HEADER IMMUNE SYSTEM 13-SEP-18 6MGE TITLE STRUCTURE OF HUMAN 4-1BBL COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 9; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: 4-1BB LIGAND,4-1BBL; COMPND 5 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: TNFSF9; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HIGHFIVE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PFASTBAC KEYWDS SIGNALING, TNF LIGAND, TRIMER, 4-1BBL, CD137L, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR C.R.KIMBERLIN,S.M.CHIN,Z.ROE-ZURZ,A.XU,Y.YANG REVDAT 2 11-OCT-23 6MGE 1 REMARK REVDAT 1 21-NOV-18 6MGE 0 JRNL AUTH S.M.CHIN,C.R.KIMBERLIN,Z.ROE-ZURZ,P.ZHANG,A.XU,S.LIAO-CHAN, JRNL AUTH 2 D.SEN,A.R.NAGER,N.S.OAKDALE,C.BROWN,F.WANG,Y.YANG, JRNL AUTH 3 K.LINDQUIST,Y.A.YEUNG,S.SALEK-ARDAKANI,J.CHAPARRO-RIGGERS JRNL TITL STRUCTURE OF THE 4-1BB/4-1BBL COMPLEX AND DISTINCT BINDING JRNL TITL 2 AND FUNCTIONAL PROPERTIES OF UTOMILUMAB AND URELUMAB. JRNL REF NAT COMMUN V. 9 4679 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 30410017 JRNL DOI 10.1038/S41467-018-07136-7 REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.95 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 17900 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 925 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.9527 - 5.6408 1.00 2456 143 0.1939 0.2359 REMARK 3 2 5.6408 - 4.4784 1.00 2433 142 0.1545 0.2131 REMARK 3 3 4.4784 - 3.9126 1.00 2421 133 0.1633 0.2006 REMARK 3 4 3.9126 - 3.5550 1.00 2433 118 0.1919 0.2753 REMARK 3 5 3.5550 - 3.3003 1.00 2404 134 0.2353 0.2851 REMARK 3 6 3.3003 - 3.1058 1.00 2432 117 0.3056 0.4133 REMARK 3 7 3.1058 - 2.9502 0.99 2396 138 0.3327 0.3946 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.480 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 95.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 3393 REMARK 3 ANGLE : 0.612 4631 REMARK 3 CHIRALITY : 0.038 542 REMARK 3 PLANARITY : 0.003 592 REMARK 3 DIHEDRAL : 2.829 1938 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -20.5841 61.7614 -8.3609 REMARK 3 T TENSOR REMARK 3 T11: 0.5133 T22: 0.7313 REMARK 3 T33: 0.5581 T12: -0.0219 REMARK 3 T13: -0.0724 T23: 0.0176 REMARK 3 L TENSOR REMARK 3 L11: 2.4234 L22: 4.5282 REMARK 3 L33: 2.8959 L12: 1.7579 REMARK 3 L13: -0.9506 L23: 0.7468 REMARK 3 S TENSOR REMARK 3 S11: -0.1072 S12: 0.3002 S13: -0.2119 REMARK 3 S21: -0.0278 S22: 0.0734 S23: -0.0961 REMARK 3 S31: -0.0540 S32: 0.0519 S33: 0.0774 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -3.1248 74.0511 0.6577 REMARK 3 T TENSOR REMARK 3 T11: 0.7456 T22: 0.7987 REMARK 3 T33: 0.6375 T12: -0.0887 REMARK 3 T13: -0.0179 