HEADER ACTIN BINDING PROTEIN 05-MAY-95 1PNE TITLE CRYSTALLIZATION AND STRUCTURE DETERMINATION OF BOVINE PROFILIN AT 2.0 TITLE 2 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROFILIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913 KEYWDS ACTIN BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.S.CEDERGREN-ZEPPEZAUER,N.C.W.GOONESEKERE,M.D.ROZYCKI,J.C.MYSLIK, AUTHOR 2 Z.DAUTER,U.LINDBERG,C.E.SCHUTT REVDAT 5 23-OCT-24 1PNE 1 LINK REVDAT 4 29-NOV-17 1PNE 1 HELIX REVDAT 3 24-FEB-09 1PNE 1 VERSN REVDAT 2 01-APR-03 1PNE 1 JRNL REVDAT 1 31-JUL-95 1PNE 0 JRNL AUTH E.S.CEDERGREN-ZEPPEZAUER,N.C.GOONESEKERE,M.D.ROZYCKI, JRNL AUTH 2 J.C.MYSLIK,Z.DAUTER,U.LINDBERG,C.E.SCHUTT JRNL TITL CRYSTALLIZATION AND STRUCTURE DETERMINATION OF BOVINE JRNL TITL 2 PROFILIN AT 2.0 A RESOLUTION. JRNL REF J.MOL.BIOL. V. 240 459 1994 JRNL REFN ISSN 0022-2836 JRNL PMID 8046751 JRNL DOI 10.1006/JMBI.1994.1461 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.D.ROZYCKI,J.C.MYSLIK,C.E.SCHUTT,U.LINDBERG REMARK 1 TITL STRUCTURAL ASPECTS OF ACTIN-BINDING PROTEINS REMARK 1 REF CURR.OPIN.STRUCT.BIOL. V. 6 87 1994 REMARK 1 REFN ISSN 0959-440X REMARK 1 REFERENCE 2 REMARK 1 AUTH C.E.SCHUTT,J.C.MYSLIK,M.D.ROZYCKI,N.C.W.GOONESEKERE, REMARK 1 AUTH 2 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 1 REFERENCE 3 REMARK 1 AUTH C.BJORKEGREN,M.ROZYCKI,C.E.SCHUTT,U.LINDBERG,R.KARLSSON REMARK 1 TITL MUTAGENESIS OF HUMAN PROFILIN LOCATES ITS REMARK 1 TITL 2 POLY(L-PROLINE)-BINDING SITE TO A HYDROPHOBIC PATCH OF REMARK 1 TITL 3 AROMATIC AMINO ACIDS REMARK 1 REF FEBS LETT. V. 333 123 1993 REMARK 1 REFN ISSN 0014-5793 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 7898 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL 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 : 1047 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 127 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.540 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.99 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: REMARK 3 RESIDUES ARE INCLUDED AT THE BEGINNING OF HELICES IF THEY REMARK 3 PARTICIPATE IN HYDROGEN BONDING AND ARE "PARTIALLY" REMARK 3 HELICAL, EVEN IF THE ENTIRE RESIDUE DOES NOT FIT HELICAL REMARK 3 CRITERIA. REMARK 4 REMARK 4 1PNE 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_1000175748. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 1993 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL 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) : NULL 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 : MOSFLM, CCP4 REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8239 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 3.560 REMARK 200 R MERGE (I) : 0.06600 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) : 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: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 34.57500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.29500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.57500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.29500 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 400 REMARK 400 COMPOUND REMARK 400 GAMMA-TURN AT RESIDUES 25 - 27 DOES NOT HAVE THE CANONICAL REMARK 400 I TO I+2 HYDROGEN BOND, SINCE CARBONYL O OF LYS 25 IS REMARK 400 HYDROGEN BONDED TO WATER MOLECULE 