HEADER CYTOSKELETON 02-DEC-97 1A0K TITLE PROFILIN I FROM ARABIDOPSIS THALIANA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROFILIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 STRAIN: COLUMBIA; SOURCE 6 CELL_LINE: BL21; SOURCE 7 CELLULAR_LOCATION: CELLULAR CYTOSKELETON; SOURCE 8 GENE: PFN; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: VIRUS; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PET KEYWDS PROFILIN, CYTOSKELETON, ACTIN-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR R.SHIGETA JUNIOR,D.HUDDLER,U.LINDBERG,C.E.SCHUTT REVDAT 5 22-MAY-24 1A0K 1 REMARK REVDAT 4 02-AUG-23 1A0K 1 REMARK REVDAT 3 24-FEB-09 1A0K 1 VERSN REVDAT 2 01-APR-03 1A0K 1 JRNL REVDAT 1 18-MAR-98 1A0K 0 JRNL AUTH K.S.THORN,H.E.CHRISTENSEN,R.SHIGETA,D.HUDDLER,L.SHALABY, JRNL AUTH 2 U.LINDBERG,N.H.CHUA,C.E.SCHUTT JRNL TITL THE CRYSTAL STRUCTURE OF A MAJOR ALLERGEN FROM PLANTS. JRNL REF STRUCTURE V. 5 19 1997 JRNL REFN ISSN 0969-2126 JRNL PMID 9016723 JRNL DOI 10.1016/S0969-2126(97)00163-9 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.E.CHRISTENSEN,S.RAMACHANDRAN,C.T.TAN,U.SURANA,C.H.DONG, REMARK 1 AUTH 2 N.H.CHUA REMARK 1 TITL ARABIDOPSIS PROFILINS ARE FUNCTIONALLY SIMILAR TO YEAST REMARK 1 TITL 2 PROFILINS: IDENTIFICATION OF A VASCULAR BUNDLE-SPECIFIC REMARK 1 TITL 3 PROFILIN AND A POLLEN-SPECIFIC PROFILIN REMARK 1 REF PLANT J. V. 10 269 1996 REMARK 1 REFN ISSN 0960-7412 REMARK 1 REFERENCE 2 REMARK 1 AUTH E.S.CEDERGREN-ZEPPEZAUER,N.C.GOONESEKERE,M.D.ROZYCKI, REMARK 1 AUTH 2 J.C.MYSLIK,Z.DAUTER,U.LINDBERG,C.E.SCHUTT REMARK 1 TITL CRYSTALLIZATION AND STRUCTURE DETERMINATION OF BOVINE REMARK 1 TITL 2 PROFILIN AT 2.0 A RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 240 459 1994 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 3 REMARK 1 AUTH C.E.SCHUTT,J.C.MYSLIK,M.D.ROZYCKI,N.C.GOONESEKERE,U.LINDBERG REMARK 1 TITL THE STRUCTURE OF CRYSTALLINE PROFILIN-BETA-ACTIN REMARK 1 REF NATURE V. 365 810 1993 REMARK 1 REFN ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.0 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0001 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 5530 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : DURING REFINEMENT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.000 REMARK 3 FREE R VALUE TEST SET COUNT : 418 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 : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.30 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.15 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 388 REMARK 3 BIN R VALUE (WORKING SET) : 0.2104 REMARK 3 BIN FREE R VALUE : 0.2483 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.84 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 33 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 : 995 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 26 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 4.02 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02268 REMARK 3 B22 (A**2) : -0.01178 REMARK 3 B33 (A**2) : 0.09292 REMARK 3 B12 (A**2) : 0.00818 REMARK 3 B13 (A**2) : -0.01218 REMARK 3 B23 (A**2) : 0.00154 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.12 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : 6.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.18 REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.907 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.65 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.568 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 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : SOLVPAR.PRO REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1A0K 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_1000170242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : SEP-96 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 5.0 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 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : YALE MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5530 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.4 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : 0.06600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 0.2176 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 55.