HEADER PROTEIN BINDING 21-JAN-11 3QFL TITLE COILED-COIL DOMAIN-DEPENDENT HOMODIMERIZATION OF INTRACELLULAR MLA TITLE 2 IMMUNE RECEPTORS DEFINES A MINIMAL FUNCTIONAL MODULE FOR TRIGGERING TITLE 3 CELL DEATH COMPND MOL_ID: 1; COMPND 2 MOLECULE: MLA10; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MLA10 COILED-COIL DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HORDEUM VULGARE; SOURCE 3 ORGANISM_COMMON: BARLEY; SOURCE 4 ORGANISM_TAXID: 4513; SOURCE 5 GENE: MLA10; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS COILED-COIL, (CC) DOMAIN, NLRS, NUCLEOTIDE-BINDING DOMAIN, LEUCINE- KEYWDS 2 RICH REPEAT CONTAINING RECEPTORS, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR J.CHAI,W.CHENG REVDAT 1 04-MAY-11 3QFL 0 JRNL AUTH T.MAEKAWA,W.CHENG,L.N.SPIRIDON,A.TOLLER,E.LUKASIK,Y.SAIJO, JRNL AUTH 2 P.LIU,Q.H.SHEN,M.A.MICLUTA,I.E.SOMSSICH,F.L.TAKKEN, JRNL AUTH 3 A.J.PETRESCU,J.CHAI,P.SCHULZE-LEFERT JRNL TITL COILED-COIL DOMAIN-DEPENDENT HOMODIMERIZATION OF JRNL TITL 2 INTRACELLULAR BARLEY IMMUNE RECEPTORS DEFINES A MINIMAL JRNL TITL 3 FUNCTIONAL MODULE FOR TRIGGERING CELL DEATH JRNL REF CELL HOST MICROBE V. 9 187 2011 JRNL REFN ISSN 1931-3128 JRNL PMID 21402358 JRNL DOI 10.1016/J.CHOM.2011.02.008 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6_289) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.71 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.280 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 8809 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.560 REMARK 3 FREE R VALUE TEST SET COUNT : 443 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 24.7093 - 3.4127 0.98 2763 136 0.2035 0.2066 REMARK 3 2 3.4127 - 2.7098 0.99 2794 131 0.2127 0.3002 REMARK 3 3 2.7098 - 2.3676 1.00 2820 132 0.2130 0.2924 REMARK 3 4 2.3676 - 2.1513 1.00 2821 119 0.2057 0.2490 REMARK 3 5 2.1513 - 1.9971 0.99 2770 149 0.2188 0.2985 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 : 0.35 REMARK 3 B_SOL : 37.75 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.14000 REMARK 3 B22 (A**2) : 2.82260 REMARK 3 B33 (A**2) : 1.31730 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 : 0.008 910 REMARK 3 ANGLE : 0.924 1222 REMARK 3 CHIRALITY : 0.062 141 REMARK 3 PLANARITY : 0.005 154 REMARK 3 DIHEDRAL : 16.937 358 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESID 1:90 REMARK 3 ORIGIN FOR THE GROUP (A): 83.8122 32.2718 28.2625 REMARK 3 T TENSOR REMARK 3 T11: 0.1397 T22: 0.1727 REMARK 3 T33: 0.0939 T12: -0.0257 REMARK 3 T13: 0.0157 T23: -0.0135 REMARK 3 L TENSOR REMARK 3 L11: 1.4918 L22: 0.5315 REMARK 3 L33: 0.3294 L12: -0.9050 REMARK 3 L13: 0.2692 L23: -0.1684 REMARK 3 S TENSOR REMARK 3 S11: -0.0109 S12: 0.2980 S13: -0.1976 REMARK 3 S21: -0.0828 S22: 0.0220 S23: 0.0627 REMARK 3 S31: -0.0738 S32: -0.0266 S33: -0.0372 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 96:120 REMARK 3 ORIGIN FOR THE GROUP (A): 124.1502 21.5341 29.0645 REMARK 3 T TENSOR REMARK 3 T11: 0.2537 T22: 0.2015 REMARK 3 T33: 0.2013 T12: 0.0541 REMARK 3 T13: -0.0707 T23: 0.0036 REMARK 3 L TENSOR REMARK 3 L11: 4.3395 L22: 0.0884 REMARK 3 L33: 1.7620 L12: -0.2762 REMARK 3 L13: 1.7803 L23: -0.2794 REMARK 3 S TENSOR REMARK 3 S11: 0.1852 S12: -0.1112 S13: -0.5312 REMARK 3 S21: 0.0721 S22: -0.0344 S23: 0.0984 REMARK 3 S31: 0.5953 S32: -0.1005 S33: -0.2056 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 3QFL COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-FEB-11. REMARK 100 THE RCSB ID CODE IS RCSB063582. