HEADER ALLERGEN/IMMUNE SYSTEM 14-MAY-19 6OY4 TITLE CRYSTAL STRUCTURE OF COMPLEX BETWEEN RECOMBINANT DER P 2.0103 AND FAB TITLE 2 FRAGMENT OF 7A1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DER P 2 VARIANT 3; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FAB FRAGMENT OF IGG, LIGHT CHAIN; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: FAB FRAGMENT OF IGG, 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 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_TAXID: 10090; SOURCE 10 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 12 EXPRESSION_SYSTEM_CELL_LINE: 7A1-H1-G3; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 15 ORGANISM_TAXID: 10090; SOURCE 16 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 18 EXPRESSION_SYSTEM_CELL_LINE: 7A1-H1-G3 KEYWDS ALLERGEN, DUST MITE, ANTIBODY BINDING, ALLERGEN-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.B.KAPINGIDZA,L.R.OFFERMANN,J.GLESNER,S.WUNSCHMANN,L.D.VAILES, AUTHOR 2 M.D.C.CHAPMAN,A.POMES,M.CHRUSZCZ REVDAT 6 16-OCT-24 6OY4 1 REMARK REVDAT 5 11-OCT-23 6OY4 1 REMARK REVDAT 4 04-AUG-21 6OY4 1 COMPND REVDAT 3 11-MAR-20 6OY4 1 JRNL REVDAT 2 18-DEC-19 6OY4 1 REMARK REVDAT 1 28-AUG-19 6OY4 0 JRNL AUTH J.GLESNER,A.B.KAPINGIDZA,M.GODZWON,L.R.OFFERMANN, JRNL AUTH 2 G.A.MUELLER,E.F.DEROSE,P.WRIGHT,C.M.RICHARDSON,J.A.WOODFOLK, JRNL AUTH 3 L.D.VAILES,S.WUNSCHMANN,R.E.LONDON,M.D.CHAPMAN,M.OHLIN, JRNL AUTH 4 M.CHRUSZCZ,A.POMES JRNL TITL A HUMAN IGE ANTIBODY BINDING SITE ON DER P 2 FOR THE DESIGN JRNL TITL 2 OF A RECOMBINANT ALLERGEN FOR IMMUNOTHERAPY. JRNL REF J IMMUNOL. V. 203 2545 2019 JRNL REFN ESSN 1550-6606 JRNL PMID 31554696 JRNL DOI 10.4049/JIMMUNOL.1900580 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 22564 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1142 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) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1568 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE SET COUNT : 95 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4191 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 221 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.73000 REMARK 3 B22 (A**2) : 3.61000 REMARK 3 B33 (A**2) : -0.38000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.79000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.489 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.292 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4301 ; 0.011 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3788 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5859 ; 1.436 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8851 ; 3.904 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 548 ; 6.970 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;37.210 ;25.263 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 661 ;12.673 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;20.916 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 657 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4772 