HEADER CYTOKINE, HORMONE/GROWTH FACTOR RECEPTOR25-OCT-04 1XU2 TITLE THE CRYSTAL STRUCTURE OF APRIL BOUND TO BCMA COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 13; COMPND 3 CHAIN: A, B, D; COMPND 4 FRAGMENT: TNF DOMAIN OF APRIL; COMPND 5 SYNONYM: A PROLIFERATION-INDUCING LIGAND, APRIL, TNFSF13B OR TALL-2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 17; COMPND 9 CHAIN: R, S, T; COMPND 10 FRAGMENT: BCMA ECD; COMPND 11 SYNONYM: B-CELL MATURATION PROTEIN, TNFFSF17; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: TNFSF13, APRIL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ORIGAMI(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A (MODIFIED); SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: TNFRSF17, BCM, BCMA; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PZCT KEYWDS TNFSF, CYTOKINE, CRD, RECEPTOR, JELLY-ROLL, CYSTEINE-RICH, HORMONE- KEYWDS 2 GROWTH FACTOR RECEPTOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.G.HYMOWITZ,D.R.PATEL,H.J.A.WALLWEBER,S.RUNYON,M.YAN,J.YIN, AUTHOR 2 S.K.SHRIVER,N.C.GORDON,B.PAN,N.J.SKELTON,R.F.KELLEY,M.A.STAROVASNIK REVDAT 5 13-JUL-11 1XU2 1 VERSN REVDAT 4 24-FEB-09 1XU2 1 VERSN REVDAT 3 22-MAR-05 1XU2 1 JRNL REVDAT 2 23-NOV-04 1XU2 1 JRNL REVDAT 1 09-NOV-04 1XU2 0 JRNL AUTH S.G.HYMOWITZ,D.R.PATEL,H.J.A.WALLWEBER,S.RUNYON,M.YAN,J.YIN, JRNL AUTH 2 S.K.SHRIVER,N.C.GORDON,B.PAN,N.J.SKELTON,R.F.KELLEY, JRNL AUTH 3 M.A.STAROVASNIK JRNL TITL STRUCTURES OF APRIL-RECEPTOR COMPLEXES: LIKE BCMA, TACI JRNL TITL 2 EMPLOYS ONLY A SINGLE CYSTEINE-RICH DOMAIN FOR HIGH-AFFINITY JRNL TITL 3 LIGAND BINDING JRNL REF J.BIOL.CHEM. V. 280 7218 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15542592 JRNL DOI 10.1074/JBC.M411714200 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 25409 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : THIN SHELLS REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2856 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 25 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.40 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1680 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE SET COUNT : 0 REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4082 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 36 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 52.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11000 REMARK 3 B22 (A**2) : -0.11000 REMARK 3 B33 (A**2) : 0.16000 REMARK 3 B12 (A**2) : -0.05000 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): 0.294 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.209 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.143 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.871 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 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): 4187 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3760 