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 4.6 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) : 0.9767 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE-CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8809 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.997 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.800 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) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 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: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE TRIHYDRATE(NAAC), REMARK 280 2.0M SODIUM FORMATE(NACOOH), PH 4.6, VAPOR DIFFUSION, HANGING REMARK 280 DROP , TEMPERATURE 298K 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 48.73100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.13400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.73100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 15.13400 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -88.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 194.92400 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 60.53600 REMARK 350 BIOMT3 2 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 LYS A 91 REMARK 465 SER A 92 REMARK 465 ASP A 93 REMARK 465 ASP A 94 REMARK 465 ASN A 95 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 ASP A 59 -162.00 -124.88 REMARK 500 REMARK 500 REMARK: NULL DBREF 3QFL A 7 120 UNP Q6WWJ4 Q6WWJ4_HORVU 7 120 SEQADV 3QFL ALA A 6 UNP Q6WWJ4 EXPRESSION TAG SEQADV 3QFL GLU A 41 UNP Q6WWJ4 ASP 41 CONFLICT SEQRES 1 A 115 ALA ALA ILE SER ASN LEU ILE PRO LYS LEU GLY GLU LEU SEQRES 2 A 115 LEU THR GLU GLU PHE LYS LEU HIS LYS GLY VAL LYS LYS SEQRES 3 A 115 ASN ILE GLU ASP LEU GLY LYS GLU LEU GLU SER MSE ASN SEQRES 4 A 115 ALA ALA LEU ILE LYS ILE GLY GLU VAL PRO ARG GLU GLN SEQRES 5 A 115 LEU ASP SER GLN ASP LYS LEU TRP ALA ASP GLU VAL ARG SEQRES 6 A 115 GLU LEU SER TYR VAL ILE GLU ASP VAL VAL ASP LYS PHE SEQRES 7 A 115 LEU VAL GLN VAL ASP GLY ILE LYS SER ASP ASP ASN ASN SEQRES 8 A 115 ASN LYS PHE LYS GLY LEU MSE LYS ARG THR THR GLU LEU SEQRES 9 A 115 LEU LYS LYS VAL LYS HIS LYS HIS GLY ILE ALA MODRES 3QFL MSE A 43 MET SELENOMETHIONINE MODRES 3QFL MSE A 103 MET SELENOMETHIONINE HET MSE A 43 8 HET MSE A 103 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 2 HOH *69(H2 O) HELIX 1 1 ASN A 10 GLY A 51 1 42 HELIX 2 2 GLU A 52 VAL A 53 5 2 HELIX 3 3 PRO A 54 LEU A 58 5 5 HELIX 4 4 ASP A 59 ILE A 90 1 32 HELIX 5 5 ASN A 96 HIS A 117 1 22 LINK C SER A 42 N MSE A 43 1555 1555 1.33 LINK C MSE A 43 N ASN A 44 1555 1555 1.33 LINK C LEU A 102 N MSE A 103 1555 1555 1.33 LINK C MSE A 103 N LYS A 104 1555 1555 1.33 CRYST1 97.462 30.268 38.052 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 0.010260 0.000000 0.000000 0.00000 SCALE2 0.000000 0.033038 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026280 0.00000