PDB Short entry for 1PRQ HEADER CONTRACTILE PROTEIN 18-AUG-97 1PRQ TITLE ACANTHAMOEBA CASTELLANII PROFILIN IA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROFILIN IA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACANTHAMOEBA CASTELLANII; SOURCE 3 ORGANISM_TAXID: 5755; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ACTIN-BINDING PROTEIN, CONTRACTILE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.A.FEDOROV,T.D.POLLARD,M.WAY,E.E.LATTMAN,S.C.ALMO REVDAT 6 09-AUG-23 1PRQ 1 REMARK REVDAT 5 29-NOV-17 1PRQ 1 HELIX REVDAT 4 24-FEB-09 1PRQ 1 VERSN REVDAT 3 15-FEB-01 1PRQ 1 HEADER REVDAT 2 29-FEB-00 1PRQ 1 TITLE REVDAT 1 24-DEC-97 1PRQ 0 JRNL AUTH S.LIU,A.A.FEDOROV,T.D.POLLARD,E.E.LATTMAN,S.C.ALMO, JRNL AUTH 2 K.A.MAGNUS JRNL TITL CRYSTAL PACKING INDUCES A CONFORMATIONAL CHANGE IN JRNL TITL 2 PROFILIN-I FROM ACANTHAMOEBA CASTELLANII. JRNL REF J.STRUCT.BIOL. V. 123 22 1998 JRNL REFN ISSN 1047-8477 JRNL PMID 9774541 JRNL DOI 10.1006/JSBI.1998.4009 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.A.FEDOROV,T.BALL,N.M.MAHONEY,R.VALENTA,S.C.ALMO REMARK 1 TITL THE MOLECULAR BASIS FOR ALLERGEN CROSS-REACTIVITY: CRYSTAL REMARK 1 TITL 2 STRUCTURE AND IGE-EPITOPE MAPPING OF BIRCH POLLEN PROFILIN REMARK 1 REF STRUCTURE V. 5 33 1997 REMARK 1 REFN ISSN 0969-2126 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.A.FEDOROV,K.A.MAGNUS,M.H.GRAUPE,E.E.LATTMAN,T.D.POLLARD, REMARK 1 AUTH 2 S.C.ALMO REMARK 1 TITL X-RAY STRUCTURES OF ISOFORMS OF THE ACTIN-BINDING PROTEIN REMARK 1 TITL 2 PROFILIN THAT DIFFER IN THEIR AFFINITY FOR REMARK 1 TITL 3 PHOSPHATIDYLINOSITOL PHOSPHATES REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 91 8636 1994 REMARK 1 REFN ISSN 0027-8424 REMARK 1 REFERENCE 3 REMARK 1 AUTH S.C.ALMO,T.D.POLLARD,M.WAY,E.E.LATTMAN REMARK 1 TITL PURIFICATION, CHARACTERIZATION AND CRYSTALLIZATION OF REMARK 1 TITL 2 ACANTHAMOEBA PROFILIN EXPRESSED IN ESCHERICHIA COLI REMARK 1 REF J.MOL.BIOL. V. 236 950 1994 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 4 REMARK 1 AUTH T.D.POLLARD,S.ALMO,S.QUIRK,V.VINSON,E.E.LATTMAN REMARK 1 TITL STRUCTURE OF ACTIN BINDING PROTEINS: INSIGHTS ABOUT FUNCTION REMARK 1 TITL 2 AT ATOMIC RESOLUTION REMARK 1 REF ANNU.REV.CELL BIOL. V. 10 207 1994 REMARK 1 REFN ISSN 0743-4634 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROFFT REMARK 3 AUTHORS : KONNERT,HENDRICKSON,FINZEL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 82.1 REMARK 3 NUMBER OF REFLECTIONS : 3117 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 + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.141 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 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.1430 REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 916 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 56 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) : 0.23 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.009 ; 0.018 REMARK 3 ANGLE DISTANCE (A) : 0.028 ; 0.030 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.033 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.008 ; 0.020 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.124 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.188 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.193 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.163 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 1.300 ; 2.000 REMARK 3 STAGGERED (DEGREES) : 16.700; 10.000 REMARK 3 TRANSVERSE (DEGREES) : 28.300; 10.