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5686 ; 1.220 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8723 ; 0.762 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 513 ; 7.064 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 635 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4636 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 883 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 589 ; 0.180 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4165 ; 0.229 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2776 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 69 ; 0.133 ; 0.200 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): 9 ; 0.142 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 47 ; 0.201 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.232 ; 0.200 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): 2585 ; 2.575 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4189 ; 4.084 ; 5.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1602 ; 3.077 ; 2.500 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1497 ; 4.711 ; 5.000 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 105 A 241 REMARK 3 ORIGIN FOR THE GROUP (A): 11.4510 84.0327 4.6368 REMARK 3 T TENSOR REMARK 3 T11: 0.1011 T22: 0.1091 REMARK 3 T33: 0.1583 T12: -0.0141 REMARK 3 T13: -0.0341 T23: 0.1024 REMARK 3 L TENSOR REMARK 3 L11: 3.1461 L22: 2.7331 REMARK 3 L33: 2.5638 L12: -0.1252 REMARK 3 L13: 0.9115 L23: -0.2272 REMARK 3 S TENSOR REMARK 3 S11: 0.1006 S12: -0.2092 S13: -0.3960 REMARK 3 S21: 0.0627 S22: 0.0298 S23: 0.2027 REMARK 3 S31: 0.2755 S32: -0.2148 S33: -0.1305 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 105 B 241 REMARK 3 ORIGIN FOR THE GROUP (A): 6.1167 105.9483 9.1820 REMARK 3 T TENSOR REMARK 3 T11: 0.0730 T22: 0.1615 REMARK 3 T33: 0.1655 T12: 0.0442 REMARK 3 T13: 0.0914 T23: 0.0533 REMARK 3 L TENSOR REMARK 3 L11: 2.6695 L22: 2.6706 REMARK 3 L33: 3.8296 L12: 0.4075 REMARK 3 L13: 0.9553 L23: -0.1667 REMARK 3 S TENSOR REMARK 3 S11: 0.0179 S12: -0.3133 S13: 0.2335 REMARK 3 S21: 0.3207 S22: -0.0449 S23: 0.4227 REMARK 3 S31: -0.2728 S32: -0.2242 S33: 0.0270 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 105 D 241 REMARK 3 ORIGIN FOR THE GROUP (A): 26.0421 100.8884 -1.3595 REMARK 3 T TENSOR REMARK 3 T11: 0.0501 T22: 0.1274 REMARK 3 T33: 0.1136 T12: 0.0171 REMARK 3 T13: 0.0550 T23: 0.0814 REMARK 3 L TENSOR REMARK 3 L11: 2.9861 L22: 3.6954 REMARK 3 L33: 2.9577 L12: 0.1324 REMARK 3 L13: 0.9974 L23: -0.8393 REMARK 3 S TENSOR REMARK 3 S11: 0.0827 S12: 0.1931 S13: -0.0274 REMARK 3 S21: -0.0713 S22: -0.0891 S23: -0.4532 REMARK 3 S31: 0.1006 S32: 0.2988 S33: 0.0064 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 : R 8 R 43 REMARK 3 ORIGIN FOR THE GROUP (A): -7.6636 83.1563 -9.5482 REMARK 3 T TENSOR REMARK 3 T11: 0.2739 T22: 0.2909 REMARK 3 T33: 0.3931 