HEADER CYTOKINE 10-NOV-20 7KP9 TITLE ASYMMETRIC HTNF-ALPHA COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: CACHECTIN,TNF-ALPHA,TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY COMPND 5 MEMBER 2,TNF-A; COMPND 6 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: TNF, TNFA, TNFSF2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TUMOUR NECROSIS FACTOR ALPHA, TNF, ASYMMETRIC, PROTEIN-PROTEIN KEYWDS 2 INHIBITOR, CYTOKINE EXPDTA X-RAY DIFFRACTION AUTHOR T.L.ARAKAKI,J.ABENDROTH,J.W.FAIRMAN,A.FOLEY,T.CESKA REVDAT 4 16-OCT-24 7KP9 1 REMARK REVDAT 3 03-APR-24 7KP9 1 REMARK REVDAT 2 03-FEB-21 7KP9 1 JRNL REVDAT 1 13-JAN-21 7KP9 0 JRNL AUTH D.MCMILLAN,C.MARTINEZ-FLEITES,J.PORTER,D.FOX 3RD,R.DAVIS, JRNL AUTH 2 P.MORI,T.CESKA,B.CARRINGTON,A.LAWSON,T.BOURNE,J.O'CONNELL JRNL TITL STRUCTURAL INSIGHTS INTO THE DISRUPTION OF TNF-TNFR1 JRNL TITL 2 SIGNALLING BY SMALL MOLECULES STABILISING A DISTORTED TNF. JRNL REF NAT COMMUN V. 12 582 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33495441 JRNL DOI 10.1038/S41467-020-20828-3 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 23367 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1149 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1635 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3134 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 180 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82000 REMARK 3 B22 (A**2) : -0.89000 REMARK 3 B33 (A**2) : 0.07000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.255 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.206 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.139 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.306 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3269 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3079 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4475 ; 1.486 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7026 ; 0.735 ; 2.994 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 417 ; 7.611 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 130 ;33.631 ;24.462 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 476 ;12.221 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;21.702 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 518 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3724 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 722 ; 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): 1671 ; 2.294 ; 2.709 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1672 ; 2.293 ; 2.708 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2073 ; 3.649 ; 4.022 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: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7KP9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-NOV-20. REMARK 100 THE DEPOSITION ID IS D_1000252860. