HEADER TOXIN 22-APR-02 1LJP TITLE CRYSTAL STRUCTURE OF BETA-CINNAMOMIN ELICITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-ELICITIN CINNAMOMIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PHYTOPHTHORA CINNAMOMI; SOURCE 3 ORGANISM_TAXID: 4785; SOURCE 4 GENE: CIN1B; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: SMD1168; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PIC9K KEYWDS ELICITIN, STEROL CARRIER PROTEIN, PHYTOPATHOGEN, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR M.L.RODRIGUES,M.ARCHER,P.MARTEL,A.JACQUET,A.CRAVADOR,M.A.CARRONDO REVDAT 3 16-AUG-23 1LJP 1 REMARK REVDAT 2 24-FEB-09 1LJP 1 VERSN REVDAT 1 31-JUL-02 1LJP 0 JRNL AUTH M.L.RODRIGUES,M.ARCHER,P.MARTEL,A.JACQUET,A.CRAVADOR, JRNL AUTH 2 M.A.CARRONDO JRNL TITL STRUCTURE OF BETA-CINNAMOMIN, A PROTEIN TOXIC TO SOME PLANT JRNL TITL 2 SPECIES. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 58 1314 2002 JRNL REFN ISSN 0907-4449 JRNL PMID 12136143 JRNL DOI 10.1107/S0907444902010107 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.ARCHER,M.L.RODRIGUES,M.AURELIO,R.BIEMANS,A.CRAVADOR, REMARK 1 AUTH 2 M.A.CARRONDO REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY DIFFRACTION ANALYSIS REMARK 1 TITL 2 OF BETA-CINNAMOMIN, AN ELICITIN SECRETED BY THE REMARK 1 TITL 3 PHYTOPATHOGENIC FUNGUS PHYTOPHTHORA CINNAMOMIN REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 56 363 2000 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444900000366 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.DUCLOS,A.FAUCONNIER,A.C.COELHO,A.BOLLEN,A.CRAVADOR, REMARK 1 AUTH 2 E.GODFROID REMARK 1 TITL IDENTIFICATION OF AN ELICITIN GENE CLUSTER IN PHYTOPHTHORA REMARK 1 TITL 2 CINNAMOMI REMARK 1 REF DNA SEQ. V. 9 231 1998 REMARK 1 REFN ISSN 1042-5179 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.3 REMARK 3 NUMBER OF REFLECTIONS : 16756 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 SET) : 0.198 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 848 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1469 REMARK 3 BIN R VALUE (WORKING SET) : 0.2530 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 0.05 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 90 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1428 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 201 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.75600 REMARK 3 B22 (A**2) : -0.77600 REMARK 3 B33 (A**2) : 0.02000 REMARK 3 B12 (A**2) : -2.39100 REMARK 3 B13 (A**2) : 2.41100 REMARK 3 B23 (A**2) : 1.37900 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : 0.13 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.004 REMARK 3 BOND ANGLES (DEGREES) : 1.043 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.09 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.652 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.810 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.271 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.497 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.147 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.59 REMARK 3 BSOL : 94.02 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LJP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-APR-02. REMARK 100 THE DEPOSITION ID IS D_1000016003. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAR-00 REMARK 200 TEMPERATURE (KELVIN) : 115 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : ENRAF-NONIUS FR571 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16756 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 21.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.3 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.03600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.12100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 10.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1BEO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, BUTANOL, AMMONIUM SULFATE, REMARK 280 TRIS-HCL, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 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 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 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 67 77.01 43.78 REMARK 500 REMARK 500 REMARK: NULL DBREF 1LJP A 1 98 UNP P15569 ELIB_PHYCI 1 98 DBREF 1LJP B 1 98 UNP P15569 ELIB_PHYCI 1 98 SEQRES 1 A 98 THR ALA CYS THR ALA THR GLN GLN THR ALA ALA TYR LYS SEQRES 2 A 98 THR LEU VAL SER ILE LEU SER GLU SER SER PHE SER GLN SEQRES 3 A 98 CYS SER LYS ASP SER GLY TYR SER MET LEU THR ALA THR SEQRES 4 A 98 ALA LEU PRO THR ASN ALA GLN TYR LYS LEU MET CYS ALA SEQRES 5 A 98 SER THR ALA CYS ASN THR MET ILE LYS LYS ILE VAL ALA SEQRES 6 A 98 LEU ASN PRO PRO ASP CYS ASP LEU THR VAL PRO THR SER SEQRES 7 A 98 GLY LEU VAL LEU ASP VAL TYR THR TYR ALA ASN GLY PHE SEQRES 8 A 98 SER SER LYS CYS ALA SER LEU SEQRES 1 B 98 THR ALA CYS THR ALA THR GLN GLN THR ALA ALA TYR LYS SEQRES 2 B 98 THR LEU VAL SER ILE LEU SER GLU SER SER PHE SER GLN SEQRES 3 B 98 CYS SER LYS ASP SER GLY TYR SER MET LEU THR ALA THR SEQRES 4 B 98 ALA LEU PRO THR ASN ALA GLN TYR LYS LEU MET CYS ALA SEQRES 5 B 98 SER THR ALA CYS ASN THR MET ILE LYS LYS ILE VAL ALA SEQRES 6 B 98 LEU ASN PRO PRO ASP CYS ASP LEU THR VAL PRO THR SER SEQRES 7 B 98 GLY LEU VAL LEU ASP VAL TYR THR TYR ALA ASN GLY PHE SEQRES 8 B 98 SER SER LYS CYS ALA SER LEU FORMUL 3 HOH *201(H2 O) HELIX 1 1 THR A 4 SER A 20 1 17 HELIX 2 2 GLU A 21 GLY A 32 1 12 HELIX 3 3 THR A 43 SER A 53 1 11 HELIX 4 4 SER A 53 LEU A 66 1 14 HELIX 5 5 ASP A 83 GLY A 90 1 8 HELIX 6 6 GLY A 90 LEU A 98 1 9 HELIX 7 7 THR B 4 SER B 20 1 17 HELIX 8 8 GLU B 21 GLY B 32 1 12 HELIX 9 9 THR B 43 SER B 53 1 11 HELIX 10 10 SER B 53 LEU B 66 1 14 HELIX 11 11 VAL B 84 GLY B 90 1 7 HELIX 12 12 GLY B 90 SER B 97 1 8 SHEET 1 A 2 LEU A 73 THR A 74 0 SHEET 2 A 2 VAL A 81 LEU A 82 -1 O LEU A 82 N LEU A 73 SHEET 1 B 2 ASP B 72 THR B 74 0 SHEET 2 B 2 VAL B 81 ASP B 83 -1 O LEU B 82 N LEU B 73 SSBOND 1 CYS A 3 CYS A 71 1555 1555 2.03 SSBOND 2 CYS A 27 CYS A 56 1555 1555 2.04 SSBOND 3 CYS A 51 CYS A 95 1555 1555 2.02 SSBOND 4 CYS B 3 CYS B 71 1555 1555 2.03 SSBOND 5 CYS B 27 CYS B 56 1555 1555 2.04 SSBOND 6 CYS B 51 CYS B 95 1555 1555 2.02 CRYST1 31.850 36.910 43.930 77.64 86.67 79.55 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 0.031397 -0.005791 -0.000640 0.00000 SCALE2 0.000000 0.027550 -0.005838 0.00000 SCALE3 0.000000 0.000000 0.023308 0.00000