HEADER CYTOKINE 20-FEB-14 4P0J TITLE CRYSTAL STRUCTURE OF LOOP-SWAPPED INTERLEUKIN-36RA COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERLEUKIN-36 RECEPTOR ANTAGONIST/INTERLEUKIN-36 GAMMA COMPND 3 CHIMERA PROTEIN; COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET30 KEYWDS CHIMERIC PROTEIN, CYTOKINE EXPDTA X-RAY DIFFRACTION AUTHOR S.GUENTHER,E.J.SUNDBERG REVDAT 4 27-SEP-23 4P0J 1 REMARK REVDAT 3 04-OCT-17 4P0J 1 SOURCE KEYWDS REMARK CRYST1 REVDAT 2 16-JUL-14 4P0J 1 JRNL REVDAT 1 25-JUN-14 4P0J 0 JRNL AUTH S.GUNTHER,E.J.SUNDBERG JRNL TITL MOLECULAR DETERMINANTS OF AGONIST AND ANTAGONIST SIGNALING JRNL TITL 2 THROUGH THE IL-36 RECEPTOR. JRNL REF J IMMUNOL. V. 193 921 2014 JRNL REFN ESSN 1550-6606 JRNL PMID 24935927 JRNL DOI 10.4049/JIMMUNOL.1400538 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 3 NUMBER OF REFLECTIONS : 11891 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 584 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 29.2106 - 3.6464 0.98 2909 151 0.1757 0.1835 REMARK 3 2 3.6464 - 2.8951 0.97 2894 148 0.2134 0.2562 REMARK 3 3 2.8951 - 2.5293 0.98 2889 146 0.2595 0.3211 REMARK 3 4 2.5293 - 2.2980 0.89 2615 139 0.2929 0.3717 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.070 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.46 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.27 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 2318 REMARK 3 ANGLE : 0.868 3136 REMARK 3 CHIRALITY : 0.034 346 REMARK 3 PLANARITY : 0.004 404 REMARK 3 DIHEDRAL : 14.486 842 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4P0J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1000200412. 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 : 10.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : SI DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XSCALE REMARK 200 DATA SCALING SOFTWARE : XDS, AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11902 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.290 REMARK 200 RESOLUTION RANGE LOW (A) : 29.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 70.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.58400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.900 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: 1MD6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2 M NAH2PO4, 0.6 M K2HPO4, 0.1 M REMARK 280 CAPS, PH 10.5, 0.2 M LISO4, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 2 REMARK 465 LEU A 3 REMARK 465 ASP A 151 REMARK 465 SER B 2 REMARK 465 LEU B 3 REMARK 465 ASP B 151 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 LYS A 139 -148.92 59.44 REMARK 500 LYS B 139 -148.74 61.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4P0K RELATED DB: PDB REMARK 900 RELATED ID: 4P0L RELATED DB: PDB DBREF 4P0J A 2 135 UNP Q9UBH0 I36RA_HUMAN 2 135 DBREF 4P0J A 136 142 UNP Q9NZH8 IL36G_HUMAN 154 160 DBREF 4P0J A 143 151 UNP Q9UBH0 I36RA_HUMAN 147 155 DBREF 4P0J B 2 135 UNP Q9UBH0 I36RA_HUMAN 2 135 DBREF 4P0J B 136 142 UNP Q9NZH8 IL36G_HUMAN 154 160 DBREF 4P0J B 143 151 UNP Q9UBH0 I36RA_HUMAN 147 155 SEQADV 4P0J SER A 2 UNP Q9UBH0 VAL 2 ENGINEERED MUTATION SEQADV 4P0J SER B 2 UNP Q9UBH0 VAL 2 ENGINEERED MUTATION SEQRES 1 A 150 SER LEU SER GLY ALA LEU CYS PHE ARG MET LYS ASP SER SEQRES 2 A 150 ALA LEU LYS VAL LEU TYR LEU HIS ASN ASN GLN LEU LEU SEQRES 3 A 150 ALA GLY GLY LEU HIS ALA GLY LYS VAL ILE LYS GLY GLU