HEADER IMMUNE SYSTEM 18-SEP-13 4MSV TITLE CRYSTAL STRUCTURE OF FASL AND DCR3 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 6B; COMPND 3 CHAIN: B; COMPND 4 FRAGMENT: UNP RESIDUES 30-195; COMPND 5 SYNONYM: DECOY RECEPTOR 3, DCR3, DECOY RECEPTOR FOR FAS LIGAND, M68; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 6; COMPND 9 CHAIN: A; COMPND 10 FRAGMENT: UNP RESIDUES 130-281; COMPND 11 SYNONYM: APOPTOSIS ANTIGEN LIGAND, APTL, CD95 LIGAND, CD95-L, FAS COMPND 12 ANTIGEN LIGAND, FAS LIGAND, FASL, TUMOR NECROSIS FACTOR LIGAND COMPND 13 SUPERFAMILY MEMBER 6, MEMBRANE FORM, TUMOR NECROSIS FACTOR LIGAND COMPND 14 SUPERFAMILY MEMBER 6, SOLUBLE FORM, RECEPTOR-BINDING FASL ECTODOMAIN, COMPND 15 SOLUBLE FAS LIGAND, SFASL, ADAM10-PROCESSED FASL FORM, APL, FASL COMPND 16 INTRACELLULAR DOMAIN, FASL ICD, SPPL2A-PROCESSED FASL FORM, SPA; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TNFRSF6B, DCR3, TR6, UNQ186/PRO212; SOURCE 6 EXPRESSION_SYSTEM: DROSOPHILA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7215; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: S2; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMT-BIP-V5-HIS; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: FASLG, APT1LG1, CD95L, FASL, TNFSF6; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21PHYS; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS FASL, DCR3, TNF, TNFR, TNF6, STRUCTURAL GENOMICS, PSI-BIOLOGY, NEW KEYWDS 2 YORK STRUCTURAL GENOMICS, RESEARCH CONSORTIUM, NYSGRC, IMMUNITY, TNF KEYWDS 3 SUPE CD95L, FAS LIGAND, MEMBRANE, ATOMS-TO-ANIMALS: THE IMMUNE KEYWDS 4 FUNCTION NETWORK, IFN, JELLY-ROLL FOLD, BIND TNF RECEPTOR FAS, KEYWDS 5 PROTEIN STRUCTURE INITIATIVE, NEW YORK STRUCTURAL GENOMICS RESEARCH KEYWDS 6 CONSORTIUM, CD95L, TNF SUPERFAMILY, SECRETED PROTEIN, CYTOKINE, KEYWDS 7 IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR W.LIU,U.A.RAMAGOPAL,C.ZHAN,J.B.BONANNO,R.C.BHOSLE,S.G.NATHENSON, AUTHOR 2 S.C.ALMO,ATOMS-TO-ANIMALS: THE IMMUNE FUNCTION NETWORK (IFN),NEW AUTHOR 3 YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NYSGRC) REVDAT 4 20-SEP-23 4MSV 1 REMARK SEQADV LINK REVDAT 3 16-NOV-16 4MSV 1 JRNL REVDAT 2 26-MAR-14 4MSV 1 SOURCE REVDAT 1 27-NOV-13 4MSV 0 JRNL AUTH W.LIU,U.RAMAGOPAL,H.CHENG,J.B.BONANNO,R.TORO,R.BHOSLE, JRNL AUTH 2 C.ZHAN,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF THE COMPLEX OF HUMAN FASL AND ITS DECOY JRNL TITL 2 RECEPTOR DCR3. JRNL REF STRUCTURE V. 24 2016 2016 JRNL REFN ISSN 0969-2126 JRNL PMID 27806260 JRNL DOI 10.1016/J.STR.2016.09.009 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 21164 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1144 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1436 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.3900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2332 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 63 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.34000 REMARK 3 B22 (A**2) : -0.34000 REMARK 3 B33 (A**2) : 1.10000 REMARK 3 B12 (A**2) : -0.34000 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): 0.218 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.190 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.122 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.487 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2419 ; 0.022 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2208 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3287 ; 2.036 