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 818 ; 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): 2213 ; 1.254 ; 3.045 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2212 ; 1.254 ; 3.044 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2754 ; 2.270 ; 4.548 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2755 ; 2.270 ; 4.548 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2088 ; 0.972 ; 3.016 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2085 ; 0.969 ; 3.008 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3099 ; 1.690 ; 4.484 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4391 ; 4.509 ;33.318 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4369 ; 4.419 ;33.211 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 : 3 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 129 REMARK 3 ORIGIN FOR THE GROUP (A): 9.3270 -45.5490 17.3860 REMARK 3 T TENSOR REMARK 3 T11: 0.0701 T22: 0.3510 REMARK 3 T33: 0.2484 T12: 0.0666 REMARK 3 T13: 0.0366 T23: 0.2437 REMARK 3 L TENSOR REMARK 3 L11: 2.5807 L22: 1.9647 REMARK 3 L33: 2.6121 L12: 0.5805 REMARK 3 L13: 0.6405 L23: -0.5691 REMARK 3 S TENSOR REMARK 3 S11: 0.0418 S12: -0.6506 S13: -0.7134 REMARK 3 S21: 0.2701 S22: 0.0425 S23: -0.0909 REMARK 3 S31: 0.0673 S32: -0.0114 S33: -0.0843 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 216 REMARK 3 ORIGIN FOR THE GROUP (A): 43.1290 -19.9170 -14.8290 REMARK 3 T TENSOR REMARK 3 T11: 0.1348 T22: 0.0380 REMARK 3 T33: 0.0289 T12: -0.0191 REMARK 3 T13: 0.0089 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.6216 L22: 0.2655 REMARK 3 L33: 1.2811 L12: 0.2694 REMARK 3 L13: 0.2570 L23: -0.0376 REMARK 3 S TENSOR REMARK 3 S11: -0.1169 S12: 0.0903 S13: -0.0567 REMARK 3 S21: -0.0258 S22: 0.0368 S23: 0.0010 REMARK 3 S31: -0.2334 S32: 0.1207 S33: 0.0801 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 : D 1 D 221 REMARK 3 ORIGIN FOR THE GROUP (A): 26.3300 -22.9300 -21.9120 REMARK 3 T TENSOR REMARK 3 T11: 0.0892 T22: 0.0870 REMARK 3 T33: 0.0366 T12: 0.0453 REMARK 3 T13: 0.0127 T23: -0.0383 REMARK 3 L TENSOR REMARK 3 L11: 1.0968 L22: 0.3089 REMARK 3 L33: 1.5092 L12: 0.4407 REMARK 3 L13: -0.5880 L23: -0.0834 REMARK 3 S TENSOR REMARK 3 S11: -0.0380 S12: 0.1848 S13: -0.1357 REMARK 3 S21: -0.0252 S22: 0.0187 S23: -0.0193 REMARK 3 S31: -0.1992 S32: -0.2266 S33: 0.0194 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 6OY4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1000241562. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23826 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : 0.11400 REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.52800 REMARK 200 R SYM FOR SHELL (I) : 0.52800 REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1KTJ, 3RVT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM BIS-TRIS, 200 MM AMMONIUM REMARK 280 ACETATE, 30-55% 2-METHYL-2,4-PENTANEDIOL AT PH 6.5 (WELL REMARK 280 SOLUTION), VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 