HEADER FUNGAL TOXIC ELICITOR 05-OCT-98 1BXM TITLE ENGINEERED BETA-CRYPTOGEIN COMPLEXED WITH ERGOSTEROL COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-CRYPTOGEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA-ELICITIN OF PHYTOPHTHORA CRYPTOGEA; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PHYTOPHTHORA CRYPTOGEA; SOURCE 3 ORGANISM_TAXID: 4786; SOURCE 4 CELL_LINE: PICHIA PASTORIS; SOURCE 5 GENE: CRY (MUTATED LYS 13 HIS); SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PHILS1; SOURCE 9 EXPRESSION_SYSTEM_GENE: CRY (MUTATED LYS 13 HIS); SOURCE 10 OTHER_DETAILS: N-TERMINAL ARGININE INCORPORATION NON-BIOLOGICAL SOURCE 11 SEQUENCE KEYWDS FUNGAL TOXIC ELICITOR MUTANT, ELICITIN, PHYTOPHTHORA, STEROL, PLANT KEYWDS 2 PATHOGEN, FUNGAL TOXIC ELICITOR EXPDTA X-RAY DIFFRACTION AUTHOR G.BOISSY,S.BRUNIE REVDAT 5 09-AUG-23 1BXM 1 REMARK REVDAT 4 03-NOV-21 1BXM 1 REMARK SEQADV ATOM REVDAT 3 24-FEB-09 1BXM 1 VERSN REVDAT 2 01-APR-03 1BXM 1 JRNL REVDAT 1 15-JUN-99 1BXM 0 JRNL AUTH G.BOISSY,M.O'DONOHUE,O.GAUDEMER,V.PEREZ,J.C.PERNOLLET, JRNL AUTH 2 S.BRUNIE JRNL TITL THE 2.1 A STRUCTURE OF AN ELICITIN-ERGOSTEROL COMPLEX: A JRNL TITL 2 RECENT ADDITION TO THE STEROL CARRIER PROTEIN FAMILY. JRNL REF PROTEIN SCI. V. 8 1191 1999 JRNL REFN ISSN 0961-8368 JRNL PMID 10386869 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.BOISSY,E.DE LA FORTELLE,R.KAHN,J.C.HUET,G.BRICOGNE, REMARK 1 AUTH 2 J.C.PERNOLLET,S.BRUNIE REMARK 1 TITL CRYSTAL STRUCTURE OF A FUNGAL ELICITOR SECRETED BY REMARK 1 TITL 2 PHYTOPHTHORA CRYPTOGEA, A MEMBER OF A NOVEL CLASS OF PLANT REMARK 1 TITL 3 NECROTIC PROTEINS REMARK 1 REF STRUCTURE V. 4 1429 1996 REMARK 1 REFN ISSN 0969-2126 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.J.O'DONOHUE,G.BOISSY,J.C.HUET,C.NESPOULOUS,S.BRUNIE, REMARK 1 AUTH 2 J.C.PERNOLLET REMARK 1 TITL OVEREXPRESSION IN PICHIA PASTORIS AND CRYSTALLIZATION OF AN REMARK 1 TITL 2 ELICITOR PROTEIN SECRETED BY THE PHYTOPATHOGENIC FUNGUS, REMARK 1 TITL 3 PHYTOPHTHORA CRYPTOGEA REMARK 1 REF PROTEIN EXPR.PURIF. V. 8 254 1996 REMARK 1 REFN ISSN 1046-5928 REMARK 1 REFERENCE 3 REMARK 1 AUTH J.P.GUILLOTEAU,C.NESPOULOUS,J.C.HUET,F.BEAUVAIS, REMARK 1 AUTH 2 J.C.PERNOLLET,S.BRUNIE REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY DIFFRACTION STUDIES OF REMARK 1 TITL 2 BETA-CRYPTOGEIN, A TOXIC ELICITIN SECRETED BY THE REMARK 1 TITL 3 PHYTOPATHOGENIC FUNGUS PHYTOPHTHORA CRYPTOGEA REMARK 1 REF J.MOL.BIOL. V. 229 564 1993 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 100000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0010 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.8 REMARK 3 NUMBER OF REFLECTIONS : 4921 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) : 0.189 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 224 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.015 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.28 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 629 REMARK 3 BIN R VALUE (WORKING SET) : 0.1570 REMARK 3 BIN FREE R VALUE : 0.2670 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 26 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.052 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 726 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 57 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.60 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.06 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) : 0.28 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.25 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.650 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.460 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.020 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.390 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.970 ; 2.500 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 : ERG.PAR REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : TOPH19.SOL REMARK 3 TOPOLOGY FILE 3 : ERG.