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5067 ; 0.969 ; 3.008 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 298 ; 7.468 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 109 ;33.489 ;22.569 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 379 ;18.565 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.612 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 345 ; 0.130 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2748 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 592 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4MSV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000082323. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUL-13 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 : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22326 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : 0.09200 REMARK 200 FOR THE DATA SET : 14.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.82600 REMARK 200 R SYM FOR SHELL (I) : 0.77300 REMARK 200 FOR SHELL : 2.000 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: PDB ENTRY 4J6G REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 15.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.09M MALONIC ACID, 0.013M AMMONIUM REMARK 280 CITR TRIBASIC, 0.006M SUCCINIC ACID, 0.015M DL-MALIC ACID, 0.02M REMARK 280 SODIUM ACETATE, 0.025 M SODIUM FORMATE, 0.008 M AMMONIUM REMARK 280 TARTRATE DIBASIC, FINAL PH 7.0; 0.1M HEPES:NAOH PH 7.0, 10% (W/V) REMARK 280 PEG MME 5000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 63.45450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 36.63547 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 68.57633 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 63.45450 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 36.63547 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 68.57633 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 63.45450 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 36.63547 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 68.57633 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 63.45450 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 36.63547 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 68.57633 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 63.45450 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 36.63547 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 68.57633 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 63.45450 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 36.63547 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 68.57633 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 73.27095 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 137.15267 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 73.27095 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 137.15267 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 73.27095 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 137.15267 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 73.27095 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 137.15267 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 73.27095 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 137.15267 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 73.27095 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 137.15267 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -99.