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 5.1970 L22: 3.4093 REMARK 3 L33: 3.2772 L12: -1.7995 REMARK 3 L13: -1.3937 L23: 1.0814 REMARK 3 S TENSOR REMARK 3 S11: -0.0032 S12: -0.1460 S13: 0.1232 REMARK 3 S21: 0.2075 S22: 0.0695 S23: 0.0139 REMARK 3 S31: -0.2563 S32: 0.1998 S33: -0.1036 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): -20.7492 68.5824 14.3207 REMARK 3 T TENSOR REMARK 3 T11: 0.6640 T22: 0.7439 REMARK 3 T33: 0.6572 T12: -0.0399 REMARK 3 T13: 0.0668 T23: -0.0645 REMARK 3 L TENSOR REMARK 3 L11: 2.8110 L22: 2.8772 REMARK 3 L33: 6.1041 L12: 0.3736 REMARK 3 L13: 2.7002 L23: -0.9637 REMARK 3 S TENSOR REMARK 3 S11: 0.0453 S12: -0.4251 S13: -0.1598 REMARK 3 S21: 0.4072 S22: -0.0643 S23: 0.1151 REMARK 3 S31: 0.1529 S32: -0.4300 S33: 0.0101 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6MGE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1000236874. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9774 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17937 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.950 REMARK 200 RESOLUTION RANGE LOW (A) : 46.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 10.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2X29 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% W/V PEG 8000, 100MM TRIS 8.5, PH REMARK 280 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 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 70.32933 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 35.16467 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 0.00000 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 70.32933 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 35.16467 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: 5710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -57.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 ALA A 58 REMARK 465 ARG A 59 REMARK 465 ALA A 60 REMARK 465 SER A 61 REMARK 465 PRO A 62 REMARK 465 GLY A 63 REMARK 465 SER A 64 REMARK 465 ALA A 65 REMARK 465 ALA A 66 REMARK 465 SER A 67 REMARK 465 PRO A 68 REMARK 465 ARG A 69 REMARK 465 LEU A 70 REMARK 465 ARG A 71 REMARK 465 GLU A 72 REMARK 465 GLY A 73 REMARK 465 PRO A 74 REMARK 465 GLU A 75 REMARK 465 LEU A 76 REMARK 465 SER A 77 REMARK 465 PRO A 78 REMARK 465 ASP A 79 REMARK 465 ASP A 80 REMARK 465 PRO A 81 REMARK 465 ALA A 82 REMARK 465 GLY A 83 REMARK 465 LEU A 84 REMARK 465 LEU A 85 REMARK 465 ASP A 86 REMARK 465 LEU A 87 REMARK 465 ARG A 88 REMARK 465 GLU A 243 REMARK 465 ILE A 244 REMARK 465 PRO A 245 REMARK 465 ALA A 246 REMARK 465 GLY A 247 REMARK 465 LEU A 248 REMARK 465 PRO A 249 REMARK 465 SER A 250 REMARK 465 