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESOLUTION-DEPENDENT WEIGHTING SCHEME REMARK 3 USED. REMARK 4 REMARK 4 1BXM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172136. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : FEB-96 REMARK 200 TEMPERATURE (KELVIN) : 277 REMARK 200 PH : 4.5 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 : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE(002) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ROTAVATA, AGROVATA, XDS REMARK 200 DATA SCALING SOFTWARE : XDS, CCP4 (AGROVATA, ROTAVATA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5370 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04600 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.851 REMARK 200 STARTING MODEL: THE REFINED 2.2 ANGSTROMS RESOLUTION STRUCTURE OF REMARK 200 THE WILD-TYPE BETA-CRYPTOGEIN (1BEO). THE ERGOSTEROL MOLECULE REMARK 200 WAS CONSTRUCTED USING, AS A TEMPLATE, THE COORDINATES OF THE REMARK 200 CHOLESTERYL LINOLEATE MOLECULE COMPLEXED TO THE CHOLESTEROL REMARK 200 ESTERASE (1CLE). REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 4.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 32.85000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 32.85000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 15.56500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.61500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 15.56500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.61500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 32.85000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 15.56500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.61500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 32.85000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 15.56500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 47.61500 REMARK 290 SMTRY3 8 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 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 31.13000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 32.85000 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 101 LIES ON A SPECIAL POSITION. 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 THR A 6 OG1 CG2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ERG A 99 DBREF 1BXM A 3 98 UNP P15570 ELIB_PHYCR 23 118 SEQADV 1BXM HIS A 13 UNP P15570 LYS 33 ENGINEERED MUTATION SEQRES 1 A 99 ARG GLY THR CYS THR ALA THR GLN GLN THR ALA ALA TYR SEQRES 2 A 99 HIS THR LEU VAL SER ILE LEU SER ASP ALA SER PHE ASN SEQRES 3 A 99 GLN CYS SER THR ASP SER GLY TYR SER MET LEU THR ALA SEQRES 4 A 99 LYS ALA LEU PRO THR THR ALA GLN TYR LYS LEU MET CYS SEQRES 5 A 99 ALA SER THR ALA CYS ASN THR MET ILE LYS LYS ILE VAL SEQRES 6 A 99 THR LEU ASN PRO PRO ASN CYS ASP LEU THR VAL PRO THR SEQRES 7 A 99 SER GLY LEU VAL LEU ASN VAL TYR SER TYR ALA ASN GLY SEQRES 8 A 99 PHE SER ASN LYS CYS SER SER LEU HET ERG A 99 29 HETNAM ERG ERGOSTEROL FORMUL 2 ERG C28 H44 O FORMUL 3 HOH *57(H2 O) HELIX 1 1 ALA A 5 SER A 20 1 16 HELIX 2 2 ALA A 22 SER A 31 1 10 HELIX 3 3 THR A 44 ALA A 52 1 9 HELIX 4 4 THR A 54 THR A 65 1 12 HELIX 5 5 VAL A 84 ASN A 89 1 6 HELIX 6 6 PHE A 91 SER A 96 1 6 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 SSBOND 1 CYS A 3 CYS A 71 1555 1555 2.02 SSBOND 2 CYS A 27 CYS A 56 1555 1555 2.04 SSBOND 3 CYS A 51 CYS A 95 1555 1555 2.03 SITE 1 AC1 5 TYR A 12 VAL A 16 MET A 35 TYR A 47 SITE 2 AC1 5 HOH A 142 CRYST1 31.130 95.230 65.700 90.00 90.00 90.00 C 2 2 21 8 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 0.032123 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010501 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015221 0.00000