HEADER LIPID TRANSFER PROTEIN 25-SEP-98 1BWO TITLE THE CRYSTAL STRUCTURE OF WHEAT NON-SPECIFIC TRANSFER PROTEIN COMPLEXED TITLE 2 WITH TWO MOLECULES OF PHOSPHOLIPID AT 2.1 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NONSPECIFIC LIPID-TRANSFER PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NS-LTP1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRITICUM AESTIVUM; SOURCE 3 ORGANISM_COMMON: BREAD WHEAT; SOURCE 4 ORGANISM_TAXID: 4565; SOURCE 5 ORGAN: SEED KEYWDS LIPID TRANSFER PROTEIN, WHEAT, LIPID BINDING EXPDTA X-RAY DIFFRACTION AUTHOR D.CHARVOLIN,C.COHEN-ADDAD,E.PEBAY-PEYROULA REVDAT 4 30-MAY-18 1BWO 1 REMARK SSBOND ATOM REVDAT 3 24-FEB-09 1BWO 1 VERSN REVDAT 2 01-APR-03 1BWO 1 JRNL REVDAT 1 27-AUG-99 1BWO 0 JRNL AUTH D.CHARVOLIN,J.P.DOULIEZ,D.MARION,C.COHEN-ADDAD, JRNL AUTH 2 E.PEBAY-PEYROULA JRNL TITL THE CRYSTAL STRUCTURE OF A WHEAT NONSPECIFIC LIPID TRANSFER JRNL TITL 2 PROTEIN (NS-LTP1) COMPLEXED WITH TWO MOLECULES OF JRNL TITL 3 PHOSPHOLIPID AT 2.1 A RESOLUTION. JRNL REF EUR.J.BIOCHEM. V. 264 562 1999 JRNL REFN ISSN 0014-2956 JRNL PMID 10491104 JRNL DOI 10.1046/J.1432-1327.1999.00667.X REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.841 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1000000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0010 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 85.0 REMARK 3 NUMBER OF REFLECTIONS : 8525 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) : 0.163 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 1334 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 124 REMARK 3 SOLVENT ATOMS : 145 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.50 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.050 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BWO 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_1000172124. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : MAY-97 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9208 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 79.0 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04800 REMARK 200 FOR THE DATA SET : 12.6000 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.6 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 20.55500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 35.31500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.44500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 35.31500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.55500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.44500 REMARK 290 SMTRY3 4 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 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 121 DISTANCE = 7.78 ANGSTROMS REMARK 525 HOH A 144 DISTANCE = 6.31 ANGSTROMS REMARK 525 HOH A 155 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH B 131 DISTANCE = 8.08 ANGSTROMS REMARK 525 HOH B 159 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH B 164 DISTANCE = 