PRO A 251 REMARK 465 ARG A 252 REMARK 465 SER A 253 REMARK 465 GLU A 254 REMARK 465 GLY A 255 REMARK 465 SER A 256 REMARK 465 HIS A 257 REMARK 465 HIS A 258 REMARK 465 HIS A 259 REMARK 465 HIS A 260 REMARK 465 HIS A 261 REMARK 465 HIS A 262 REMARK 465 HIS A 263 REMARK 465 HIS A 264 REMARK 465 ALA B 58 REMARK 465 ARG B 59 REMARK 465 ALA B 60 REMARK 465 SER B 61 REMARK 465 PRO B 62 REMARK 465 GLY B 63 REMARK 465 SER B 64 REMARK 465 ALA B 65 REMARK 465 ALA B 66 REMARK 465 SER B 67 REMARK 465 PRO B 68 REMARK 465 ARG B 69 REMARK 465 LEU B 70 REMARK 465 ARG B 71 REMARK 465 GLU B 72 REMARK 465 GLY B 73 REMARK 465 PRO B 74 REMARK 465 GLU B 75 REMARK 465 LEU B 76 REMARK 465 SER B 77 REMARK 465 PRO B 78 REMARK 465 ASP B 79 REMARK 465 ASP B 80 REMARK 465 PRO B 81 REMARK 465 ALA B 82 REMARK 465 GLY B 83 REMARK 465 LEU B 84 REMARK 465 LEU B 85 REMARK 465 ASP B 86 REMARK 465 LEU B 87 REMARK 465 ARG B 88 REMARK 465 GLN B 89 REMARK 465 PRO B 245 REMARK 465 ALA B 246 REMARK 465 GLY B 247 REMARK 465 LEU B 248 REMARK 465 PRO B 249 REMARK 465 SER B 250 REMARK 465 PRO B 251 REMARK 465 ARG B 252 REMARK 465 SER B 253 REMARK 465 GLU B 254 REMARK 465 GLY B 255 REMARK 465 SER B 256 REMARK 465 HIS B 257 REMARK 465 HIS B 258 REMARK 465 HIS B 259 REMARK 465 HIS B 260 REMARK 465 HIS B 261 REMARK 465 HIS B 262 REMARK 465 HIS B 263 REMARK 465 HIS B 264 REMARK 465 ALA C 58 REMARK 465 ARG C 59 REMARK 465 ALA C 60 REMARK 465 SER C 61 REMARK 465 PRO C 62 REMARK 465 GLY C 63 REMARK 465 SER C 64 REMARK 465 ALA C 65 REMARK 465 ALA C 66 REMARK 465 SER C 67 REMARK 465 PRO C 68 REMARK 465 ARG C 69 REMARK 465 LEU C 70 REMARK 465 ARG C 71 REMARK 465 GLU C 72 REMARK 465 GLY C 73 REMARK 465 PRO C 74 REMARK 465 GLU C 75 REMARK 465 LEU C 76 REMARK 465 SER C 77 REMARK 465 PRO C 78 REMARK 465 ASP C 79 REMARK 465 ASP C 80 REMARK 465 PRO C 81 REMARK 465 ALA C 82 REMARK 465 GLY C 83 REMARK 465 LEU C 84 REMARK 465 LEU C 85 REMARK 465 ASP C 86 REMARK 465 LEU C 87 REMARK 465 ARG C 88 REMARK 465 GLN C 89 REMARK 465 SER C 119 REMARK 465 LEU C 120 REMARK 465 THR C 121 REMARK 465 GLY C 122 REMARK 465 ARG C 171 REMARK 465 SER C 172 REMARK 465 ALA C 173 REMARK 465 ALA C 174 REMARK 465 GLY C 175 REMARK 465 GLU C 243 REMARK 465 ILE C 244 REMARK 465 PRO C 245 REMARK 465 ALA C 246 REMARK 465 GLY C 247 REMARK 465 LEU C 248 REMARK 465 PRO C 249 REMARK 465 SER C 250 REMARK 465 PRO C 251 REMARK 465 ARG C 252 REMARK 465 SER C 253 REMARK 465 GLU C 254 REMARK 465 GLY C 255 REMARK 465 SER C 256 REMARK 465 HIS C 257 REMARK 465 HIS C 258 REMARK 465 HIS C 259 REMARK 465 HIS C 260 REMARK 465 HIS C 261 REMARK 465 HIS C 262 REMARK 465 HIS C 263 REMARK 465 HIS C 264 