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.852 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.457 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.680 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.773 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PRQ 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_1000175810. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 1991 REMARK 200 TEMPERATURE (KELVIN) : 290 REMARK 200 PH : 8.0 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 : NULL 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 : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 3255 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 43.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 82.8 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.9000 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 <I/SIGMA(I)> 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 REMARK 200 STARTING MODEL: REFINED ACANTHAMOEBA PROFILIN IB STRUCTURE (1ACF) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M SODIUM POTASSIUM TARTRATE, PH REMARK 280 8.0 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 45.54500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.70000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.54500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.70000 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 71 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 75 CD - NE - CZ ANGL. DEV. = 10.5 DEGREES REMARK 500 TYR A 78 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 TYR A 78 CB - CG - CD1 ANGL. DEV. = 4.1 DEGREES 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 LEU A 10 -85.99 -113.67 REMARK 500 ALA A 30 128.24 -174.27 REMARK 500 THR A 91 -156.75 -108.10 REMARK 500 REMARK 500 REMARK: NULL DBREF 1PRQ A 1 125 UNP P68696 PRO1A_ACACA 1 125 SEQRES 1 A 125 SER TRP GLN THR TYR VAL ASP THR ASN LEU VAL GLY THR SEQRES 2 A 125 GLY ALA VAL THR GLN ALA ALA ILE LEU GLY LEU ASP GLY SEQRES 3 A 125 ASN THR TRP ALA THR SER ALA GLY PHE ALA VAL THR PRO SEQRES 4 A 125 ALA GLN GLY GLN THR LEU ALA SER ALA PHE ASN ASN ALA SEQRES 5 A 125 ASP PRO ILE ARG ALA SER GLY PHE ASP LEU ALA GLY VAL SEQRES 6 A 125 HIS TYR VAL THR LEU ARG ALA ASP ASP ARG SER ILE TYR SEQRES 7 A 125 GLY LYS LYS GLY SER ALA GLY VAL ILE THR VAL LYS THR SEQRES 8 A 125 SER LYS SER ILE LEU VAL GLY VAL TYR ASN GLU LYS ILE SEQRES 9 A 125 GLN PRO GLY THR ALA ALA ASN VAL VAL GLU LYS LEU ALA SEQRES 10 A 125 ASP TYR LEU ILE GLY GLN GLY PHE FORMUL 2 HOH *56(H2 O) HELIX 1 H1 SER A 1 GLY A 12 1ALPHA + PI CONFIGURATION 12 HELIX 2 H2 PRO A 39 ASN A 50 1 12 HELIX 3 H3 ASP A 53 SER A 58 1 6 HELIX 4 H4 PRO A 106 GLN A 123 1 18 SHEET 1 S1 7 PHE A 60 LEU A 62 0 SHEET 2 S1 7 VAL A 65 ASP A 73 -1 N VAL A 65 O LEU A 62 SHEET 3 S1 7 SER A 76 LYS A 81 -1 O SER A 76 N ASP A 73 SHEET 4 S1 7 ALA A 84 THR A 91 -1 N ALA A 84 O LYS A 81 SHEET 5 S1 7 SER A 94 TYR A 100 -1 O SER A 94 N THR A 91 SHEET 6 S1 7 GLN A 18 GLY A 23 -1 N GLN A 18 O VAL A 99 SHEET 7 S1 7 ASN A 27 SER A 32 -1 O ASN A 27 N GLY A 23 CRYST1 91.090 37.400 34.700 90.00 109.60 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 0.010978 0.000000 0.003909 0.00000 SCALE2 0.000000 0.026738 0.000000 0.00000 SCALE3 0.000000 0.000000 0.030591 0.00000