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9786 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23367 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 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 : 4.900 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.50300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.7.0032 REMARK 200 STARTING MODEL: UNPUBLISHED STRUCTURE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21.44% PEG 3350, 100 MM TRIS PH9.0, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 27.26000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.62000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.98000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.62000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.26000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.98000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 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 SER A 0 REMARK 465 VAL A 1 REMARK 465 ARG A 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 ARG A 103 REMARK 465 GLU A 104 REMARK 465 GLY A 108 REMARK 465 ALA A 109 REMARK 465 GLU A 110 REMARK 465 SER B 0 REMARK 465 VAL B 1 REMARK 465 ARG B 2 REMARK 465 SER B 3 REMARK 465 SER B 4 REMARK 465 SER B 5 REMARK 465 ARG B 6 REMARK 465 SER B 71 REMARK 465 THR B 72 REMARK 465 GLN B 102 REMARK 465 ARG B 103 REMARK 465 GLU B 104 REMARK 465 THR B 105 REMARK 465 PRO B 106 REMARK 465 GLU B 107 REMARK 465 GLY B 108 REMARK 465 ALA B 109 REMARK 465 GLU B 110 REMARK 465 ALA B 111 REMARK 465 SER C 0 REMARK 465 VAL C 1 REMARK 465 ARG C 2 REMARK 465 SER C 3 REMARK 465 SER C 4 REMARK 465 SER C 5 REMARK 465 ARG C 6 REMARK 465 THR C 7 REMARK 465 PRO C 8 REMARK 465 ARG C 31 REMARK 465 ARG C 32 REMARK 465 ALA C 33 REMARK 465 ASN C 34 REMARK 465 TYR C 87 REMARK 465 GLN C 88 REMARK 465 GLN C 102 REMARK 465 ARG C 103 REMARK 465 GLU C 104 REMARK 465 THR C 105 REMARK 465 PRO C 106 REMARK 465 GLU C 107 REMARK 465 GLY C 108 REMARK 465 ALA C 109 REMARK 465 GLU C 110 REMARK 465 ALA C 111 REMARK 465 ALA C 145 REMARK 465 GLU C 146 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 SER A 5 OG REMARK 470 ARG A 6 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 65 CG CD CE NZ REMARK 470 GLN A 67 CG CD OE1 NE2 REMARK 470 LYS A 98 CG CD CE NZ REMARK 470 GLN A 102 CG CD OE1 NE2 REMARK 470 GLU A 107 CG CD OE1 OE2 REMARK 470 LYS A 112 CG CD CE NZ REMARK 470 THR B 7 OG1 CG2 REMARK 470 GLU B 23 CG CD OE1 OE2 REMARK 470 ARG B 44 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 67 CG CD OE1 NE2 REMARK 470 PRO B 70 CG CD REMARK 470 HIS B 73 CG ND1 CD2 CE1 NE2 REMARK 470 VAL B 85 CG1 CG2 REMARK 470 LYS B 112 CG CD CE NZ REMARK 470 LYS B 128 CG CD CE NZ REMARK 470 GLU B 146 CG CD OE1 OE2 REMARK 470 PRO C 20 CG CD REMARK 470 GLN C 21 CG CD OE1 NE2 REMARK 470 GLU C 23 CG CD OE1 OE2 REMARK 470 GLN C 25 CG CD OE1 NE2 REMARK 470 GLN C 27 CG CD OE1 NE2 REMARK 470 GLU C 42 CG CD OE1 OE2 REMARK 470 ARG C 44 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 65 CG CD CE NZ REMARK 470 GLN C 67 CG CD OE1 NE2 REMARK 470 SER C 71 OG REMARK 470 THR C 