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 VAL B 30 REMARK 465 ALA B 31 REMARK 465 GLU B 32 REMARK 465 GLY B 178 REMARK 465 THR B 194 REMARK 465 SER B 195 REMARK 465 THR B 196 REMARK 465 GLY B 197 REMARK 465 HIS B 198 REMARK 465 HIS B 199 REMARK 465 HIS B 200 REMARK 465 HIS B 201 REMARK 465 HIS B 202 REMARK 465 HIS B 203 REMARK 465 GLN A 130 REMARK 465 ILE A 131 REMARK 465 GLY A 132 REMARK 465 HIS A 133 REMARK 465 PRO A 134 REMARK 465 SER A 135 REMARK 465 PRO A 136 REMARK 465 PRO A 137 REMARK 465 PRO A 138 REMARK 465 GLU A 139 REMARK 465 LYS A 140 REMARK 465 LYS A 141 REMARK 465 GLU A 142 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 GLU B 97 NH2 ARG B 116 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 SER A 262 CB SER A 262 OG -0.088 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG B 89 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 89 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 CYS B 174 CA - CB - SG ANGL. DEV. = 10.9 DEGREES REMARK 500 ARG A 198 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 SER A 262 CB - CA - C ANGL. DEV. = -12.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 155 119.39 -38.43 REMARK 500 LEU A 171 109.36 -162.45 REMARK 500 PRO A 219 38.48 -96.70 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 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 132 O REMARK 620 2 PRO B 133 O 70.5 REMARK 620 3 ALA B 136 O 117.9 72.8 REMARK 620 4 SER B 159 OG 162.6 115.5 79.4 REMARK 620 5 SER B 161 O 75.4 97.1 157.4 87.4 REMARK 620 6 HOH B 424 O 89.4 152.1 101.7 89.5 96.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4EN0 RELATED DB: PDB REMARK 900 RELATED ID: 3MHD RELATED DB: PDB REMARK 900 RELATED ID: 4J6G RELATED DB: PDB REMARK 900 RELATED ID: 4KGG RELATED DB: PDB REMARK 900 RELATED ID: 4KGQ RELATED DB: PDB REMARK 900 RELATED ID: 3K51 RELATED DB: PDB REMARK 900 RELATED ID: NYSGRC-011095 RELATED DB: TARGETTRACK REMARK 900 RELATED ID: NYSGRC-011073 RELATED DB: TARGETTRACK DBREF 4MSV B 30 195 UNP O95407 TNF6B_HUMAN 30 195 DBREF 4MSV A 130 281 UNP P48023 TNFL6_HUMAN 130 281 SEQADV 4MSV THR B 196 UNP O95407 EXPRESSION TAG SEQADV 4MSV GLY B 197 UNP O95407 EXPRESSION TAG SEQADV 4MSV HIS B 198 UNP O95407 EXPRESSION TAG SEQADV 4MSV HIS B 199 UNP O95407 EXPRESSION TAG SEQADV 4MSV HIS B 200 UNP O95407 EXPRESSION TAG SEQADV 4MSV HIS B 201 UNP O95407 EXPRESSION TAG SEQADV 4MSV HIS B 202 UNP O95407 EXPRESSION TAG SEQADV 4MSV HIS B 203 UNP O95407 EXPRESSION TAG SEQRES 1 B 174 VAL ALA GLU THR PRO THR TYR PRO TRP ARG ASP ALA GLU SEQRES 2 B 174 THR GLY GLU ARG LEU VAL CYS ALA GLN CYS PRO PRO GLY SEQRES 3 B 174 THR PHE VAL GLN ARG PRO CYS ARG ARG ASP SER PRO THR SEQRES 4 B 174 THR CYS GLY PRO CYS PRO PRO ARG HIS TYR THR GLN PHE SEQRES 5 B 174 TRP ASN TYR LEU GLU ARG CYS ARG TYR CYS ASN VAL LEU SEQRES 6 B 174 CYS GLY GLU ARG GLU GLU GLU ALA ARG ALA CYS HIS ALA SEQRES 7 B 174 THR HIS ASN ARG ALA CYS ARG CYS ARG THR GLY PHE PHE SEQRES 8 B 174 ALA HIS ALA GLY PHE CYS LEU GLU HIS ALA SER CYS PRO SEQRES 9 B 174 PRO GLY ALA GLY VAL ILE ALA PRO GLY THR PRO SER GLN SEQRES 10 B 174 ASN THR GLN CYS GLN PRO CYS PRO PRO GLY THR PHE SER SEQRES 11 B 174 ALA SER SER SER SER SER GLU GLN CYS GLN PRO HIS ARG SEQRES 12 B 174 ASN CYS THR ALA LEU GLY LEU ALA LEU ASN VAL PRO GLY SEQRES 13 B 174 SER SER SER HIS ASP THR LEU CYS THR SER THR GLY HIS SEQRES 14 B 174 HIS HIS HIS HIS HIS SEQRES 1 A 152 GLN ILE GLY HIS PRO SER PRO PRO PRO GLU LYS LYS GLU SEQRES 2 A 152 LEU ARG LYS VAL ALA