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.50 REMARK 200 R MERGE FOR SHELL (I) : 0.12000 REMARK 200 R SYM FOR SHELL (I) : 0.12900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 10.13 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.0 REMARK 200 STARTING MODEL: PDB ENTRY 3NUL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 22.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M AMMONIUM SULFATE, 0.1 M CITRATE REMARK 280 PH 5.0, 10 MM DTT, 0.2 MM EDTA 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 21.52500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 29.93500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.76500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 29.93500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.52500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.76500 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 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 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 MET A 1 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 H GLY A 80 H1 HOH A 148 0.89 REMARK 500 HG SER A 2 H SER A 5 1.21 REMARK 500 H LEU A 20 H2 HOH A 134 1.32 REMARK 500 OD2 ASP A 124 H1 HOH A 154 1.55 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 GLU A 16 33.46 75.75 REMARK 500 THR A 97 -165.72 -105.81 REMARK 500 ALA A 100 -168.02 -123.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: PLY REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: BIOLOGICAL RELEVANCE NOT DETERMINED. REMARK 800 REMARK 800 SITE_IDENTIFIER: GOL REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: BIOLOGICAL RELEVANCE NOT DETERMINED. REMARK 800 REMARK 800 SITE_IDENTIFIER: AIN REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: POLYMORPHIC BETWEEN SPECIES. DBREF 1A0K A 1 131 UNP Q42449 PROF1_ARATH 1 131 SEQRES 1 A 131 MET SER TRP GLN SER TYR VAL ASP ASP HIS LEU MET CYS SEQRES 2 A 131 ASP VAL GLU GLY ASN HIS LEU THR ALA ALA ALA ILE LEU SEQRES 3 A 131 GLY GLN ASP GLY SER VAL TRP ALA GLN SER ALA LYS PHE SEQRES 4 A 131 PRO GLN LEU LYS PRO GLN GLU ILE ASP GLY ILE LYS LYS SEQRES 5 A 131 ASP PHE GLU GLU PRO GLY PHE LEU ALA PRO THR GLY LEU SEQRES 6 A 131 PHE LEU GLY GLY GLU LYS TYR MET VAL ILE GLN GLY GLU SEQRES 7 A 131 GLN GLY ALA VAL ILE ARG GLY LYS LYS GLY PRO GLY GLY SEQRES 8 A 131 VAL THR ILE LYS LYS THR ASN GLN ALA LEU VAL PHE GLY SEQRES 9 A 131 PHE TYR ASP GLU PRO MET THR GLY GLY GLN CYS ASN LEU SEQRES 10 A 131 VAL VAL GLU ARG LEU GLY ASP TYR LEU ILE GLU SER GLU SEQRES 11 A 131 LEU FORMUL 2 HOH *26(H2 O) HELIX 1 H1 TRP A 3 CYS A 13 1HAS A SINGLE I+5 TURN 11 HELIX 2 H2 PRO A 44 GLU A 55 1 12 HELIX 3 H4 GLY A 112 GLU A 128 1SEE REMARK 650 17 SHEET 1 A 6 MET A 73 ILE A 75 0 SHEET 2 A 6 VAL A 82 LYS A 87 -1 N LYS A 86 O MET A 73 SHEET 3 A 6 GLY A 90 LYS A 96 -1 N ILE A 94 O ILE A 83 SHEET 4 A 6 ALA A 100 ASP A 107 -1 N TYR A 106 O GLY A 91 SHEET 5 A 6 ALA A 22 GLY A 27 -1 N LEU A 26 O LEU A 101 SHEET 6 A 6 VAL A 32 GLN A 35 -1 N ALA A 34 O ILE A 25 SHEET 1 B 2 LEU A 65 LEU A 67 0 SHEET 2 B 2 GLU A 70 TYR A 72 -1 N TYR A 72 O LEU A 65 CISPEP 1 GLU A 108 PRO A 109 0 -0.03 SITE 1 PLY 6 TRP A 3 TYR A 6 ILE A 25 TRP A 33 SITE 2 PLY 6 TYR A 125 LEU A 126 SITE 1 GOL 17 ASP A 53 PHE A 54 PRO A 57 GLY A 58 SITE 2 GOL 17 PHE A 59 ALA A 61 PRO A 62 THR A 63 SITE 3 GOL 17 GLY A 64 LEU A 65 ILE A 75 GLY A 77 SITE 4 GOL 17 GLU A 78 GLN A 79 GLY A 80 VAL A 82 SITE 5 GOL 17 ILE A 83 SITE 1 AIN 14 ALA A 61 PRO A 62 MET A 73 GLN A 76 SITE 2 AIN 14 VAL A 82 ARG A 84 LYS A 86 LYS A 87 SITE 3 AIN 14 THR A 111 GLY A 112 GLY A 113 ASN A 116 SITE 4 AIN 14 LEU A 117 ARG A 121 CRYST1 43.050 43.530 59.870 90.00 90.00 90.00 P 21 21 21 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 0.023229 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022973 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016703 0.00000