PDB Short entry for 3URF HEADER CYTOKINE 22-NOV-11 3URF TITLE HUMAN RANKL/OPG COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 11, SOLUBLE COMPND 3 FORM; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 162-317; COMPND 6 SYNONYM: OSTEOCLAST DIFFERENTIATION FACTOR, ODF, OSTEOPROTEGERIN COMPND 7 LIGAND, OPGL, RECEPTOR ACTIVATOR OF NUCLEAR FACTOR KAPPA-B LIGAND, COMPND 8 RANKL, TNF-RELATED ACTIVATION-INDUCED CYTOKINE, TRANCE; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 11B; COMPND 12 CHAIN: Z; COMPND 13 FRAGMENT: UNP RESIDUES 22-186; COMPND 14 SYNONYM: OSTEOCLASTOGENESIS INHIBITORY FACTOR, OSTEOPROTEGERIN; COMPND 15 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: TNFSF11, OPGL, RANKL, TRANCE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: TNFRSF11B, OCIF, OPG; SOURCE 14 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS CYSTEIN-RICH DOMAIN, BETA-SANDWICH, CYTOKINE EXPDTA X-RAY DIFFRACTION AUTHOR X.Q.WANG,X.D.LUAN,Q.Y.LU REVDAT 2 29-JUL-20 3URF 1 COMPND REMARK SEQADV HETNAM REVDAT 2 2 1 LINK SITE REVDAT 1 11-JUL-12 3URF 0 JRNL AUTH X.D.LUAN,Q.Y.LU,Y.N.JIANG,S.Y.ZHANG,Q.WANG,H.H.YUAN, JRNL AUTH 2 W.M.ZHAO,J.W.WANG,X.Q.WANG JRNL TITL CRYSTAL STRUCTURE OF HUMAN RANKL COMPLEXED WITH ITS DECOY JRNL TITL 2 RECEPTOR OSTEOPROTEGERIN JRNL REF J.IMMUNOL. V. 189 245 2012 JRNL REFN ISSN 0022-1767 JRNL PMID 22664871 JRNL DOI 10.4049/JIMMUNOL.1103387 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 14783 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 748 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 40.1647 - 4.6168 0.99 2995 130 0.2127 0.2522 REMARK 3 2 4.6168 - 3.6653 1.00 2808 151 0.1539 0.1986 REMARK 3 3 3.6653 - 3.2022 1.00 2751 163 0.1879 0.2488 REMARK 3 4 3.2022 - 2.9095 1.00 2743 157 0.2405 0.3226 REMARK 3 5 2.9095 - 2.7010 1.00 2738 147 0.3358 0.3984 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.72 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 59.41 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 63.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 80.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 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 : 0.009 2654 REMARK 3 ANGLE : 1.232 3585 REMARK 3 CHIRALITY : 0.085 377 REMARK 3 PLANARITY : 0.005 460 REMARK 3 DIHEDRAL : 18.708 955 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 8.8381 -0.6075 17.2613 REMARK 3 T TENSOR REMARK 3 T11: 0.2779 T22: 0.3548 REMARK 3 T33: 0.2878 T12: -0.0074 REMARK 3 T13: -0.0451 T23: 0.0706 REMARK 3 L TENSOR REMARK 3 L11: 3.7691 L22: 2.7247 REMARK 3 L33: 3.2350 L12: -0.2399 REMARK 3 L13: 0.0892 L23: 0.0124 REMARK 3 S TENSOR REMARK 3 S11: -0.0803 S12: -0.5201 S13: -0.2886 REMARK 3 S21: 0.4776 S22: -0.0488 S23: -0.0401 REMARK 3 S31: 0.2055 S32: -0.0806 S33: -0.0035 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN Z REMARK 3 ORIGIN FOR THE GROUP (A): -14.0164 -6.4273 29.8520 REMARK 3 T TENSOR REMARK 3 T11: 0.3243 T22: 0.5155 REMARK 3 T33: 0.3708 T12: -0.0246 REMARK 3 T13: 0.1191 T23: 0.1734 REMARK 3 L TENSOR REMARK 3 L11: 0.8755 L22: 0.8659 REMARK 3 L33: 1.0451 L12: -0.4491 REMARK 3 L13: 0.1119 L23: -0.3756 REMARK 3 S TENSOR REMARK 3 S11: -0.3391 S12: -0.4917 S13: -0.4886 REMARK 3 S21: 0.2077 S22: 0.2705 S23: 0.1241 REMARK 3 S31: 0.0246 S32: -0.3981 S33: -0.0045 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 3URF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069115. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-09 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 : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14783 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 40.