY VAL LEU ASN SER TRP THR ASP GLN ASP SER LYS SEQRES 14 C 212 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 C 212 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 C 212 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 C 212 PHE ASN ARG ASN 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 5VPG ASN A 52 ASN GLYCOSYLATION SITE HET CA A 301 1 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET NAG A 307 14 HET EDO C 301 4 HET EDO C 302 4 HET EDO C 303 4 HETNAM CA CALCIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN EDO ETHYLENE GLYCOL 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 FORMUL 4 CA CA 2+ FORMUL 5 EDO 8(C2 H6 O2) FORMUL 10 NAG C8 H15 N O6 FORMUL 14 HOH *429(H2 O) HELIX 1 AA1 LEU A 16 ARG A 20 1 5 HELIX 2 AA2 SER A 33 ASN A 52 1 20 HELIX 3 AA3 ALA A 58 ALA A 66 1 9 HELIX 4 AA4 THR A 75 GLY A 87 1 13 HELIX 5 AA5 GLU A 91 TYR A 94 5 4 HELIX 6 AA6 ASN A 123 HIS A 135 1 13 HELIX 7 AA7 ASP A 146 HIS A 152 1 7 HELIX 8 AA8 ASP A 209 ILE A 213 5 5 HELIX 9 AA9 GLU C 79 MET C 83 5 5 HELIX 10 AB1 SER C 121 SER C 127 1 7 HELIX 11 AB2 LYS C 183 GLU C 187 1 5 HELIX 12 AB3 PRO D 62 LYS D 65 5 4 HELIX 13 AB4 THR D 87 THR D 91 5 5 HELIX 14 AB5 SER D 164 SER D 166 5 3 HELIX 15 AB6 PRO D 208 SER D 211 5 4 SHEET 1 AA1 3 ILE A 14 ASP A 15 0 SHEET 2 AA1 3 ASN A 168 ALA A 180 -1 O TYR A 177 N ILE A 14 SHEET 3 AA1 3 ILE A 138 ILE A 144 -1 N ILE A 142 O HIS A 170 SHEET 1 AA2 4 ILE A 14 ASP A 15 0 SHEET 2 AA2 4 ASN A 168 ALA A 180 -1 O TYR A 177 N ILE A 14 SHEET 3 AA2 4 VAL A 183 ARG A 189 -1 O ARG A 189 N ASN A 173 SHEET 4 AA2 4 TYR A 201 ALA A 205 -1 O GLY A 202 N VAL A 188 SHEET 1 AA3 2 VAL A 88 VAL A 89 0 SHEET 2 AA3 2 ARG A 110 PHE A 111 -1 O PHE A 111 N VAL A 88 SHEET 1 AA4 2 ASN A 115 GLN A 118 0 SHEET 2 AA4 2 TYR A 218 ILE A 221 -1 O ILE A 221 N ASN A 115 SHEET 1 AA5 4 MET C 4 SER C 7 0 SHEET 2 AA5 4 VAL C 19 ALA C 25 -1 O LYS C 24 N THR C 5 SHEET 3 AA5 4 ASP C 70 ILE C 75 -1 O TYR C 71 N CYS C 23 SHEET 4 AA5 4 PHE C 62 SER C 67 -1 N SER C 63 O THR C 74 SHEET 1 AA6 6 SER C 10 ALA C 13 0 SHEET 2 AA6 6 THR C 102 MET C 106 1 O GLU C 105 N MET C 11 SHEET 3 AA6 6 GLY C 84 GLN C 90 -1 N GLY C 84 O LEU C 104 SHEET 4 AA6 6 LEU C 33 GLN C 38 -1 N LEU C 36 O TYR C 87 SHEET 5 AA6 6 LYS C 45 TYR C 49 -1 O LEU C 47 N TRP C 35 SHEET 6 AA6 6 ARG C 53 LEU C 54 -1 O ARG C 53 N TYR C 49 SHEET 1 AA7 4 SER C 10 ALA C 13 0 SHEET 2 AA7 4 THR C 102 MET C 106 1 O GLU C 105 N MET C 11 SHEET 3 AA7 4 GLY C 84 GLN C 90 -1 N GLY C 84 O LEU C 104 SHEET 4 AA7 4 THR C 97 PHE C 98 -1 O THR C 97 N GLN C 90 SHEET 1 AA8 4 THR C 114 PHE C 118 0 SHEET 2 AA8 4 GLY C 129 PHE C 139 -1 O ASN C 137 N THR C 114 SHEET 3 AA8 4 TYR C 173 THR C 182 -1 O LEU C 181 N ALA C 130 SHEET 4 AA8 4 VAL C 159 TRP