T12: -0.1393 REMARK 3 T13: -0.1688 T23: 0.1414 REMARK 3 L TENSOR REMARK 3 L11: 4.8149 L22: 9.5216 REMARK 3 L33: 14.3511 L12: 1.5843 REMARK 3 L13: 5.9660 L23: 4.6937 REMARK 3 S TENSOR REMARK 3 S11: 0.2382 S12: -0.0941 S13: -0.6291 REMARK 3 S21: -0.4535 S22: 0.1703 S23: 0.7924 REMARK 3 S31: 0.8782 S32: -0.5263 S33: -0.4085 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 : S 6 S 42 REMARK 3 ORIGIN FOR THE GROUP (A): 0.9554 117.8873 -10.0897 REMARK 3 T TENSOR REMARK 3 T11: 0.2506 T22: 0.3033 REMARK 3 T33: 0.4320 T12: 0.0712 REMARK 3 T13: -0.1136 T23: 0.1626 REMARK 3 L TENSOR REMARK 3 L11: 9.2180 L22: 10.6111 REMARK 3 L33: 11.1624 L12: -3.9994 REMARK 3 L13: 1.4052 L23: -0.4374 REMARK 3 S TENSOR REMARK 3 S11: -0.0251 S12: 0.3173 S13: 0.2861 REMARK 3 S21: -0.6638 S22: 0.0771 S23: 1.4078 REMARK 3 S31: -0.5072 S32: -1.1028 S33: -0.0520 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 : T 8 T 42 REMARK 3 ORIGIN FOR THE GROUP (A): 22.3902 94.1774 -23.5163 REMARK 3 T TENSOR REMARK 3 T11: 0.5681 T22: 0.5537 REMARK 3 T33: 0.1712 T12: -0.0691 REMARK 3 T13: 0.1130 T23: -0.0916 REMARK 3 L TENSOR REMARK 3 L11: 9.8575 L22: 6.2674 REMARK 3 L33: 21.7778 L12: 4.1672 REMARK 3 L13: -1.6925 L23: -4.1417 REMARK 3 S TENSOR REMARK 3 S11: -0.4791 S12: 1.7580 S13: -0.3046 REMARK 3 S21: -1.6534 S22: 0.6037 S23: -0.6857 REMARK 3 S31: 0.4978 S32: 0.0757 S33: -0.1245 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 1XU2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-04. REMARK 100 THE RCSB ID CODE IS RCSB030770. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98040 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-3 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28292 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06700 REMARK 200 FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.42500 REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: APRIL ALONE (1U5Z) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: WELL SOLUTION: 0.1M MES, 5% PEG 8000, REMARK 280 10% PEG 1000, PH 5.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.39333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 60.78667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 45.59000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 75.98333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 15.19667 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: THE ASSYMMETRIC UNIT CONTAINS THE BIOLOGICALLY RELEVANT REMARK 300 ASSEMBLY OF A TRIMER OF APRIL BOUND TO 3 COPIES OF BCMA 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, R, S, T 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 104 REMARK 465 LYS B 104 REMARK 465 LYS D 104 REMARK 465 ALA R 5 REMARK 465 GLY R 6 REMARK 465 GLN R 7 REMARK 465 SER R 44 REMARK 465 VAL R 45 REMARK 465 THR R 46 REMARK 465 ASN R 47 REMARK 465 SER R 48 REMARK 465 VAL R 49 REMARK 465 LYS