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 MET A 91 CG SD CE REMARK 470 SER A 119 OG REMARK 470 LEU A 120 CG CD1 CD2 REMARK 470 LYS A 137 CG CD CE NZ REMARK 470 ARG A 171 CG CD NE CZ NH1 NH2 REMARK 470 SER A 190 OG REMARK 470 GLU A 191 CG CD OE1 OE2 REMARK 470 GLU A 219 CG CD OE1 OE2 REMARK 470 ARG A 221 CG CD NE CZ NH1 NH2 REMARK 470 MET B 91 CG SD CE REMARK 470 SER B 119 OG REMARK 470 LYS B 137 CG CD CE NZ REMARK 470 SER B 172 OG REMARK 470 GLU B 191 CG CD OE1 OE2 REMARK 470 ARG B 211 NE CZ NH1 NH2 REMARK 470 ARG B 221 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 239 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 244 CG1 CG2 CD1 REMARK 470 MET C 91 CG SD CE REMARK 470 LYS C 127 CD CE NZ REMARK 470 GLU C 128 CD OE1 OE2 REMARK 470 LYS C 137 CG CD CE NZ REMARK 470 SER C 190 OG REMARK 470 GLU C 191 CG CD OE1 OE2 REMARK 470 ARG C 193 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 219 CG CD OE1 OE2 REMARK 470 ARG C 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 MET A 91 82.31 53.99 REMARK 500 ALA A 136 -73.59 -68.32 REMARK 500 MET B 91 77.23 53.21 REMARK 500 SER B 119 -138.16 57.90 REMARK 500 LEU B 120 65.12 -119.17 REMARK 500 ALA B 136 -76.39 -88.37 REMARK 500 ALA B 173 14.42 57.70 REMARK 500 LEU B 181 108.36 -162.11 REMARK 500 PRO B 242 46.30 -109.47 REMARK 500 ALA C 93 140.69 -171.76 REMARK 500 VAL C 100 -50.00 -128.57 REMARK 500 LYS C 131 59.46 39.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 C 303 DBREF 6MGE A 58 254 UNP P41273 TNFL9_HUMAN 58 254 DBREF 6MGE B 58 254 UNP P41273 TNFL9_HUMAN 58 254 DBREF 6MGE C 58 254 UNP P41273 TNFL9_HUMAN 58 254 SEQADV 6MGE GLY A 255 UNP P41273 EXPRESSION TAG SEQADV 6MGE SER A 256 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 257 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 258 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 259 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 260 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 261 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 262 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 263 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS A 264 UNP P41273 EXPRESSION TAG SEQADV 6MGE GLY B 255 UNP P41273 EXPRESSION TAG SEQADV 6MGE SER B 256 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 257 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 258 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 259 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 260 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 261 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 262 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 