HIS LEU THR GLY LYS SER ASN SER SEQRES 3 A 152 ARG SER MET PRO LEU GLU TRP GLU ASP THR TYR GLY ILE SEQRES 4 A 152 VAL LEU LEU SER GLY VAL LYS TYR LYS LYS GLY GLY LEU SEQRES 5 A 152 VAL ILE ASN GLU THR GLY LEU TYR PHE VAL TYR SER LYS SEQRES 6 A 152 VAL TYR PHE ARG GLY GLN SER CYS ASN ASN LEU PRO LEU SEQRES 7 A 152 SER HIS LYS VAL TYR MET ARG ASN SER LYS TYR PRO GLN SEQRES 8 A 152 ASP LEU VAL MET MET GLU GLY LYS MET MET SER TYR CYS SEQRES 9 A 152 THR THR GLY GLN MET TRP ALA ARG SER SER TYR LEU GLY SEQRES 10 A 152 ALA VAL PHE ASN LEU THR SER ALA ASP HIS LEU TYR VAL SEQRES 11 A 152 ASN VAL SER GLU LEU SER LEU VAL ASN PHE GLU GLU SER SEQRES 12 A 152 GLN THR PHE PHE GLY LEU TYR LYS LEU HET MG B 301 1 HET GOL A 301 6 HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG MG 2+ FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *63(H2 O) HELIX 1 1 GLU A 263 SER A 265 5 3 SHEET 1 A 2 THR B 35 ARG B 39 0 SHEET 2 A 2 ARG B 46 ALA B 50 -1 O CYS B 49 N TYR B 36 SHEET 1 B 2 THR B 56 ARG B 60 0 SHEET 2 B 2 THR B 69 PRO B 72 -1 O THR B 69 N ARG B 60 SHEET 1 C 2 HIS B 77 TYR B 78 0 SHEET 2 C 2 ARG B 89 TYR B 90 -1 O ARG B 89 N TYR B 78 SHEET 1 D 2 GLU B 99 ARG B 103 0 SHEET 2 D 2 ALA B 112 CYS B 115 -1 O ALA B 112 N ALA B 102 SHEET 1 E 2 PHE B 119 HIS B 122 0 SHEET 2 E 2 PHE B 125 GLU B 128 -1 O PHE B 125 N HIS B 122 SHEET 1 F 2 ALA B 136 ALA B 140 0 SHEET 2 F 2 GLN B 149 PRO B 152 -1 O GLN B 151 N GLY B 137 SHEET 1 G 2 THR B 157 PHE B 158 0 SHEET 2 G 2 GLN B 169 PRO B 170 -1 O GLN B 169 N PHE B 158 SHEET 1 H 5 TRP A 162 GLU A 163 0 SHEET 2 H 5 VAL A 146 GLY A 151 -1 N THR A 150 O GLU A 163 SHEET 3 H 5 PHE A 275 LYS A 280 -1 O PHE A 276 N LEU A 149 SHEET 4 H 5 GLY A 187 GLY A 199 -1 N TYR A 192 O GLY A 277 SHEET 5 H 5 TRP A 239 LEU A 251 -1 O LEU A 251 N GLY A 187 SHEET 1 I 5 LEU A 170 SER A 172 0 SHEET 2 I 5 VAL A 146 GLY A 151 -1 N VAL A 146 O SER A 172 SHEET 3 I 5 PHE A 275 LYS A 280 -1 O PHE A 276 N LEU A 149 SHEET 4 I 5 GLY A 187 GLY A 199 -1 N TYR A 192 O GLY A 277 SHEET 5 I 5 VAL A 267 ASN A 268 -1 O ASN A 268 N TYR A 196 SHEET 1 J 5 LYS A 175 LYS A 177 0 SHEET 2 J 5 GLY A 180 VAL A 182 -1 O VAL A 182 N LYS A 175 SHEET 3 J 5 HIS A 256 VAL A 261 -1 O LEU A 257 N LEU A 181 SHEET 4 J 5 LEU A 207 ARG A 214 -1 N TYR A 212 O TYR A 258 SHEET 5 J 5 LEU A 222 MET A 229 -1 O MET A 229 N LEU A 207 SSBOND 1 CYS B 49 CYS B 62 1555 1555 2.11 SSBOND 2 CYS B 52 CYS B 70 1555 1555 2.08 SSBOND 3 CYS B 73 CYS B 88 1555 1555 2.21 SSBOND 4 CYS B 91 CYS B 105 1555 1555 2.17 SSBOND 5 CYS B 95 CYS B 113 1555 1555 2.15 SSBOND 6 CYS B 115 CYS B 126 1555 1555 2.27 SSBOND 7 CYS B 132 CYS B 150 1555 1555 2.11 SSBOND 8 CYS B 153 CYS B 168 1555 1555 2.21 SSBOND 9 CYS B 174 CYS B 193 1555 1555 2.06 SSBOND 10 CYS A 202 CYS A 233 1555 1555 2.01 LINK O CYS B 132 MG MG B 301 1555 1555 2.57 LINK O PRO B 133 MG MG B 301 1555 1555 2.66 LINK O ALA B 136 MG MG B 301 1555 1555 2.25 LINK OG SER B 159 MG MG B 301 1555 1555 2.63 LINK O SER B 161 MG MG B 301 1555 1555 2.42 LINK MG MG B 301 O HOH B 424 1555 1555 2.51 CISPEP 1 MET A 158 PRO A 159 0 -1.38 SITE 1 AC1 6 CYS B 132 PRO B 133 ALA B 136 SER B 159 SITE 2 AC1 6 SER B 161 HOH B 424 SITE 1 AC2 6 ASN A 215 TYR A 218 GLN A 220 LEU A 222 SITE 2 AC2 6 LEU B 85 ARG B 89 CRYST1 126.909 126.909 205.729 90.00 90.00 120.00 H 3 2 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 0.007880 0.004549 0.000000 0.00000 SCALE2 0.000000 0.009099 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004861 0.00000