HEADER DNA BINDING PROTEIN 11-JUN-13 4L5Q TITLE CRYSTAL STRUCTURE OF P202 HIN1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERFERON-ACTIVABLE PROTEIN 202; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HIN-200 1; COMPND 5 SYNONYM: IFI-202, INTERFERON-INDUCIBLE PROTEIN P202, LUPUS COMPND 6 SUSCEPTIBILITY PROTEIN P202; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 STRAIN: CZECH II; SOURCE 6 GENE: IFI202, IFI202A, IFI202B; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21 DE3 RIPL; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PSMT3 KEYWDS HIN200, TANDEM OB-FOLDS, DSDNA BINDING, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Q.YIN,Y.TIAN,H.WU REVDAT 3 28-FEB-24 4L5Q 1 SEQADV REVDAT 2 21-AUG-13 4L5Q 1 JRNL REVDAT 1 31-JUL-13 4L5Q 0 JRNL AUTH Q.YIN,D.P.SESTER,Y.TIAN,Y.S.HSIAO,A.LU,J.A.CRIDLAND, JRNL AUTH 2 V.SAGULENKO,S.J.THYGESEN,D.CHOUBEY,V.HORNUNG,T.WALZ, JRNL AUTH 3 K.J.STACEY,H.WU JRNL TITL MOLECULAR MECHANISM FOR P202-MEDIATED SPECIFIC INHIBITION OF JRNL TITL 2 AIM2 INFLAMMASOME ACTIVATION. JRNL REF CELL REP V. 4 327 2013 JRNL REFN ESSN 2211-1247 JRNL PMID 23850291 JRNL DOI 10.1016/J.CELREP.2013.06.024 REMARK 2 REMARK 2 RESOLUTION. 2.23 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) 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) : 2.23 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 12643 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 619 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 45.8477 - 3.5390 1.00 3170 153 0.1832 0.2250 REMARK 3 2 3.5390 - 2.8091 1.00 3009 170 0.2016 0.2198 REMARK 3 3 2.8091 - 2.4541 1.00 2988 143 0.2151 0.3167 REMARK 3 4 2.4541 - 2.2297 0.97 2857 153 0.2203 0.2537 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.540 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.006 1635 REMARK 3 ANGLE : 1.049 2194 REMARK 3 CHIRALITY : 0.079 242 REMARK 3 PLANARITY : 0.004 278 REMARK 3 DIHEDRAL : 14.495 625 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 4L5Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080214. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9788 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.230 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23-25% PEG 3350, 0.1 M BIS-TRIS PH 5.6 REMARK 280 -5.8 AND 0.2 M AMMONIUM SULFATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K, PH 5.7 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 35.77200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.08050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.77200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.08050 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: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 364 LIES ON A SPECIAL POSITION. 