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M NACL, 100MM MES PH 6.5, 100MM REMARK 280 SODIUM PHOSPHATE MONOBASIC MONOHYDRATE, 100MM POTASSIUM REMARK 280 PHOSPHATE MONOBASIC, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+3/4,X+1/4,-Z+1/4 REMARK 290 14555 -Y+3/4,-X+3/4,-Z+3/4 REMARK 290 15555 Y+1/4,-X+1/4,Z+3/4 REMARK 290 16555 -Y+1/4,X+3/4,Z+1/4 REMARK 290 17555 X+3/4,Z+1/4,-Y+1/4 REMARK 290 18555 -X+1/4,Z+3/4,Y+1/4 REMARK 290 19555 -X+3/4,-Z+3/4,-Y+3/4 REMARK 290 20555 X+1/4,-Z+1/4,Y+3/4 REMARK 290 21555 Z+3/4,Y+1/4,-X+1/4 REMARK 290 22555 Z+1/4,-Y+1/4,X+3/4 REMARK 290 23555 -Z+1/4,Y+3/4,X+1/4 REMARK 290 24555 -Z+3/4,-Y+3/4,-X+3/4 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 72.40000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.40000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 72.40000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.40000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 72.40000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 72.40000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 72.40000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 72.40000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 72.40000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 72.40000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 72.40000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 72.40000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 72.40000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 72.40000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 72.40000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 72.40000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 72.40000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 72.40000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 108.60000 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 36.20000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 36.20000 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 108.60000 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 108.60000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 108.60000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 36.20000 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 36.20000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 108.60000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 36.20000 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 108.60000 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 36.20000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 108.60000 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 36.20000 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 36.20000 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 36.20000 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 108.60000 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 36.20000 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 108.60000 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 108.60000 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 108.60000 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 36.20000 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 36.20000 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 108.60000 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 108.60000 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 36.20000 