R 50 REMARK 465 GLY R 51 REMARK 465 ALA S 5 REMARK 465 ALA S 43 REMARK 465 SER S 44 REMARK 465 VAL S 45 REMARK 465 THR S 46 REMARK 465 ASN S 47 REMARK 465 SER S 48 REMARK 465 VAL S 49 REMARK 465 LYS S 50 REMARK 465 GLY S 51 REMARK 465 ALA T 5 REMARK 465 GLY T 6 REMARK 465 GLN T 7 REMARK 465 ALA T 43 REMARK 465 SER T 44 REMARK 465 VAL T 45 REMARK 465 THR T 46 REMARK 465 ASN T 47 REMARK 465 SER T 48 REMARK 465 VAL T 49 REMARK 465 LYS T 50 REMARK 465 GLY T 51 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 ARG S 39 CG CD NE CZ NH1 NH2 REMARK 470 GLN T 38 CG CD OE1 NE2 REMARK 470 ARG T 39 CG CD NE CZ NH1 NH2 REMARK 470 ASN T 42 CG OD1 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 O HOH A 2 O HOH A 38 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ASN T 42 C ASN T 42 O 0.240 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 PRO A 221 46.87 -72.17 REMARK 500 ASP B 123 55.66 -114.89 REMARK 500 ARG B 180 106.71 -170.12 REMARK 500 PRO B 221 42.82 -74.03 REMARK 500 ALA D 120 -83.92 -54.12 REMARK 500 ASP D 123 60.86 -117.90 REMARK 500 ARG D 137 -149.05 -119.47 REMARK 500 PRO D 221 42.72 -72.56 REMARK 500 ASN R 31 -121.45 48.75 REMARK 500 ASN R 42 -68.23 -92.13 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 NI B 301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 106 NE2 REMARK 620 2 HIS B 106 NE2 83.5 REMARK 620 3 HIS D 106 NE2 75.7 108.1 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XU1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APRIL BOUND TO TACI REMARK 900 RELATED ID: 1U5X RELATED DB: PDB REMARK 900 APRIL REMARK 900 RELATED ID: 1U5Y RELATED DB: PDB REMARK 900 APRIL REMARK 900 RELATED ID: 1U5Z RELATED DB: PDB REMARK 900 APRIL REMARK 900 RELATED ID: 1XUT RELATED DB: PDB DBREF 1XU2 A 104 241 UNP Q9D777 TNF13_MOUSE 104 241 DBREF 1XU2 B 104 241 UNP Q9D777 TNF13_MOUSE 104 241 DBREF 1XU2 D 104 241 UNP Q9D777 TNF13_MOUSE 104 241 DBREF 1XU2 R 5 51 UNP Q02223 TNR17_HUMAN 5 51 DBREF 1XU2 S 5 51 UNP Q02223 TNR17_HUMAN 5 51 DBREF 1XU2 T 5 51 UNP Q02223 TNR17_HUMAN 5 51 SEQRES 1 A 138 LYS LYS HIS SER VAL LEU HIS LEU VAL PRO VAL ASN ILE SEQRES 2 A 138 THR SER LYS ALA ASP SER ASP VAL THR GLU VAL MET TRP SEQRES 3 A 138 GLN PRO VAL LEU ARG ARG GLY ARG GLY LEU GLU ALA GLN SEQRES 4 A 138 GLY ASP ILE VAL ARG VAL TRP ASP THR GLY ILE TYR LEU SEQRES 5 A 138 LEU TYR SER GLN VAL LEU PHE HIS ASP VAL THR PHE THR SEQRES 6 A 138 MET GLY GLN VAL VAL SER ARG GLU GLY GLN GLY ARG ARG SEQRES 7 A 138 GLU THR LEU PHE ARG CYS ILE ARG SER MET PRO SER ASP SEQRES 8 A 138 PRO ASP ARG ALA TYR ASN SER CYS TYR SER ALA GLY VAL SEQRES 9 A 138 PHE HIS LEU HIS GLN GLY ASP ILE ILE THR VAL LYS ILE SEQRES 10 A 138 PRO ARG ALA ASN ALA LYS LEU SER LEU SER PRO HIS GLY SEQRES 11 A 138 THR PHE LEU GLY PHE VAL LYS LEU SEQRES 1 B 138 LYS LYS HIS SER VAL LEU HIS LEU VAL PRO VAL ASN ILE SEQRES 2 B 138 THR SER LYS ALA ASP SER ASP VAL THR