90.04700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.66800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 90.04700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.66800 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: 5070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 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 LYS A 48 REMARK 465 THR A 49 REMARK 465 LYS A 77 REMARK 465 CYS A 78 REMARK 465 PRO A 79 REMARK 465 MET A 111 REMARK 465 GLY A 112 REMARK 465 ALA D 137 REMARK 465 ALA D 138 REMARK 465 GLN D 139 REMARK 465 THR D 140 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 ASN A 10 CG OD1 ND2 REMARK 470 LYS A 51 CG CD CE NZ REMARK 470 GLU A 53 CG CD OE1 OE2 REMARK 470 LYS A 55 CG CD CE NZ REMARK 470 LEU A 61 CG CD1 CD2 REMARK 470 GLU A 62 CG CD OE1 OE2 REMARK 470 HIS A 74 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 80 CG CD1 CD2 REMARK 470 TYR A 86 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 89 CG CD CE NZ REMARK 470 ASP A 113 CG OD1 OD2 REMARK 470 GLN C 160 CG CD OE1 NE2 REMARK 470 GLN D 1 CG CD OE1 NE2 REMARK 470 ASN D 141 CG OD1 ND2 REMARK 470 ARG D 221 CG CD NE CZ NH1 NH2 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 VAL A 5 -162.60 -110.48 REMARK 500 ALA A 9 -117.53 -97.76 REMARK 500 ASN A 44 49.22 -108.39 REMARK 500 ALA C 55 -49.14 73.38 REMARK 500 HIS C 80 105.16 -161.39 REMARK 500 ALA C 88 -177.37 -177.93 REMARK 500 ALA C 134 106.74 -161.77 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 GLY A 60 LEU A 61 149.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH D 396 DISTANCE = 7.19 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 301 DBREF 6OY4 A 1 129 UNP I2CMD6 I2CMD6_DERPT 1 129 DBREF 6OY4 C 1 216 PDB 6OY4 6OY4 1 216 DBREF 6OY4 D 1 221 PDB 6OY4 6OY4 1 221 SEQRES 1 A 129 ASP GLN VAL ASP VAL LYS ASP CYS ALA ASN HIS GLU ILE SEQRES 2 A 129 LYS LYS VAL LEU VAL PRO GLY CYS HIS GLY SER GLU PRO SEQRES 3 A 129 CYS ILE ILE HIS ARG GLY LYS PRO PHE GLN LEU GLU ALA SEQRES 4 A 129 LEU PHE GLU ALA ASN GLN ASN SER LYS THR ALA LYS ILE SEQRES 5 A 129 GLU ILE LYS ALA SER ILE ASP GLY LEU GLU VAL ASP VAL SEQRES 6 A 129 PRO GLY ILE ASP PRO ASN ALA CYS HIS TYR MET LYS CYS SEQRES 7 A 129 PRO LEU VAL LYS GLY GLN GLN TYR ASP ILE LYS TYR THR SEQRES 8 A 129 TRP ASN VAL PRO LYS ILE ALA PRO LYS SER GLU ASN VAL SEQRES 9 A 129 VAL VAL THR VAL LYS VAL MET GLY ASP ASN GLY VAL LEU SEQRES 10 A 129 ALA CYS ALA ILE ALA THR HIS ALA LYS ILE ARG ASP SEQRES 1 C 216 ASP ILE VAL LEU THR GLN SER PRO ALA SER LEU ALA VAL SEQRES 2 C 216 SER LEU GLY GLN ARG ALA THR ILE SER CYS LYS ALA SER SEQRES 3 C 216 GLN SER VAL ASP TYR GLY GLY ASN SER TYR VAL ASN TRP SEQRES 4 C 216 TYR GLN GLN LYS PRO GLY GLN PRO PRO LYS LEU LEU ILE SEQRES 5 C 216 TYR ALA ALA SER ASN LEU LYS SER GLY ILE PRO ALA ARG SEQRES 6 C 216 PHE SER GLY SER GLY SER GLY THR ASP PHE THR LEU ASN SEQRES 7 C 216 ILE HIS PRO VAL GLU GLU GLU ASP ALA ALA THR TYR TYR SEQRES 8 C 216 CYS GLN GLN SER ASN GLU ASP PRO TRP THR