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 36.20000 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 36.20000 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 36.20000 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 108.60000 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 36.20000 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 108.60000 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 36.20000 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 108.60000 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 108.60000 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 108.60000 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 APPLY THE FOLLOWING TO CHAINS: A, Z 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 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 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 HIS A 318 REMARK 465 HIS A 319 REMARK 465 HIS A 320 REMARK 465 HIS A 321 REMARK 465 HIS A 322 REMARK 465 HIS A 323 REMARK 465 GLU Z 1 REMARK 465 THR Z 2 REMARK 465 PHE Z 3 REMARK 465 PRO Z 4 REMARK 465 HIS Z 169 REMARK 465 HIS Z 170 REMARK 465 HIS Z 171 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 SG CYS Z 145 CB CYS Z 164 1.67 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 HIS A 180 -148.02 -137.08 REMARK 500 ASP A 190 56.58 -147.70 REMARK 500 ARG A 191 136.31 -173.10 REMARK 500 ASN A 198 27.71 48.67 REMARK 500 ASN A 203 36.61 34.95 REMARK 500 ASP A 211 154.39 -47.56 REMARK 500 SER A 228 149.85 -176.83 REMARK 500 LYS A 248 -48.09 131.11 REMARK 500 ILE A 249 74.89 -107.11 REMARK 500 TYR Z 7 126.57 101.00 REMARK 500 ASP Z 11 -54.60 -129.29 REMARK 500 GLU Z 12 71.61 76.50 REMARK 500 GLU Z 13 -175.02 -67.84 REMARK 500 SER Z 15 -92.65 -65.87 REMARK 500 THR Z 34 19.28 -149.93 REMARK 500 ALA Z 35 106.43 66.72 REMARK 500 LYS Z 36 -15.88 81.93 REMARK 500 HIS Z 54 -172.30 -176.79 REMARK 500 THR Z 55 -1.57 -142.18 REMARK 500 ILE Z 94 -102.57 62.79 REMARK 500 PRO Z 105 -3.17 -53.12 REMARK 500 PRO Z 125 172.11 -51.38 REMARK 500 SER Z 146 -65.81 -27.36 REMARK 500 VAL Z 147 -112.80 -82.13 REMARK 500 LEU Z 150 -149.23 -116.12 REMARK 500 THR Z 153 -32.96 -134.35 REMARK 500 ASN Z 157 -154.94 -86.93 REMARK 500 REMARK 500 REMARK: NULL DBREF 3URF A 162 317 UNP O14788 TNF11_HUMAN 162 317 DBREF 3URF Z 1 165 UNP O00300 TR11B_HUMAN 22 186 SEQADV 3URF HIS A 318 UNP O14788 EXPRESSION TAG SEQADV 3URF HIS A 319 UNP O14788 EXPRESSION TAG SEQADV 3URF HIS A 320 UNP O14788 EXPRESSION TAG SEQADV 3URF HIS A 321 UNP O14788 EXPRESSION TAG SEQADV 3URF HIS A 322 UNP O14788 EXPRESSION TAG SEQADV 3URF HIS A 323 UNP O14788 EXPRESSION TAG SEQADV 3URF HIS Z 166 UNP O00300 EXPRESSION TAG SEQADV 3URF HIS Z 167 UNP O00300 EXPRESSION TAG SEQADV 3URF HIS Z 168 UNP O00300 EXPRESSION TAG SEQADV 3URF HIS Z 169 UNP O00300 EXPRESSION TAG SEQADV 3URF HIS Z 170 UNP O00300 EXPRESSION TAG SEQADV 3URF HIS Z 171 UNP O00300 EXPRESSION TAG SEQRES 1 A 162 ALA GLN PRO PHE ALA HIS LEU THR ILE ASN ALA THR ASP SEQRES 2 A 162 ILE PRO SER GLY SER HIS LYS VAL SER LEU SER SER TRP SEQRES 3 A 162 TYR HIS ASP ARG GLY TRP ALA LYS ILE SER ASN MET THR SEQRES 4 A 162 PHE SER ASN GLY LYS LEU ILE VAL ASN GLN ASP GLY PHE SEQRES 5 A 162 TYR TYR LEU TYR ALA ASN ILE CYS PHE ARG HIS HIS GLU SEQRES 6 A 162 THR SER GLY ASP LEU ALA THR GLU TYR LEU GLN LEU MET SEQRES 7 A 162 VAL TYR VAL THR LYS THR SER ILE LYS ILE PRO SER SER SEQRES 8 A 162 HIS THR LEU MET LYS GLY GLY SER THR LYS TYR TRP SER SEQRES 9 A 162 GLY ASN SER GLU PHE HIS PHE TYR SER ILE ASN VAL