GLU VAL MET TRP SEQRES 3 B 138 GLN PRO VAL LEU ARG ARG GLY ARG GLY LEU GLU ALA GLN SEQRES 4 B 138 GLY ASP ILE VAL ARG VAL TRP ASP THR GLY ILE TYR LEU SEQRES 5 B 138 LEU TYR SER GLN VAL LEU PHE HIS ASP VAL THR PHE THR SEQRES 6 B 138 MET GLY GLN VAL VAL SER ARG GLU GLY GLN GLY ARG ARG SEQRES 7 B 138 GLU THR LEU PHE ARG CYS ILE ARG SER MET PRO SER ASP SEQRES 8 B 138 PRO ASP ARG ALA TYR ASN SER CYS TYR SER ALA GLY VAL SEQRES 9 B 138 PHE HIS LEU HIS GLN GLY ASP ILE ILE THR VAL LYS ILE SEQRES 10 B 138 PRO ARG ALA ASN ALA LYS LEU SER LEU SER PRO HIS GLY SEQRES 11 B 138 THR PHE LEU GLY PHE VAL LYS LEU SEQRES 1 D 138 LYS LYS HIS SER VAL LEU HIS LEU VAL PRO VAL ASN ILE SEQRES 2 D 138 THR SER LYS ALA ASP SER ASP VAL THR GLU VAL MET TRP SEQRES 3 D 138 GLN PRO VAL LEU ARG ARG GLY ARG GLY LEU GLU ALA GLN SEQRES 4 D 138 GLY ASP ILE VAL ARG VAL TRP ASP THR GLY ILE TYR LEU SEQRES 5 D 138 LEU TYR SER GLN VAL LEU PHE HIS ASP VAL THR PHE THR SEQRES 6 D 138 MET GLY GLN VAL VAL SER ARG GLU GLY GLN GLY ARG ARG SEQRES 7 D 138 GLU THR LEU PHE ARG CYS ILE ARG SER MET PRO SER ASP SEQRES 8 D 138 PRO ASP ARG ALA TYR ASN SER CYS TYR SER ALA GLY VAL SEQRES 9 D 138 PHE HIS LEU HIS GLN GLY ASP ILE ILE THR VAL LYS ILE SEQRES 10 D 138 PRO ARG ALA ASN ALA LYS LEU SER LEU SER PRO HIS GLY SEQRES 11 D 138 THR PHE LEU GLY PHE VAL LYS LEU SEQRES 1 R 47 ALA GLY GLN CYS SER GLN ASN GLU TYR PHE ASP SER LEU SEQRES 2 R 47 LEU HIS ALA CYS ILE PRO CYS GLN LEU ARG CYS SER SER SEQRES 3 R 47 ASN THR PRO PRO LEU THR CYS GLN ARG TYR CYS ASN ALA SEQRES 4 R 47 SER VAL THR ASN SER VAL LYS GLY SEQRES 1 S 47 ALA GLY GLN CYS SER GLN ASN GLU TYR PHE ASP SER LEU SEQRES 2 S 47 LEU HIS ALA CYS ILE PRO CYS GLN LEU ARG CYS SER SER SEQRES 3 S 47 ASN THR PRO PRO LEU THR CYS GLN ARG TYR CYS ASN ALA SEQRES 4 S 47 SER VAL THR ASN SER VAL LYS GLY SEQRES 1 T 47 ALA GLY GLN CYS SER GLN ASN GLU TYR PHE ASP SER LEU SEQRES 2 T 47 LEU HIS ALA CYS ILE PRO CYS GLN LEU ARG CYS SER SER SEQRES 3 T 47 ASN THR PRO PRO LEU THR CYS GLN ARG TYR CYS ASN ALA SEQRES 4 T 47 SER VAL THR ASN SER VAL LYS GLY HET NI B 301 1 HETNAM NI NICKEL (II) ION FORMUL 7 NI NI 2+ FORMUL 8 HOH *36(H2 O) HELIX 1 1 ASP A 194 ARG A 197 5 4 HELIX 2 2 GLN R 25 ARG R 27 5 3 HELIX 3 3 PRO R 34 THR R 36 5 3 HELIX 4 4 CYS R 37 ALA R 43 1 7 HELIX 5 5 GLN S 25 CYS S 28 5 4 HELIX 6 6 CYS S 37 ASN S 42 1 6 HELIX 7 7 GLN T 25 CYS T 28 5 4 SHEET 1 A 5 LEU A 139 GLN A 142 0 SHEET 2 A 5 ILE A 145 VAL A 148 -1 O ARG A 147 N GLU A 140 SHEET 3 A 5 ILE A 215 ILE A 220 -1 O ILE A 216 N VAL A 146 SHEET 4 A 5 THR A 168 GLU A 176 -1 N GLU A 176 O ILE A 215 SHEET 5 A 5 ARG A 181 SER A 190 -1 O PHE A 185 N VAL A 173 SHEET 1 B 8 LEU A 139 GLN A 142 0 SHEET 2 B 8 ILE A 145 VAL A 148 -1 O ARG A 147 N GLU A 140 SHEET 3 B 8 ILE A 215 ILE A 220 -1 O ILE A 216 N VAL A 146 SHEET 4 B 8 THR A 125 ARG A 135 -1 N THR A 125 O ILE A 220 SHEET 5 B 8 VAL A 108 THR A 