72 OG1 CG2 REMARK 470 HIS C 73 CG ND1 CD2 CE1 NE2 REMARK 470 VAL C 74 CG1 CG2 REMARK 470 SER C 86 OG REMARK 470 LYS C 112 CG CD CE NZ REMARK 470 LYS C 128 CG CD CE NZ REMARK 470 ARG C 131 CG CD NE CZ NH1 NH2 REMARK 470 PHE C 144 CG CD1 CD2 CE1 CE2 CZ 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 ARG A 6 153.71 -47.76 REMARK 500 ARG A 32 148.87 -172.68 REMARK 500 TYR A 87 88.83 -154.80 REMARK 500 REMARK 500 REMARK: NULL DBREF 7KP9 A 1 157 UNP P01375 TNFA_HUMAN 77 233 DBREF 7KP9 B 1 157 UNP P01375 TNFA_HUMAN 77 233 DBREF 7KP9 C 1 157 UNP P01375 TNFA_HUMAN 77 233 SEQADV 7KP9 SER A 0 UNP P01375 EXPRESSION TAG SEQADV 7KP9 SER B 0 UNP P01375 EXPRESSION TAG SEQADV 7KP9 SER C 0 UNP P01375 EXPRESSION TAG SEQRES 1 A 158 SER VAL ARG SER SER SER ARG THR PRO SER ASP LYS PRO SEQRES 2 A 158 VAL ALA HIS VAL VAL ALA ASN PRO GLN ALA GLU GLY GLN SEQRES 3 A 158 LEU GLN TRP LEU ASN ARG ARG ALA ASN ALA LEU LEU ALA SEQRES 4 A 158 ASN GLY VAL GLU LEU ARG ASP ASN GLN LEU VAL VAL PRO SEQRES 5 A 158 SER GLU GLY LEU TYR LEU ILE TYR SER GLN VAL LEU PHE SEQRES 6 A 158 LYS GLY GLN GLY CYS PRO SER THR HIS VAL LEU LEU THR SEQRES 7 A 158 HIS THR ILE SER ARG ILE ALA VAL SER TYR GLN THR LYS SEQRES 8 A 158 VAL ASN LEU LEU SER ALA ILE LYS SER PRO CYS GLN ARG SEQRES 9 A 158 GLU THR PRO GLU GLY ALA GLU ALA LYS PRO TRP TYR GLU SEQRES 10 A 158 PRO ILE TYR LEU GLY GLY VAL PHE GLN LEU GLU LYS GLY SEQRES 11 A 158 ASP ARG LEU SER ALA GLU ILE ASN ARG PRO ASP TYR LEU SEQRES 12 A 158 ASP PHE ALA GLU SER GLY GLN VAL TYR PHE GLY ILE ILE SEQRES 13 A 158 ALA LEU SEQRES 1 B 158 SER VAL ARG SER SER SER ARG THR PRO SER ASP LYS PRO SEQRES 2 B 158 VAL ALA HIS VAL VAL ALA ASN PRO GLN ALA GLU GLY GLN SEQRES 3 B 158 LEU GLN TRP LEU ASN ARG ARG ALA ASN ALA LEU LEU ALA SEQRES 4 B 158 ASN GLY VAL GLU LEU ARG ASP ASN GLN LEU VAL VAL PRO SEQRES 5 B 158 SER GLU GLY LEU TYR LEU ILE TYR SER GLN VAL LEU PHE SEQRES 6 B 158 LYS GLY GLN GLY CYS PRO SER THR HIS VAL LEU LEU THR SEQRES 7 B 158 HIS THR ILE SER ARG ILE ALA VAL SER TYR GLN THR LYS SEQRES 8 B 158 VAL ASN LEU LEU SER ALA ILE LYS SER PRO CYS GLN ARG SEQRES 9 B 158 GLU THR PRO GLU GLY ALA GLU ALA LYS PRO TRP TYR GLU SEQRES 10 B 158 PRO ILE TYR LEU GLY GLY VAL PHE GLN LEU GLU LYS GLY SEQRES 11 B 158 ASP ARG LEU SER ALA GLU ILE ASN ARG PRO ASP TYR LEU SEQRES 12 B 158 ASP PHE ALA GLU SER GLY GLN VAL TYR PHE GLY ILE ILE SEQRES 13 B 158 ALA LEU SEQRES 1 C 158 SER VAL ARG SER SER SER ARG THR PRO SER ASP LYS PRO SEQRES 2 C 158 VAL ALA HIS VAL VAL ALA ASN PRO GLN ALA GLU GLY GLN SEQRES 3 C 158 LEU GLN TRP LEU ASN ARG ARG ALA ASN ALA LEU LEU ALA SEQRES 4 C 158 ASN GLY VAL GLU LEU ARG ASP ASN GLN LEU VAL VAL PRO SEQRES 5 C 158 SER GLU GLY LEU TYR LEU ILE TYR SER GLN VAL LEU PHE SEQRES 6 C 158 LYS GLY GLN GLY CYS PRO SER THR HIS VAL LEU LEU THR SEQRES 7 C 158 HIS THR ILE SER ARG ILE ALA VAL SER TYR GLN THR LYS SEQRES 8 C 158 VAL ASN LEU LEU SER ALA ILE LYS SER PRO CYS GLN ARG SEQRES 9 C 158 GLU THR PRO GLU GLY ALA GLU ALA LYS PRO TRP