C 163 -1 N LEU C 160 O THR C 178 SHEET 1 AA9 4 SER C 153 GLU C 154 0 SHEET 2 AA9 4 ASN C 145 ILE C 150 -1 N ILE C 150 O SER C 153 SHEET 3 AA9 4 SER C 191 HIS C 198 -1 O THR C 197 N ASN C 145 SHEET 4 AA9 4 SER C 201 ASN C 210 -1 O ILE C 205 N ALA C 196 SHEET 1 AB1 4 GLN D 3 SER D 7 0 SHEET 2 AB1 4 LEU D 18 THR D 25 -1 O THR D 25 N GLN D 3 SHEET 3 AB1 4 GLN D 78 LEU D 83 -1 O PHE D 79 N CYS D 22 SHEET 4 AB1 4 ILE D 68 ASP D 73 -1 N ASP D 73 O GLN D 78 SHEET 1 AB2 6 LEU D 11 VAL D 12 0 SHEET 2 AB2 6 THR D 115 VAL D 119 1 O THR D 118 N VAL D 12 SHEET 3 AB2 6 ALA D 92 THR D 99 -1 N TYR D 94 O THR D 115 SHEET 4 AB2 6 ALA D 34 GLN D 40 -1 N ASN D 36 O GLY D 97 SHEET 5 AB2 6 LEU D 46 SER D 53 -1 O ILE D 52 N TRP D 35 SHEET 6 AB2 6 THR D 58 TYR D 60 -1 O SER D 59 N TYR D 51 SHEET 1 AB3 4 LEU D 11 VAL D 12 0 SHEET 2 AB3 4 THR D 115 VAL D 119 1 O THR D 118 N VAL D 12 SHEET 3 AB3 4 ALA D 92 THR D 99 -1 N TYR D 94 O THR D 115 SHEET 4 AB3 4 TYR D 110 TRP D 111 -1 O TYR D 110 N ARG D 98 SHEET 1 AB4 4 SER D 128 LEU D 132 0 SHEET 2 AB4 4 MET D 143 TYR D 153 -1 O LYS D 151 N SER D 128 SHEET 3 AB4 4 LEU D 182 PRO D 192 -1 O LEU D 185 N VAL D 150 SHEET 4 AB4 4 VAL D 171 THR D 173 -1 N HIS D 172 O SER D 188 SHEET 1 AB5 4 SER D 128 LEU D 132 0 SHEET 2 AB5 4 MET D 143 TYR D 153 -1 O LYS D 151 N SER D 128 SHEET 3 AB5 4 LEU D 182 PRO D 192 -1 O LEU D 185 N VAL D 150 SHEET 4 AB5 4 VAL D 177 GLN D 179 -1 N GLN D 179 O LEU D 182 SHEET 1 AB6 3 THR D 159 TRP D 162 0 SHEET 2 AB6 3 THR D 202 HIS D 207 -1 O ASN D 204 N THR D 161 SHEET 3 AB6 3 THR D 212 LYS D 217 -1 O VAL D 214 N VAL D 205 SSBOND 1 CYS A 4 CYS A 117 1555 1555 2.08 SSBOND 2 CYS A 31 CYS A 71 1555 1555 2.05 SSBOND 3 CYS A 65 CYS A 103 1555 1555 2.06 SSBOND 4 CYS C 23 CYS C 88 1555 1555 2.20 SSBOND 5 CYS C 134 CYS C 194 1555 1555 2.04 SSBOND 6 CYS D 22 CYS D 96 1555 1555 2.19 SSBOND 7 CYS D 148 CYS D 203 1555 1555 2.03 LINK ND2 ASN A 52 C1 NAG A 307 1555 1555 1.46 LINK OD1 ASP A 56 CA CA A 301 1555 1555 2.27 LINK O LEU A 57 CA CA A 301 1555 1555 2.41 LINK OE2 GLU A 59 CA CA A 301 1555 1555 2.34 LINK OE2 GLU A 91 CA CA A 301 1555 1555 2.35 LINK CA CA A 301 O2 EDO A 302 1555 1555 2.32 LINK CA CA A 301 O HOH A 430 1555 1555 2.45 CISPEP 1 TYR A 120 PRO A 121 0 -13.13 CISPEP 2 SER C 7 PRO C 8 0 -1.45 CISPEP 3 PHE C 94 PRO C 95 0 -6.40 CISPEP 4 TYR C 140 PRO C 141 0 2.50 CISPEP 5 TYR D 104 PRO D 105 0 -3.70 CISPEP 6 PHE D 154 PRO D 155 0 -5.76 CISPEP 7 GLU D 156 PRO D 157 0 -0.83 CISPEP 8 TRP D 196 PRO D 197 0 9.21 CRYST1 49.803 61.764 223.771 90.00 90.00 90.00 P 21 21 21 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 0.020079 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016191 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004469 0.00000