117 -1 N THR A 117 O GLU A 126 SHEET 6 B 8 PHE A 235 LYS A 240 -1 O LEU A 236 N LEU A 111 SHEET 7 B 8 GLY A 152 HIS A 163 -1 N LEU A 155 O VAL A 239 SHEET 8 B 8 TYR A 199 LEU A 210 -1 O GLY A 206 N LEU A 156 SHEET 1 C 5 LEU B 139 GLN B 142 0 SHEET 2 C 5 ILE B 145 VAL B 148 -1 O ARG B 147 N GLU B 140 SHEET 3 C 5 ILE B 215 ILE B 220 -1 O ILE B 216 N VAL B 146 SHEET 4 C 5 THR B 168 GLU B 176 -1 N GLU B 176 O ILE B 215 SHEET 5 C 5 ARG B 181 SER B 190 -1 O ARG B 189 N MET B 169 SHEET 1 D 8 LEU B 139 GLN B 142 0 SHEET 2 D 8 ILE B 145 VAL B 148 -1 O ARG B 147 N GLU B 140 SHEET 3 D 8 ILE B 215 ILE B 220 -1 O ILE B 216 N VAL B 146 SHEET 4 D 8 THR B 125 ARG B 135 -1 N THR B 125 O ILE B 220 SHEET 5 D 8 VAL B 108 THR B 117 -1 N ASN B 115 O MET B 128 SHEET 6 D 8 PHE B 235 LYS B 240 -1 O LEU B 236 N LEU B 111 SHEET 7 D 8 GLY B 152 PHE B 162 -1 N LEU B 155 O VAL B 239 SHEET 8 D 8 ASN B 200 LEU B 210 -1 O GLY B 206 N LEU B 156 SHEET 1 E 5 LEU D 139 GLN D 142 0 SHEET 2 E 5 ILE D 145 VAL D 148 -1 O ARG D 147 N GLU D 140 SHEET 3 E 5 ILE D 215 ILE D 220 -1 O ILE D 216 N VAL D 146 SHEET 4 E 5 THR D 168 GLU D 176 -1 N VAL D 172 O LYS D 219 SHEET 5 E 5 ARG D 181 SER D 190 -1 O LEU D 184 N VAL D 173 SHEET 1 F 8 LEU D 139 GLN D 142 0 SHEET 2 F 8 ILE D 145 VAL D 148 -1 O ARG D 147 N GLU D 140 SHEET 3 F 8 ILE D 215 ILE D 220 -1 O ILE D 216 N VAL D 146 SHEET 4 F 8 THR D 125 ARG D 135 -1 N THR D 125 O ILE D 220 SHEET 5 F 8 VAL D 108 THR D 117 -1 N HIS D 110 O VAL D 132 SHEET 6 F 8 PHE D 235 LYS D 240 -1 O LEU D 236 N LEU D 111 SHEET 7 F 8 GLY D 152 HIS D 163 -1 N LEU D 155 O VAL D 239 SHEET 8 F 8 TYR D 199 LEU D 210 -1 O GLY D 206 N LEU D 156 SHEET 1 G 2 GLU R 12 ASP R 15 0 SHEET 2 G 2 ALA R 20 PRO R 23 -1 O ALA R 20 N ASP R 15 SHEET 1 H 2 GLU S 12 ASP S 15 0 SHEET 2 H 2 ALA S 20 PRO S 23 -1 O ALA S 20 N ASP S 15 SHEET 1 I 2 GLU T 12 ASP T 15 0 SHEET 2 I 2 ALA T 20 PRO T 23 -1 O ILE T 22 N TYR T 13 SSBOND 1 CYS A 187 CYS A 202 1555 1555 2.03 SSBOND 2 CYS B 187 CYS B 202 1555 1555 2.04 SSBOND 3 CYS D 187 CYS D 202 1555 1555 2.05 SSBOND 4 CYS R 8 CYS R 21 1555 1555 2.05 SSBOND 5 CYS R 24 CYS R 37 1555 1555 2.10 SSBOND 6 CYS R 28 CYS R 41 1555 1555 2.06 SSBOND 7 CYS S 8 CYS S 21 1555 1555 2.08 SSBOND 8 CYS S 24 CYS S 37 1555 1555 2.07 SSBOND 9 CYS S 28 CYS S 41 1555 1555 2.05 SSBOND 10 CYS T 8 CYS T 21 1555 1555 2.05 SSBOND 11 CYS T 24 CYS T 37 1555 1555 2.07 SSBOND 12 CYS T 28 CYS T 41 1555 1555 2.06 LINK NI NI B 301 NE2 HIS A 106 1555 1555 2.56 LINK NI NI B 301 NE2 HIS B 106 1555 1555 2.18 LINK NI NI B 301 NE2 HIS D 106 1555 1555 2.34 SITE 1 AC1 3 HIS A 106 HIS B 106 HIS D 106 CRYST1 114.294 114.294 91.180 90.00 90.00 120.00 P 61 18 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 0.008749 0.005051 0.000000 0.00000 SCALE2 0.000000 0.010103 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010967 0.00000 MASTER 490 0 1 7 45 0 1 6 0 0 0 45 END