PHE GLY GLY SEQRES 9 C 216 GLY THR LYS LEU GLU ILE LYS ARG ALA ASP ALA ALA PRO SEQRES 10 C 216 THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU THR SEQRES 11 C 216 SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN PHE SEQRES 12 C 216 TYR PRO LYS ASP ILE ASN VAL ALA TRP LYS ILE ASP GLY SEQRES 13 C 216 SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR ASP SEQRES 14 C 216 GLN ASP SER LYS ASP SER THR TYR SER MET SER SER THR SEQRES 15 C 216 LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SER SEQRES 16 C 216 TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER PRO SEQRES 17 C 216 ILE VAL LYS SER PHE ASN ARG ASN SEQRES 1 D 221 GLN ILE GLN LEU VAL GLN SER GLY PRO GLU LEU LYS LYS SEQRES 2 D 221 PRO GLY GLU THR ILE LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 D 221 TYR THR PHE THR ASN TYR GLY MET ASN TRP VAL LYS GLN SEQRES 4 D 221 THR PRO GLY LYS GLY LEU LYS TRP MET GLY TRP ILE ASN SEQRES 5 D 221 PRO TYR THR GLY GLU GLU PRO SER TYR ALA ASP ASP PHE SEQRES 6 D 221 LYS GLY ARG PHE ALA PHE SER LEU GLU THR SER ALA ASN SEQRES 7 D 221 THR ALA TYR LEU GLN ILE ASN ASN LEU ASN ASN GLU ASP SEQRES 8 D 221 MET ALA THR TYR PHE CYS ALA ARG GLY GLY PHE THR ASP SEQRES 9 D 221 TYR TYR GLY MET ASP TYR TRP GLY GLN GLY THR SER VAL SEQRES 10 D 221 THR VAL SER SER ALA LYS THR THR PRO PRO SER VAL TYR SEQRES 11 D 221 PRO LEU ALA PRO GLY SER ALA ALA GLN THR ASN SER MET SEQRES 12 D 221 VAL THR LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO GLU SEQRES 13 D 221 PRO VAL THR VAL THR TRP ASN SER GLY SER ALA SER SER SEQRES 14 D 221 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER ASP LEU SEQRES 15 D 221 TYR THR LEU SER SER SER VAL THR VAL PRO SER SER THR SEQRES 16 D 221 TRP PRO SER GLU THR VAL THR CYS ASN VAL ALA HIS PRO SEQRES 17 D 221 ALA SER SER THR LYS VAL ASP LYS LYS ILE VAL PRO ARG HET SO4 C 301 5 HETNAM SO4 SULFATE ION FORMUL 4 SO4 O4 S 2- FORMUL 5 HOH *221(H2 O) HELIX 1 AA1 ASN A 71 TYR A 75 5 5 HELIX 2 AA2 GLU C 83 ALA C 87 5 5 HELIX 3 AA3 SER C 125 SER C 131 1 7 HELIX 4 AA4 LYS C 187 ARG C 192 1 6 HELIX 5 AA5 THR D 28 TYR D 32 5 5 HELIX 6 AA6 ASP D 63 LYS D 66 5 4 HELIX 7 AA7 THR D 75 ALA D 77 5 3 HELIX 8 AA8 ASN D 88 MET D 92 5 5 HELIX 9 AA9 THR D 103 TYR D 106 5 4 HELIX 10 AB1 SER D 164 SER D 166 5 3 HELIX 11 AB2 SER D 194 GLU D 199 1 6 HELIX 12 AB3 PRO D 208 SER D 211 5 4 SHEET 1 AA1 3 ILE A 13 LEU A 17 0 SHEET 2 AA1 3 PRO A 34 ALA A 43 -1 O GLU A 38 N LEU A 17 SHEET 3 AA1 3 GLN A 84 ASN A 93 -1 O ILE A 88 N ALA A 39 SHEET 1 AA2 2 CYS A 27 HIS A 30 0 SHEET 2 AA2 2 ALA A 125 ARG A 128 1 O LYS A 126 N ILE A 29 SHEET 1 AA3 4 LEU A 61 ASP A 64 0 SHEET 2 AA3 4 GLU A 53 ILE A 58 -1 N ILE A 58 O LEU A 61 SHEET 3 AA3 4 VAL A 104 LYS A 109 -1 O THR A 107 N LYS A 55 SHEET 4 AA3 4 CYS A 119 ALA A 122 -1 O ALA A 122 N VAL A 106 SHEET 1 AA4 4 LEU C 4 SER C 7 0 SHEET 2 AA4 4 ALA C 19 ALA C 25 -1 O SER C 22 N SER C 7 SHEET 3 AA4 4 ASP C 74 ILE C 79 -1 O PHE C 75 N CYS C 23 SHEET 4 AA4 4 PHE C 66 SER C 71 -1 N SER C 67 O ASN