SEQRES 4 A 150 GLU ILE SER VAL VAL PRO ASN ARG TRP LEU ASP ALA SER SEQRES 5 A 150 LEU SER PRO VAL ILE LEU GLY VAL GLN GLY GLY SER GLN SEQRES 6 A 150 CYS LEU SER CYS GLY VAL GLY GLN GLU PRO THR LEU THR SEQRES 7 A 150 LEU GLU PRO VAL ASN ILE MET GLU LEU TYR LEU GLY ALA SEQRES 8 A 150 LYS GLU SER LYS SER PHE THR PHE TYR ARG ARG ASP MET SEQRES 9 A 150 GLY LEU THR SER SER PHE GLU SER ALA ALA TYR PRO GLY SEQRES 10 A 150 TRP PHE LEU CYS THR VAL PRO GLU ALA ASP GLN PRO VAL SEQRES 11 A 150 ARG LEU THR GLN GLU LEU GLY LYS SER TYR ASN THR ASP SEQRES 12 A 150 PHE TYR PHE GLN GLN CYS ASP SEQRES 1 B 150 SER LEU SER GLY ALA LEU CYS PHE ARG MET LYS ASP SER SEQRES 2 B 150 ALA LEU LYS VAL LEU TYR LEU HIS ASN ASN GLN LEU LEU SEQRES 3 B 150 ALA GLY GLY LEU HIS ALA GLY LYS VAL ILE LYS GLY GLU SEQRES 4 B 150 GLU ILE SER VAL VAL PRO ASN ARG TRP LEU ASP ALA SER SEQRES 5 B 150 LEU SER PRO VAL ILE LEU GLY VAL GLN GLY GLY SER GLN SEQRES 6 B 150 CYS LEU SER CYS GLY VAL GLY GLN GLU PRO THR LEU THR SEQRES 7 B 150 LEU GLU PRO VAL ASN ILE MET GLU LEU TYR LEU GLY ALA SEQRES 8 B 150 LYS GLU SER LYS SER PHE THR PHE TYR ARG ARG ASP MET SEQRES 9 B 150 GLY LEU THR SER SER PHE GLU SER ALA ALA TYR PRO GLY SEQRES 10 B 150 TRP PHE LEU CYS THR VAL PRO GLU ALA ASP GLN PRO VAL SEQRES 11 B 150 ARG LEU THR GLN GLU LEU GLY LYS SER TYR ASN THR ASP SEQRES 12 B 150 PHE TYR PHE GLN GLN CYS ASP FORMUL 3 HOH *52(H2 O) HELIX 1 AA1 ASP A 51 LEU A 54 5 4 HELIX 2 AA2 ASN A 84 LEU A 90 1 7 HELIX 3 AA3 SER A 95 SER A 97 5 3 HELIX 4 AA4 ASP B 51 LEU B 54 5 4 HELIX 5 AA5 ASN B 84 LEU B 90 1 7 HELIX 6 AA6 SER B 95 SER B 97 5 3 SHEET 1 AA1 9 THR A 79 GLU A 81 0 SHEET 2 AA1 9 GLN A 66 SER A 69 -1 N CYS A 67 O GLU A 81 SHEET 3 AA1 9 PRO A 56 VAL A 61 -1 N VAL A 61 O GLN A 66 SHEET 4 AA1 9 THR A 99 MET A 105 -1 O PHE A 100 N VAL A 57 SHEET 5 AA1 9 THR A 108 SER A 113 -1 O GLU A 112 N TYR A 101 SHEET 6 AA1 9 PHE A 145 GLN A 149 -1 O PHE A 145 N SER A 109 SHEET 7 AA1 9 CYS A 8 ASP A 13 -1 N ARG A 10 O GLN A 148 SHEET 8 AA1 9 ILE A 42 PRO A 46 -1 O ILE A 42 N PHE A 9 SHEET 9 AA1 9 PRO A 56 VAL A 61 -1 O ILE A 58 N VAL A 45 SHEET 1 AA2 3 VAL A 18 LEU A 21 0 SHEET 2 AA2 3 LEU A 26 GLY A 29 -1 O LEU A 27 N TYR A 20 SHEET 3 AA2 3 GLN A 129 PRO A 130 -1 O GLN A 129 N ALA A 28 SHEET 1 AA3 2 PHE A 120 CYS A 122 0 SHEET 2 AA3 2 ARG A 132 THR A 134 -1 O ARG A 132 N CYS A 122 SHEET 1 AA4 9 THR B 79 GLU B 81 0 SHEET 2 AA4 9 GLN B 66 SER B 69 -1 N CYS B 67 O GLU B 81 SHEET 3 AA4 9 PRO B 56 VAL B 61 -1 N LEU B 59 O LEU B 68 SHEET 4 AA4 9 THR B 99 MET B 105 -1 O PHE B 100 N VAL B 57 SHEET 5 AA4 9 THR B 108 SER B 113 -1 O GLU B 112 N TYR B 101 SHEET 6 AA4 9 PHE B 145 GLN B 149 -1 O PHE B 145 N SER B 109 SHEET 7 AA4 9 CYS B 8 ASP B 13 -1 N ARG B 10 O GLN B 148 SHEET 8 AA4 9 ILE B 42 PRO B 46 -1 O ILE B 42 N PHE B 9 SHEET 9 AA4 9 PRO B 56 VAL B 61 -1 O GLY B 60 N SER B 43 SHEET 1 AA5 3 VAL B 18 LEU B 21 0 SHEET 2 AA5 3 LEU B 26 GLY B 29 -1 O LEU B 27 N TYR B 20 SHEET 3 AA5 3 GLN B 129 PRO B 130 -1 O GLN B 129 N ALA B 28 SHEET 1 AA6 2 PHE B 120 CYS B 122 0 SHEET 2 AA6 2 ARG B 132 THR B 134 -1 O ARG B 132 N CYS B 122 SSBOND 1 CYS A 8 CYS A 150 1555 1555 2.04 SSBOND 2 CYS B 8 CYS B 150 1555 1555 2.03 CRYST1 41.414 41.549 50.841 97.89 102.26 118.46 P 1 2 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 0.024146 0.013086 0.009242 0.00000 SCALE2 0.000000 0.027375 0.007910 0.00000 SCALE3 0.000000 0.000000 0.020951 0.00000