263 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS B 264 UNP P41273 EXPRESSION TAG SEQADV 6MGE GLY C 255 UNP P41273 EXPRESSION TAG SEQADV 6MGE SER C 256 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 257 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 258 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 259 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 260 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 261 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 262 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 263 UNP P41273 EXPRESSION TAG SEQADV 6MGE HIS C 264 UNP P41273 EXPRESSION TAG SEQRES 1 A 207 ALA ARG ALA SER PRO GLY SER ALA ALA SER PRO ARG LEU SEQRES 2 A 207 ARG GLU GLY PRO GLU LEU SER PRO ASP ASP PRO ALA GLY SEQRES 3 A 207 LEU LEU ASP LEU ARG GLN GLY MET PHE ALA GLN LEU VAL SEQRES 4 A 207 ALA GLN ASN VAL LEU LEU ILE ASP GLY PRO LEU SER TRP SEQRES 5 A 207 TYR SER ASP PRO GLY LEU ALA GLY VAL SER LEU THR GLY SEQRES 6 A 207 GLY LEU SER TYR LYS GLU ASP THR LYS GLU LEU VAL VAL SEQRES 7 A 207 ALA LYS ALA GLY VAL TYR TYR VAL PHE PHE GLN LEU GLU SEQRES 8 A 207 LEU ARG ARG VAL VAL ALA GLY GLU GLY SER GLY SER VAL SEQRES 9 A 207 SER LEU ALA LEU HIS LEU GLN PRO LEU ARG SER ALA ALA SEQRES 10 A 207 GLY ALA ALA ALA LEU ALA LEU THR VAL ASP LEU PRO PRO SEQRES 11 A 207 ALA SER SER GLU ALA ARG ASN SER ALA PHE GLY PHE GLN SEQRES 12 A 207 GLY ARG LEU LEU HIS LEU SER ALA GLY GLN ARG LEU GLY SEQRES 13 A 207 VAL HIS LEU HIS THR GLU ALA ARG ALA ARG HIS ALA TRP SEQRES 14 A 207 GLN LEU THR GLN GLY ALA THR VAL LEU GLY LEU PHE ARG SEQRES 15 A 207 VAL THR PRO GLU ILE PRO ALA GLY LEU PRO SER PRO ARG SEQRES 16 A 207 SER GLU GLY SER HIS HIS HIS HIS HIS HIS HIS HIS SEQRES 1 B 207 ALA ARG ALA SER PRO GLY SER ALA ALA SER PRO ARG LEU SEQRES 2 B 207 ARG GLU GLY PRO GLU LEU SER PRO ASP ASP PRO ALA GLY SEQRES 3 B 207 LEU LEU ASP LEU ARG GLN GLY MET PHE ALA GLN LEU VAL SEQRES 4 B 207 ALA GLN ASN VAL LEU LEU ILE ASP GLY PRO LEU SER TRP SEQRES 5 B 207 TYR SER ASP PRO GLY LEU ALA GLY VAL SER LEU THR GLY SEQRES 6 B 207 GLY LEU SER TYR LYS GLU ASP THR LYS GLU LEU VAL VAL SEQRES 7 B 207 ALA LYS ALA GLY VAL TYR TYR VAL PHE PHE GLN LEU GLU SEQRES 8 B 207 LEU ARG ARG VAL VAL ALA GLY GLU GLY SER GLY SER VAL SEQRES 9 B 207 SER LEU ALA LEU HIS LEU GLN PRO LEU ARG SER ALA ALA SEQRES 10 B 207 GLY ALA ALA ALA LEU ALA LEU THR VAL ASP LEU PRO PRO SEQRES 11 B 207 ALA SER SER GLU ALA ARG ASN SER ALA PHE GLY PHE GLN SEQRES 12 B 207 GLY ARG LEU LEU HIS LEU SER ALA GLY GLN ARG LEU GLY SEQRES 13 B 207 VAL HIS LEU HIS THR GLU ALA ARG ALA ARG HIS ALA TRP SEQRES 14 B 207 GLN LEU THR GLN GLY