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 HOH A 328 O HOH A 379 1.83 REMARK 500 ND1 HIS A 206 O HOH A 360 1.84 REMARK 500 N SER A 45 O HOH A 406 1.94 REMARK 500 O HOH A 375 O HOH A 393 1.95 REMARK 500 O HOH A 373 O HOH A 393 1.96 REMARK 500 O HOH A 395 O HOH A 410 1.97 REMARK 500 O HOH A 382 O HOH A 405 2.01 REMARK 500 O HOH A 339 O HOH A 401 2.12 REMARK 500 NZ LYS A 203 O HOH A 353 2.17 REMARK 500 ND2 ASN A 182 O SER A 185 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 378 O HOH A 392 4456 1.52 REMARK 500 O HOH A 372 O HOH A 406 2655 2.08 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 ASN A 50 -0.41 69.16 REMARK 500 THR A 89 -164.27 -103.53 REMARK 500 ASN A 128 -156.82 -121.87 REMARK 500 SER A 185 148.12 -176.77 REMARK 500 ASP A 192 -161.03 -124.86 REMARK 500 LYS A 203 -163.47 -103.17 REMARK 500 GLN A 205 56.69 -109.70 REMARK 500 ILE A 208 66.60 -106.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 45 THR A 46 138.25 REMARK 500 REMARK 500 REMARK: NULL DBREF 4L5Q A 46 243 UNP Q9R002 IFI2_MOUSE 46 243 SEQADV 4L5Q SER A 45 UNP Q9R002 EXPRESSION TAG SEQADV 4L5Q LYS A 92 UNP Q9R002 GLN 92 VARIANT SEQADV 4L5Q GLN A 111 UNP Q9R002 LYS 111 VARIANT SEQADV 4L5Q MET A 141 UNP Q9R002 ILE 141 VARIANT SEQADV 4L5Q PHE A 142 UNP Q9R002 ILE 142 VARIANT SEQADV 4L5Q GLU A 204 UNP Q9R002 LYS 204 VARIANT SEQRES 1 A 199 SER THR PRO LYS LYS ASN ILE SER LYS GLY ALA VAL LEU SEQRES 2 A 199 HIS GLU LYS PRO MET THR VAL MET VAL LEU THR ALA THR SEQRES 3 A 199 GLU PRO PHE ASN TYR LYS GLU GLY LYS GLU ASN MET PHE SEQRES 4 A 199 HIS ALA THR VAL ALA THR GLU SER LYS TYR TYR ARG VAL SEQRES 5 A 199 LYS VAL PHE ASN MET ASP LEU LYS GLU LYS PHE THR GLU SEQRES 6 A 199 ASN GLN PHE ILE THR ILE SER LYS TYR PHE ASN SER SER SEQRES 7 A 199 GLY ILE LEU GLU ILE ASN GLU THR ALA THR VAL SER GLU SEQRES 8 A 199 ALA ALA PRO ASN GLN MET PHE GLU VAL PRO LYS ASN ILE SEQRES 9 A 199 ILE ARG SER ALA LYS GLU THR LEU LYS ILE SER LYS ILE SEQRES 10 A 199 LYS GLU LEU ASP SER GLY THR LEU ILE TYR GLY VAL PHE SEQRES 11 A 199 ALA VAL GLU LYS LYS LYS VAL ASN ASP LYS SER ILE THR SEQRES 12 A 199 PHE LYS ILE LYS ASP ASN GLU ASP ASN ILE LYS VAL VAL SEQRES 13 A 199 TRP ASP LYS GLU GLN HIS ASN ILE ASN TYR GLU LYS GLY SEQRES 14 A 199 ASP LYS LEU GLN LEU PHE SER PHE HIS LEU ARG LYS GLY SEQRES 15 A 199 ASN GLY LYS PRO ILE LEU HIS SER GLY ASN HIS SER PHE SEQRES 16 A 199 ILE LYS GLY GLU FORMUL 2 HOH *116(H2 O) HELIX 1 1 ASN A 100 PHE A 107 5 8 HELIX 2 2 ALA A 137 MET A 141 5 5 HELIX 3 3 PRO A 145 LYS A 153 1 9 HELIX 4 4 LYS A 157 LYS A 162 1 6 SHEET 1 A 8 VAL A 56 HIS A 58 0 SHEET 2 A 8 TYR A 118 SER A 121 -1 O TYR A 118 N HIS A 58 SHEET 3 A 8 ILE A 124 ILE A 127 -1 O GLU A 126 N PHE A 119 SHEET 4 A 8 TYR A 93 VAL A 98 1 N LYS A 97 O LEU A 125 SHEET 5 A 8 PHE A 83 ALA A 88 -1 N ALA A 85 O VAL A 96 SHEET 6 A 8 MET A 62 ALA A 69 -1 N MET A 65 O ALA A 88 SHEET 7 A 8 PHE A 112 SER A 116 -1 O ILE A 113 N VAL A 64 SHEET 8 A 8 THR A 132 GLU A 135 -1 O SER A 134 N THR A 114 SHEET 1 B 7 PHE A 239 LYS A 241 0 SHEET 2 B 7 LYS A 215 ARG A 224 -1 N GLN A 217 O LYS A 241 SHEET 3 B 7 ILE A 231 HIS A 233 -1 O ILE A 231 N ARG A 224 SHEET 4 B 7 ASN A 196 TRP A 201 1 N VAL A 200 O LEU A 232 SHEET 5 B 7 SER A 185 LYS A 191 -1 N PHE A 188 O VAL A 199 SHEET 6 B 7 LEU A 169 ASN A 182 -1 N GLU A 177 O LYS A 189 SHEET 7 B 7 LYS A 215 ARG A 224 -1 O PHE A 221 N ILE A 170 CRYST1 71.544 76.161 45.838 90.00 90.00 90.00 P 21 21 2 4 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 0.013977 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013130 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021816 0.00000