GLY SEQRES 10 A 162 GLY PHE PHE LYS LEU ARG SER GLY GLU GLU ILE SER ILE SEQRES 11 A 162 GLU VAL SER ASN PRO SER LEU LEU ASP PRO ASP GLN ASP SEQRES 12 A 162 ALA THR TYR PHE GLY ALA PHE LYS VAL ARG ASP ILE ASP SEQRES 13 A 162 HIS HIS HIS HIS HIS HIS SEQRES 1 Z 171 GLU THR PHE PRO PRO LYS TYR LEU HIS TYR ASP GLU GLU SEQRES 2 Z 171 THR SER HIS GLN LEU LEU CYS ASP LYS CYS PRO PRO GLY SEQRES 3 Z 171 THR TYR LEU LYS GLN HIS CYS THR ALA LYS TRP LYS THR SEQRES 4 Z 171 VAL CYS ALA PRO CYS PRO ASP HIS TYR TYR THR ASP SER SEQRES 5 Z 171 TRP HIS THR SER ASP GLU CYS LEU TYR CYS SER PRO VAL SEQRES 6 Z 171 CYS LYS GLU LEU GLN TYR VAL LYS GLN GLU CYS ASN ARG SEQRES 7 Z 171 THR HIS ASN ARG VAL CYS GLU CYS LYS GLU GLY ARG TYR SEQRES 8 Z 171 LEU GLU ILE GLU PHE CYS LEU LYS HIS ARG SER CYS PRO SEQRES 9 Z 171 PRO GLY PHE GLY VAL VAL GLN ALA GLY THR PRO GLU ARG SEQRES 10 Z 171 ASN THR VAL CYS LYS ARG CYS PRO ASP GLY PHE PHE SER SEQRES 11 Z 171 ASN GLU THR SER SER LYS ALA PRO CYS ARG LYS HIS THR SEQRES 12 Z 171 ASN CYS SER VAL PHE GLY LEU LEU LEU THR GLN LYS GLY SEQRES 13 Z 171 ASN ALA THR HIS ASP ASN ILE CYS SER HIS HIS HIS HIS SEQRES 14 Z 171 HIS HIS MODRES 3URF ASN Z 157 ASN GLYCOSYLATION SITE HET NAG Z 201 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE FORMUL 3 NAG C8 H15 N O6 FORMUL 4 HOH *36(H2 O) HELIX 1 1 ASN A 295 LEU A 299 5 5 SHEET 1 A 3 TRP A 187 TYR A 188 0 SHEET 2 A 3 PHE A 165 ILE A 170 -1 N THR A 169 O TYR A 188 SHEET 3 A 3 LYS A 195 SER A 197 -1 O SER A 197 N PHE A 165 SHEET 1 B 5 TRP A 187 TYR A 188 0 SHEET 2 B 5 PHE A 165 ILE A 170 -1 N THR A 169 O TYR A 188 SHEET 3 B 5 TYR A 307 ARG A 314 -1 O PHE A 308 N LEU A 168 SHEET 4 B 5 GLY A 212 HIS A 225 -1 N PHE A 213 O VAL A 313 SHEET 5 B 5 PHE A 270 LEU A 283 -1 O GLY A 279 N LEU A 216 SHEET 1 C 4 VAL A 182 LEU A 184 0 SHEET 2 C 4 GLU A 287 VAL A 293 -1 O ILE A 291 N LEU A 184 SHEET 3 C 4 LYS A 205 VAL A 208 -1 N VAL A 208 O GLU A 287 SHEET 4 C 4 MET A 199 SER A 202 -1 N THR A 200 O ILE A 207 SHEET 1 D 4 VAL A 182 LEU A 184 0 SHEET 2 D 4 GLU A 287 VAL A 293 -1 O ILE A 291 N LEU A 184 SHEET 3 D 4 TYR A 235 SER A 246 -1 N THR A 243 O SER A 290 SHEET 4 D 4 HIS A 253 TYR A 263 -1 O LEU A 255 N VAL A 242 SHEET 1 E 2 LEU Z 8 TYR Z 10 0 SHEET 2 E 2 LEU Z 19 ASP Z 21 -1 O CYS Z 20 N HIS Z 9 SHEET 1 F 2 THR Z 27 GLN Z 31 0 SHEET 2 F 2 VAL Z 40 PRO Z 43 -1 O VAL Z 40 N LYS Z 30 SHEET 1 G 2 TYR Z 48 TYR Z 49 0 SHEET 2 G 2 LEU Z 60 TYR Z 61 -1 O LEU Z 60 N TYR Z 49 SHEET 1 H 2 GLN Z 70 GLN Z 74 0 SHEET 2 H 2 VAL Z 83 CYS Z 86 -1 O VAL Z 83 N GLN Z 74 SHEET 1 I 2 ARG Z 90 GLU Z 93 0 SHEET 2 I 2 PHE Z 96 LYS Z 99 -1 O PHE Z 96 N GLU Z 93 SHEET 1 J 2 PHE Z 107 GLN Z 111 0 SHEET 2 J 2 VAL Z 120 ARG Z 123 -1 O VAL Z 120 N VAL Z 110 SHEET 1 K 2 PHE Z 128 PHE Z 129 0 SHEET 2 K 2 ARG Z 140 LYS Z 141 -1 O ARG Z 140 N PHE Z 129 SSBOND 1 CYS Z 20 CYS Z 33 1555 1555 2.03 SSBOND 2 CYS Z 23 CYS Z 41 1555 1555 2.04 SSBOND 3 CYS Z 44 CYS Z 59 1555 1555 2.05 SSBOND 4 CYS Z 62 CYS Z 76 1555 1555 2.03 SSBOND 5 CYS Z 66 CYS Z 84 1555 1555 2.04 SSBOND 6 CYS Z 86 CYS Z 97 1555 1555 2.03 SSBOND 7 CYS Z 103 CYS Z 121 1555 1555 2.04 SSBOND 8 CYS Z 124 CYS Z 139 1555 1555 2.05 SSBOND 9 CYS Z 145 CYS Z 164 1555 1555 2.03 LINK ND2 ASN Z 157 C1 NAG Z 201 1555 1555 1.45 CISPEP 1 SER Z 63 PRO Z 64 0 -9.55 CRYST1 144.800 144.800 144.800 90.00 90.00 90.00 P 41 3 2 24 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 0.006906 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006906 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006906 0.00000