ALA THR VAL LEU GLY LEU PHE ARG SEQRES 15 B 207 VAL THR PRO GLU ILE PRO ALA GLY LEU PRO SER PRO ARG SEQRES 16 B 207 SER GLU GLY SER HIS HIS HIS HIS HIS HIS HIS HIS SEQRES 1 C 207 ALA ARG ALA SER PRO GLY SER ALA ALA SER PRO ARG LEU SEQRES 2 C 207 ARG GLU GLY PRO GLU LEU SER PRO ASP ASP PRO ALA GLY SEQRES 3 C 207 LEU LEU ASP LEU ARG GLN GLY MET PHE ALA GLN LEU VAL SEQRES 4 C 207 ALA GLN ASN VAL LEU LEU ILE ASP GLY PRO LEU SER TRP SEQRES 5 C 207 TYR SER ASP PRO GLY LEU ALA GLY VAL SER LEU THR GLY SEQRES 6 C 207 GLY LEU SER TYR LYS GLU ASP THR LYS GLU LEU VAL VAL SEQRES 7 C 207 ALA LYS ALA GLY VAL TYR TYR VAL PHE PHE GLN LEU GLU SEQRES 8 C 207 LEU ARG ARG VAL VAL ALA GLY GLU GLY SER GLY SER VAL SEQRES 9 C 207 SER LEU ALA LEU HIS LEU GLN PRO LEU ARG SER ALA ALA SEQRES 10 C 207 GLY ALA ALA ALA LEU ALA LEU THR VAL ASP LEU PRO PRO SEQRES 11 C 207 ALA SER SER GLU ALA ARG ASN SER ALA PHE GLY PHE GLN SEQRES 12 C 207 GLY ARG LEU LEU HIS LEU SER ALA GLY GLN ARG LEU GLY SEQRES 13 C 207 VAL HIS LEU HIS THR GLU ALA ARG ALA ARG HIS ALA TRP SEQRES 14 C 207 GLN LEU THR GLN GLY ALA THR VAL LEU GLY LEU PHE ARG SEQRES 15 C 207 VAL THR PRO GLU ILE PRO ALA GLY LEU PRO SER PRO ARG SEQRES 16 C 207 SER GLU GLY SER HIS HIS HIS HIS HIS HIS HIS HIS HET PO4 A 301 5 HET PO4 A 302 5 HET PO4 B 301 5 HET GOL C 301 6 HET PO4 C 302 5 HET PO4 C 303 5 HETNAM PO4 PHOSPHATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 PO4 5(O4 P 3-) FORMUL 7 GOL C3 H8 O3 FORMUL 10 HOH *16(H2 O) HELIX 1 AA1 ALA A 222 HIS A 224 5 3 HELIX 2 AA2 PRO B 113 SER B 119 5 7 HELIX 3 AA3 LEU B 170 ALA B 174 5 5 HELIX 4 AA4 ALA B 222 HIS B 224 5 3 HELIX 5 AA5 PRO C 113 ALA C 116 5 4 HELIX 6 AA6 ALA C 222 HIS C 224 5 3 SHEET 1 AA1 5 TRP A 109 SER A 111 0 SHEET 2 AA1 5 PHE A 92 ALA A 97 -1 N VAL A 96 O TYR A 110 SHEET 3 AA1 5 VAL A 234 ARG A 239 -1 O LEU A 235 N LEU A 95 SHEET 4 AA1 5 GLY A 139 ARG A 151 -1 N PHE A 144 O GLY A 236 SHEET 5 AA1 5 SER A 195 LEU A 206 -1 O LEU A 204 N TYR A 141 SHEET 1 AA2 5 TRP A 109 SER A 111 0 SHEET 2 AA2 5 PHE A 92 ALA A 97 -1 N VAL A 96 O TYR A 110 SHEET 3 AA2 5 VAL A 234 ARG A 239 -1 O LEU A 235 N LEU A 95 SHEET 4 AA2 5 GLY A 139 ARG A 151 -1 N PHE A 144 O GLY A 236 SHEET 5 AA2 5 TRP A 226 LEU A 228 -1 O GLN A 227 N ARG A 150 SHEET 1 AA3 4 GLY A 105 PRO A 106 0 SHEET 2 AA3 4 ARG A 211 ARG A 221 -1 O LEU A 216 N GLY A 105 SHEET 3 AA3 4 GLU A 132 VAL A 135 -1 N LEU A 133 O LEU A 212 SHEET 4 AA3 4 LEU A 124 LYS A 127 -1 N SER A 125 O VAL A 134 SHEET 1 AA4 4 GLY A 105 PRO A 106 0 SHEET 2 AA4 4 ARG A 211 ARG A 221 -1 O LEU A 216 N GLY A 105 SHEET 3 AA4 4 SER A 158 GLN A 168 -1 N SER A 162 O HIS A 217 SHEET 4 AA4 4 LEU A 179 LEU