7.69 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LPC A 91 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LPC A 92 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LPC B 91 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LPC B 92 DBREF 1BWO A 1 90 UNP P24296 NLTP1_WHEAT 24 113 DBREF 1BWO B 1 90 UNP P24296 NLTP1_WHEAT 24 113 SEQRES 1 A 90 ILE ASP CYS GLY HIS VAL ASP SER LEU VAL ARG PRO CYS SEQRES 2 A 90 LEU SER TYR VAL GLN GLY GLY PRO GLY PRO SER GLY GLN SEQRES 3 A 90 CYS CYS ASP GLY VAL LYS ASN LEU HIS ASN GLN ALA ARG SEQRES 4 A 90 SER GLN SER ASP ARG GLN SER ALA CYS ASN CYS LEU LYS SEQRES 5 A 90 GLY ILE ALA ARG GLY ILE HIS ASN LEU ASN GLU ASP ASN SEQRES 6 A 90 ALA ARG SER ILE PRO PRO LYS CYS GLY VAL ASN LEU PRO SEQRES 7 A 90 TYR THR ILE SER LEU ASN ILE ASP CYS SER ARG VAL SEQRES 1 B 90 ILE ASP CYS GLY HIS VAL ASP SER LEU VAL ARG PRO CYS SEQRES 2 B 90 LEU SER TYR VAL GLN GLY GLY PRO GLY PRO SER GLY GLN SEQRES 3 B 90 CYS CYS ASP GLY VAL LYS ASN LEU HIS ASN GLN ALA ARG SEQRES 4 B 90 SER GLN SER ASP ARG GLN SER ALA CYS ASN CYS LEU LYS SEQRES 5 B 90 GLY ILE ALA ARG GLY ILE HIS ASN LEU ASN GLU ASP ASN SEQRES 6 B 90 ALA ARG SER ILE PRO PRO LYS CYS GLY VAL ASN LEU PRO SEQRES 7 B 90 TYR THR ILE SER LEU ASN ILE ASP CYS SER ARG VAL HET LPC A 91 31 HET LPC A 92 31 HET LPC B 91 31 HET LPC B 92 31 HETNAM LPC [1-MYRISTOYL-GLYCEROL-3-YL]PHOSPHONYLCHOLINE FORMUL 3 LPC 4(C22 H47 N O7 P 1+) FORMUL 7 HOH *145(H2 O) HELIX 1 H1 CYS A 3 VAL A 17 1 15 HELIX 2 H2 GLY A 25 GLN A 37 1 13 HELIX 3 H3 GLN A 41 ALA A 55 1 15 HELIX 4 H4 GLU A 63 CYS A 73 1 11 HELIX 5 H5 CYS B 3 VAL B 17 1 15 HELIX 6 H6 GLY B 25 GLN B 37 1 13 HELIX 7 H7 GLN B 41 ALA B 55 1 15 HELIX 8 H8 GLU B 63 CYS B 73 1 11 SSBOND 1 CYS A 3 CYS A 50 1555 1555 2.03 SSBOND 2 CYS A 13 CYS A 27 1555 1555 2.04 SSBOND 3 CYS A 28 CYS A 73 1555 1555 2.03 SSBOND 4 CYS A 48 CYS A 87 1555 1555 2.04 SSBOND 5 CYS B 3 CYS B 50 1555 1555 2.03 SSBOND 6 CYS B 13 CYS B 27 1555 1555 2.03 SSBOND 7 CYS B 28 CYS B 73 1555 1555 2.03 SSBOND 8 CYS B 48 CYS B 87 1555 1555 2.03 CISPEP 1 GLY A 22 PRO A 23 0 0.43 CISPEP 2 GLY B 22 PRO B 23 0 -0.20 SITE 1 AC1 11 HIS A 35 ARG A 44 HIS A 59 ASN A 60 SITE 2 AC1 11 ALA A 66 LEU A 77 TYR A 79 SER A 82 SITE 3 AC1 11 LEU A 83 VAL A 90 HOH A 133 SITE 1 AC2 16 ASP A 7 VAL A 10 ARG A 11 LEU A 14 SITE 2 AC2 16 ILE A 54 GLY A 57 ILE A 58 HIS A 59 SITE 3 AC2 16 PRO A 78 HOH A 165 ASP B 64 ASP B 86 SITE 4 AC2 16 ARG B 89 HOH B 98 HOH B 121 HOH B 124 SITE 1 AC3 12 ARG A 39 SER A 40 GLN A 41 ARG A 44 SITE 2 AC3 12 HIS B 35 ARG B 44 ALA B 66 ASN B 76 SITE 3 AC3 12 LEU B 77 TYR B 79 SER B 82 VAL B 90 SITE 1 AC4 8 HOH A 159 ASP B 7 VAL B 10 ARG B 11 SITE 2 AC4 8 ILE B 54 ILE B 58 ILE B 81 HOH B 94 CRYST1 41.110 56.890 70.630 90.00 90.00 90.00 P 21 21 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 0.024325 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017578 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014158 0.00000