TYR GLU SEQRES 10 C 158 PRO ILE TYR LEU GLY GLY VAL PHE GLN LEU GLU LYS GLY SEQRES 11 C 158 ASP ARG LEU SER ALA GLU ILE ASN ARG PRO ASP TYR LEU SEQRES 12 C 158 ASP PHE ALA GLU SER GLY GLN VAL TYR PHE GLY ILE ILE SEQRES 13 C 158 ALA LEU HET A7G C 201 33 HETNAM A7G 1-{[2-(DIFLUOROMETHOXY)PHENYL]METHYL}-2-METHYL-6-[6- HETNAM 2 A7G (PIPERAZIN-1-YL)PYRIDIN-3-YL]-1H-BENZIMIDAZOLE FORMUL 4 A7G C25 H25 F2 N5 O FORMUL 5 HOH *180(H2 O) HELIX 1 AA1 ARG A 138 LEU A 142 5 5 HELIX 2 AA2 ARG B 138 LEU B 142 5 5 HELIX 3 AA3 ARG C 138 LEU C 142 5 5 SHEET 1 AA1 3 TRP A 28 LEU A 29 0 SHEET 2 AA1 3 VAL A 13 ALA A 18 -1 N VAL A 17 O LEU A 29 SHEET 3 AA1 3 LEU A 36 ALA A 38 -1 O LEU A 36 N HIS A 15 SHEET 1 AA2 5 TRP A 28 LEU A 29 0 SHEET 2 AA2 5 VAL A 13 ALA A 18 -1 N VAL A 17 O LEU A 29 SHEET 3 AA2 5 TYR A 151 ALA A 156 -1 O PHE A 152 N VAL A 16 SHEET 4 AA2 5 GLY A 54 GLN A 67 -1 N TYR A 59 O GLY A 153 SHEET 5 AA2 5 PRO A 113 LEU A 126 -1 O LEU A 126 N GLY A 54 SHEET 1 AA3 5 GLU A 42 ARG A 44 0 SHEET 2 AA3 5 GLN A 47 VAL A 49 -1 O GLN A 47 N ARG A 44 SHEET 3 AA3 5 ARG A 131 ILE A 136 -1 O LEU A 132 N LEU A 48 SHEET 4 AA3 5 LEU A 76 ALA A 84 -1 N THR A 79 O GLU A 135 SHEET 5 AA3 5 TYR A 87 LYS A 98 -1 O LYS A 98 N LEU A 76 SHEET 1 AA4 3 TRP B 28 LEU B 29 0 SHEET 2 AA4 3 VAL B 13 ALA B 18 -1 N VAL B 17 O LEU B 29 SHEET 3 AA4 3 LEU B 36 ALA B 38 -1 O LEU B 36 N HIS B 15 SHEET 1 AA5 5 TRP B 28 LEU B 29 0 SHEET 2 AA5 5 VAL B 13 ALA B 18 -1 N VAL B 17 O LEU B 29 SHEET 3 AA5 5 TYR B 151 ALA B 156 -1 O PHE B 152 N VAL B 16 SHEET 4 AA5 5 GLY B 54 GLN B 67 -1 N TYR B 59 O GLY B 153 SHEET 5 AA5 5 PRO B 113 LEU B 126 -1 O PHE B 124 N TYR B 56 SHEET 1 AA6 5 GLU B 42 ARG B 44 0 SHEET 2 AA6 5 GLN B 47 VAL B 49 -1 O GLN B 47 N ARG B 44 SHEET 3 AA6 5 ARG B 131 ILE B 136 -1 O LEU B 132 N LEU B 48 SHEET 4 AA6 5 LEU B 76 ALA B 84 -1 N THR B 79 O GLU B 135 SHEET 5 AA6 5 THR B 89 LYS B 98 -1 O LYS B 98 N LEU B 76 SHEET 1 AA7 3 TRP C 28 ASN C 30 0 SHEET 2 AA7 3 VAL C 13 ALA C 18 -1 N VAL C 17 O LEU C 29 SHEET 3 AA7 3 LEU C 36 ALA C 38 -1 O LEU C 36 N HIS C 15 SHEET 1 AA8 5 TRP C 28 ASN C 30 0 SHEET 2 AA8 5 VAL C 13 ALA C 18 -1 N VAL C 17 O LEU C 29 SHEET 3 AA8 5 TYR C 151 ALA C 156 -1 O PHE C 152 N VAL C 16 SHEET 4 AA8 5 GLY C 54 GLN C 67 -1 N TYR C 59 O GLY C 153 SHEET 5 AA8 5 PRO C 113 LEU C 126 -1 O GLY C 122 N ILE C 58 SHEET 1 AA9 5 GLU C 42 ARG C 44 0 SHEET 2 AA9 5 GLN C 47 VAL C 49 -1 O VAL C 49 N GLU C 42 SHEET 3 AA9 5 ARG C 131 ILE C 136 -1 O LEU C 132 N LEU C 48 SHEET 4 AA9 5 LEU C 76 ILE C 83 -1 N ILE C 83 O ARG C 131 SHEET 5 AA9 5 LYS C 90 LYS C 98 -1 O LEU C 93 N ILE C 80 SSBOND 1 CYS A 69 CYS A 101 1555 1555 2.07 SSBOND 2 CYS B 69 CYS B 101 1555 1555 2.05 SSBOND 3 CYS C 69 CYS C 101 1555 1555 2.04 CRYST1 54.520 81.960 93.240 90.00 90.00 90.00 P 21 21 21 12 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 0.018342 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012201 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010725 0.00000