27. WATER MOLECULE 27 REMARK 400 IS BONDED TO WATER MOLECULE 28, WHICH IN TURN IS BOUND TO REMARK 400 THE CARBONYL O OF SER 27. THE INVOLVEMENT OF WATER 28 WAS REMARK 400 NOT DISCUSSED IN THE TEXT OR IN FIGURE 9 OF THE JRNL REMARK 400 REFERENCE. REMARK 400 REMARK 400 TURN T8 IS A TYPE I TURN AS JUDGED BY PHI-PSI ANGLES FOR REMARK 400 RESIDUES ALA 96 AND LYS 97. HOWEVER, THE NORMAL REMARK 400 I TO I+3 HYDROGEN BOND IS NOT MADE. INSTEAD, THE REMARK 400 CARBONYL OXYGEN OF THR 95 IS HYDROGEN BONDED TO THE REMARK 400 PHENOLIC HYDROXYL OF TYR 24. 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 26 -105.99 50.56 REMARK 500 LYS A 37 -143.57 -105.69 REMARK 500 SER A 56 -52.44 -123.09 REMARK 500 PHE A 83 17.40 57.37 REMARK 500 THR A 105 -164.87 -112.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 PROFILIN IS DESCRIBED IN JRNL REFERENCE AS HAVING A REMARK 700 6-MEMBERED BETA-SHEET WHICH SHARES A STRAND WITH A SECOND REMARK 700 2-MEMBERED SHEET. TO CONFORM WITH PDB GUIDELINES, THESE REMARK 700 SHEETS ARE COMBINED INTO A SINGLE 7-MEMBERED SHEET (SP1) REMARK 700 IN THIS FILE. STRAND NUMBERING ALSO DIFFERS FROM THE JRNL REMARK 700 REFERENCE. REMARK 700 RESIDUES TRP 31 AND ILE 73 ADOPT BETA-BULGE CONFORMATIONS. REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEQUENCE IDENTIFIERS ARE NUMBERED 1 THROUGH 139 FOR REMARK 999 STANDARD AMINO ACID RESIDUES. THE N-TERMINAL ACETYL REMARK 999 GROUP IS PLACED AT THE BEGINNING OF THE SEQUENCE AS REMARK 999 A SEPARATE RESIDUE (ACE) AND IS NUMBERED "0". DBREF 1PNE A 1 139 UNP P02584 PROF1_BOVIN 1 139 SEQRES 1 A 140 ACE ALA GLY TRP ASN ALA TYR ILE ASP ASN LEU MET ALA SEQRES 2 A 140 ASP GLY THR CYS GLN ASP ALA ALA ILE VAL GLY TYR LYS SEQRES 3 A 140 ASP SER PRO SER VAL TRP ALA ALA VAL PRO GLY LYS THR SEQRES 4 A 140 PHE VAL ASN ILE THR PRO ALA GLU VAL GLY ILE LEU VAL SEQRES 5 A 140 GLY LYS ASP ARG SER SER PHE PHE VAL ASN GLY LEU THR SEQRES 6 A 140 LEU GLY GLY GLN LYS CYS SER VAL ILE ARG ASP SER LEU SEQRES 7 A 140 LEU GLN ASP GLY GLU PHE THR MET ASP LEU ARG THR LYS SEQRES 8 A 140 SER THR GLY GLY ALA PRO THR PHE ASN ILE THR VAL THR SEQRES 9 A 140 MET THR ALA LYS THR LEU VAL LEU LEU MET GLY LYS GLU SEQRES 10 A 140 GLY VAL HIS GLY GLY MET ILE ASN LYS LYS CYS TYR GLU SEQRES 11 A 140 MET ALA SER HIS LEU ARG ARG SER GLN TYR HET ACE A 0 3 HETNAM ACE ACETYL GROUP FORMUL 1 ACE C2 H4 O FORMUL 2 HOH *127(H2 O) HELIX 1 H1 ASN A 4 ALA A 12 1 9 HELIX 2 H2 PRO A 44 VAL A 51 1 8 HELIX 3 H3 SER A 57 ASN A 61 1 5 HELIX 4 H4 GLY A 120 ARG A 136 1 17 SHEET 1 S1 7 SER A 29 ALA A 33 0 SHEET 2 S1 7 ASP A 18 GLY A 23 -1 N ILE A 21 O ALA A 32 SHEET 3 S1 7 LEU A 109 MET A 113 -1 N LEU A 111 O ALA A 20 SHEET 4 S1 7 PRO A 96 MET A 104 -1 N THR A 103 O VAL A 110 SHEET 5 S1 7 THR A 84 LYS A 90 -1 N MET A 85 O VAL A 102 SHEET 6 S1 7 GLN A 68 ASP A 75 -1 O ARG A 74 N ASP A 86 SHEET 7 S1 7 LEU A 63 LEU A 65 -1 O LEU A 63 N CYS A 70 LINK C ACE A 0 N ALA A 1 1555 1555 1.34 CRYST1 69.150 34.590 52.490 90.00 92.56 90.00 C 1 2 1 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 0.014461 0.000000 0.000647 0.00000 SCALE2 0.000000 0.028910 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019070 0.00000 HETATM 1 C ACE A 0 19.512 16.110 15.128 1.00 18.09 C HETATM 2 O ACE A 0 18.511 16.299 14.408 1.00 17.10 O HETATM 3 CH3 ACE A 0 19.591 14.897 16.070 1.00 17.24 C