C 78 SHEET 1 AA5 6 SER C 10 SER C 14 0 SHEET 2 AA5 6 THR C 106 LYS C 111 1 O GLU C 109 N LEU C 11 SHEET 3 AA5 6 ALA C 88 GLN C 94 -1 N ALA C 88 O LEU C 108 SHEET 4 AA5 6 VAL C 37 GLN C 42 -1 N GLN C 42 O THR C 89 SHEET 5 AA5 6 LYS C 49 TYR C 53 -1 O LEU C 51 N TRP C 39 SHEET 6 AA5 6 ASN C 57 LEU C 58 -1 O ASN C 57 N TYR C 53 SHEET 1 AA6 4 SER C 10 SER C 14 0 SHEET 2 AA6 4 THR C 106 LYS C 111 1 O GLU C 109 N LEU C 11 SHEET 3 AA6 4 ALA C 88 GLN C 94 -1 N ALA C 88 O LEU C 108 SHEET 4 AA6 4 THR C 101 PHE C 102 -1 O THR C 101 N GLN C 94 SHEET 1 AA7 2 ASP C 30 TYR C 31 0 SHEET 2 AA7 2 ASN C 34 SER C 35 -1 O ASN C 34 N TYR C 31 SHEET 1 AA8 4 THR C 118 PHE C 122 0 SHEET 2 AA8 4 GLY C 133 PHE C 143 -1 O ASN C 141 N THR C 118 SHEET 3 AA8 4 TYR C 177 THR C 186 -1 O MET C 179 N LEU C 140 SHEET 4 AA8 4 VAL C 163 TRP C 167 -1 N LEU C 164 O THR C 182 SHEET 1 AA9 4 SER C 157 ARG C 159 0 SHEET 2 AA9 4 ASN C 149 ILE C 154 -1 N ILE C 154 O SER C 157 SHEET 3 AA9 4 SER C 195 HIS C 202 -1 O THR C 197 N LYS C 153 SHEET 4 AA9 4 SER C 205 ASN C 214 -1 O ILE C 209 N ALA C 200 SHEET 1 AB1 4 GLN D 3 GLN D 6 0 SHEET 2 AB1 4 ILE D 18 SER D 25 -1 O LYS D 23 N VAL D 5 SHEET 3 AB1 4 THR D 79 ILE D 84 -1 O LEU D 82 N ILE D 20 SHEET 4 AB1 4 PHE D 69 GLU D 74 -1 N ALA D 70 O GLN D 83 SHEET 1 AB2 6 GLU D 10 LYS D 12 0 SHEET 2 AB2 6 THR D 115 VAL D 119 1 O THR D 118 N LYS D 12 SHEET 3 AB2 6 ALA D 93 GLY D 100 -1 N ALA D 93 O VAL D 117 SHEET 4 AB2 6 MET D 34 GLN D 39 -1 N VAL D 37 O PHE D 96 SHEET 5 AB2 6 LEU D 45 ILE D 51 -1 O LYS D 46 N LYS D 38 SHEET 6 AB2 6 SER D 60 TYR D 61 -1 O SER D 60 N TRP D 50 SHEET 1 AB3 4 GLU D 10 LYS D 12 0 SHEET 2 AB3 4 THR D 115 VAL D 119 1 O THR D 118 N LYS D 12 SHEET 3 AB3 4 ALA D 93 GLY D 100 -1 N ALA D 93 O VAL D 117 SHEET 4 AB3 4 MET D 108 TRP D 111 -1 O TYR D 110 N ARG D 99 SHEET 1 AB4 4 SER D 128 LEU D 132 0 SHEET 2 AB4 4 MET D 143 TYR D 153 -1 O LEU D 149 N TYR D 130 SHEET 3 AB4 4 LEU D 182 PRO D 192 -1 O VAL D 191 N VAL D 144 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 LEU D 149 N TYR D 130 SHEET 3 AB5 4 LEU D 182 PRO D 192 -1 O VAL D 191 N VAL D 144 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 THR D 212 N HIS D 207 SSBOND 1 CYS A 8 CYS A 119 1555 1555 2.03 SSBOND 2 CYS A 21 CYS A 27 1555 1555 2.05 SSBOND 3 CYS C 23 CYS C 92 1555 1555 2.08 SSBOND 4 CYS C 138 CYS C 198 1555 1555 2.04 SSBOND 5 CYS D 22 CYS D 97 1555 1555 2.03 SSBOND 6 CYS D 148 CYS D 203 1555 1555 2.04 CISPEP 1 SER C 7 PRO C 8 0 -6.01 CISPEP 2 HIS C 80 PRO C 81 0 8.88 CISPEP 3 ASP C 98 PRO C 99 0 -1.45 CISPEP 4 TYR C 144 PRO C 145 0 5.53 CISPEP 5 PHE D 154 PRO D 155 0 -14.92 CISPEP 6 GLU D 156 PRO D 157 0 1.77 CISPEP 7 TRP D 196 PRO D 197 0 6.77 SITE 1 AC1 5 LYS C 43 GLN C 46 LYS C 49 HOH C 401 SITE 2 AC1 5 HOH C 431 CRYST1 180.094 43.336 105.935 90.00 125.29 90.00 C 1 2 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 0.005553 0.000000 0.003930 0.00000 SCALE2 0.000000 0.023076 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011565 0.00000