A 185 -1 O LEU A 179 N LEU A 165 SHEET 1 AA5 5 TRP B 109 SER B 111 0 SHEET 2 AA5 5 PHE B 92 ALA B 97 -1 N VAL B 96 O TYR B 110 SHEET 3 AA5 5 VAL B 234 THR B 241 -1 O LEU B 235 N LEU B 95 SHEET 4 AA5 5 GLY B 139 ARG B 151 -1 N TYR B 142 O PHE B 238 SHEET 5 AA5 5 SER B 195 LEU B 206 -1 O LEU B 204 N TYR B 141 SHEET 1 AA6 5 TRP B 109 SER B 111 0 SHEET 2 AA6 5 PHE B 92 ALA B 97 -1 N VAL B 96 O TYR B 110 SHEET 3 AA6 5 VAL B 234 THR B 241 -1 O LEU B 235 N LEU B 95 SHEET 4 AA6 5 GLY B 139 ARG B 151 -1 N TYR B 142 O PHE B 238 SHEET 5 AA6 5 TRP B 226 LEU B 228 -1 O GLN B 227 N ARG B 150 SHEET 1 AA7 4 GLY B 105 PRO B 106 0 SHEET 2 AA7 4 ARG B 211 ALA B 220 -1 O LEU B 216 N GLY B 105 SHEET 3 AA7 4 GLU B 132 VAL B 134 -1 N LEU B 133 O LEU B 212 SHEET 4 AA7 4 SER B 125 LYS B 127 -1 N LYS B 127 O GLU B 132 SHEET 1 AA8 4 GLY B 105 PRO B 106 0 SHEET 2 AA8 4 ARG B 211 ALA B 220 -1 O LEU B 216 N GLY B 105 SHEET 3 AA8 4 GLY B 159 GLN B 168 -1 N SER B 162 O HIS B 217 SHEET 4 AA8 4 LEU B 179 LEU B 185 -1 O LEU B 179 N LEU B 165 SHEET 1 AA9 5 TRP C 109 SER C 111 0 SHEET 2 AA9 5 PHE C 92 ALA C 97 -1 N VAL C 96 O TYR C 110 SHEET 3 AA9 5 VAL C 234 THR C 241 -1 O LEU C 235 N LEU C 95 SHEET 4 AA9 5 GLY C 139 ARG C 151 -1 N PHE C 144 O GLY C 236 SHEET 5 AA9 5 SER C 195 LEU C 206 -1 O ALA C 196 N LEU C 149 SHEET 1 AB1 5 TRP C 109 SER C 111 0 SHEET 2 AB1 5 PHE C 92 ALA C 97 -1 N VAL C 96 O TYR C 110 SHEET 3 AB1 5 VAL C 234 THR C 241 -1 O LEU C 235 N LEU C 95 SHEET 4 AB1 5 GLY C 139 ARG C 151 -1 N PHE C 144 O GLY C 236 SHEET 5 AB1 5 TRP C 226 LEU C 228 -1 O GLN C 227 N ARG C 150 SHEET 1 AB2 4 GLY C 105 PRO C 106 0 SHEET 2 AB2 4 ARG C 211 ARG C 221 -1 O LEU C 216 N GLY C 105 SHEET 3 AB2 4 GLU C 132 VAL C 134 -1 N LEU C 133 O LEU C 212 SHEET 4 AB2 4 SER C 125 LYS C 127 -1 N SER C 125 O VAL C 134 SHEET 1 AB3 4 GLY C 105 PRO C 106 0 SHEET 2 AB3 4 ARG C 211 ARG C 221 -1 O LEU C 216 N GLY C 105 SHEET 3 AB3 4 SER C 158 GLN C 168 -1 N HIS C 166 O GLY C 213 SHEET 4 AB3 4 LEU C 179 LEU C 185 -1 O VAL C 183 N VAL C 161 CISPEP 1 GLN A 168 PRO A 169 0 -2.11 CISPEP 2 GLN B 168 PRO B 169 0 -2.09 CISPEP 3 GLN C 168 PRO C 169 0 3.78 SITE 1 AC1 1 ARG A 239 SITE 1 AC2 3 ALA A 177 ARG A 202 GLY B 231 SITE 1 AC3 3 LYS B 127 GLU B 128 ASP B 129 SITE 1 AC4 6 GLY A 198 PHE A 199 PHE B 199 PHE C 197 SITE 2 AC4 6 GLY C 198 PHE C 199 SITE 1 AC5 2 ASN B 99 ALA C 154 SITE 1 AC6 4 HIS C 205 LEU C 206 SER C 207 GLN C 210 CRYST1 118.910 118.910 105.494 90.00 90.00 120.00 P 62 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 0.008410 0.004855 0.000000 0.00000 SCALE2 0.000000 0.009711 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009479 0.00000