HEADER SH3-DOMAIN 15-JUL-02 1H1G OBSLTE 12-DEC-03 1H1G TITLE A-SPECTRIN SH3 DOMAIN A56S MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPECTRIN ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SH3-DOMAIN, RESIDUES 964-1025; COMPND 5 SYNONYM: SPECTRIN, NON-ERYTHROID ALPHA CHAIN, FODRIN ALPHA COMPND 6 CHAIN; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: MUTATION ALA 1019 SER SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 STRAIN: BL21 (DE3); SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PBAT4; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PBR322 KEYWDS SH3-DOMAIN, CYTOSKELETON, CALMODULIN-BINDING, ACTIN-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR M.C.VEGA,S.CASARES,F.CONEJERO-LARA,L.SERRANO REVDAT 2 12-DEC-03 1H1G 1 OBSLTE REVDAT 1 17-JUL-03 1H1G 0 JRNL AUTH S.CASARES,M.C.VEGA,M.SADQI,O.LOPEZ-MAYORGA, JRNL AUTH 2 L.SERRANO,P.L.MATEO,J.C.MARTINEZ,F.CONEJERO-LARA JRNL TITL STRUCTURAL DYNAMICS AND COOPERATIVITY TRANSMISSION JRNL TITL 2 IN THE SH3 DOMAIN OF ALPHA-SPECTRIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.MUSACCHIO,M.NOBLE,R.PAUPTIT,R.WIERENGA,M.SARASTE REMARK 1 TITL CRYSTAL STRUCTURE OF A SRC-HOMOLOGY 3 (SH3) DOMAIN REMARK 1 REF NATURE V. 359 851 1992 REMARK 1 REFN ASTM NATUAS UK ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.8 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.1 REMARK 3 NUMBER OF REFLECTIONS : 2035 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) : 0.232 REMARK 3 FREE R VALUE : 0.238 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.71 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.21 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 : 473 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 23 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) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 1.69 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 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : PARAM19.SOL 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 : TOPH19.PEP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1H1G COMPLIES WITH FORMAT V. 3.0, 1-DEC-2006 REMARK 4 REMARK 4 THIS FILE IS A TEST VERSION. REMARK 4 REMARK 4 THIS IS THE REMEDIATED VERSION OF THIS PDB ENTRY. REMARK 4 REMEDIATED DATA FILE REVISION 3.100 (2007-03-19) REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY EBI ON 22-JUL-2002. REMARK 100 THE EBI ID CODE IS EBI-9918. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-2000 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 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 : SIEMENS/MACSCIENCE MX18 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 2250 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.06200 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) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.09000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1SHG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.0 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 1/2-X,-Y,1/2+Z REMARK 290 3555 -X,1/2+Y,1/2-Z REMARK 290 4555 1/2+X,1/2-Y,-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 16.81500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.97500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 24.97500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.81500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.15000 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 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 APPLY THE FOLLOWING TO CHAINS: A, Z 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 ENGINEERED MUTATION ALA 1019 SER FUNCTION:RELATED REMARK 400 TO SPECTRIN THAT BIND ACTIN BUT DIFFER IN THEIR BINDING TO REMARK 400 CALMOLDULIN 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 465 ASP A 2 REMARK 465 GLU A 3 REMARK 465 THR A 4 REMARK 465 GLY A 5 REMARK 525 REMARK 525 SOLVENT REMARK 525 THE FOLLOWING SOLVENT MOLECULES LIE FARTHER THAN EXPECTED REMARK 525 FROM THE PROTEIN OR NUCLEIC ACID MOLECULE AND MAY BE REMARK 525 ASSOCIATED WITH A SYMMETRY RELATED MOLECULE (M=MODEL REMARK 525 NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH Z 3 DISTANCE = 6.78 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AEY RELATED DB: PDB REMARK 900 ALPHA-SPECTRIN SRC HOMOLOGY 3 DOMAIN, REMARK 900 SOLUTION NMR, 15 STRUCTURES REMARK 900 RELATED ID: 1AJ3 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE SPECTRIN REPEAT, REMARK 900 NMR, 20 STRUCTURES REMARK 900 RELATED ID: 1BK2 RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN D48G MUTANT REMARK 900 RELATED ID: 1CUN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF REPEATS 16 AND 17 OF REMARK 900 CHICKEN BRAIN ALPHA SPECTRIN REMARK 900 RELATED ID: 1E6G RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN D48G MUTANT REMARK 900 RELATED ID: 1E6H RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN A11V, M25I, V44I, REMARK 900 V58L MUTANTS REMARK 900 RELATED ID: 1E7O RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN A11V, V23L, M25V, REMARK 900 V44I, V58L MUTATIONS REMARK 900 RELATED ID: 1G2B RELATED DB: PDB REMARK 900 ALPHA-SPECTRIN SRC HOMOLOGY 3 DOMAIN, REMARK 900 CIRCULAR PERMUTANT,CUT AT N47-D48 REMARK 900 RELATED ID: 1H1E RELATED DB: PDB REMARK 900 SH3 V44T, D48G MUTANT REMARK 900 RELATED ID: 1H1F RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN A56G MUTANT REMARK 900 RELATED ID: 1H8K RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN A11V, V23L, M25V, REMARK 900 V53I, V58L MUTANT REMARK 900 RELATED ID: 1HD3 RELATED DB: PDB REMARK 900 A-SPECTRIN SH3 DOMAIN F52Y MUTANT REMARK 900 RELATED ID: 1PWT RELATED DB: PDB REMARK 900 THERMODYNAMIC ANALYSIS OF ALPHA-SPECTRIN SH3 REMARK 900 AND TWO OF ITSCIRCULAR PERMUTANTS WITH REMARK 900 DIFFERENT LOOP LENGTHS: DISCERNINGTHE REASONS REMARK 900 FOR RAPID FOLDING IN PROTEINS REMARK 900 RELATED ID: 1QKW RELATED DB: PDB REMARK 900 ALPHA-SPECTRIN SRC HOMOLOGY 3 DOMAIN, N47G REMARK 900 MUTANT IN THE DISTAL LOOP. REMARK 900 RELATED ID: 1QKX RELATED DB: PDB REMARK 900 ALPHA-SPECTRIN SRC HOMOLOGY 3 DOMAIN, N47A REMARK 900 MUTANT IN THE DISTAL LOOP. REMARK 900 RELATED ID: 1SHG RELATED DB: PDB REMARK 900 ALPHA SPECTRIN (SH3 DOMAIN) REMARK 900 RELATED ID: 1TUC RELATED DB: PDB REMARK 900 ALPHA-SPECTRIN SRC HOMOLOGY 3 DOMAIN, REMARK 900 CIRCULAR PERMUTANT, CUT AT S19-P20 REMARK 900 RELATED ID: 1TUD RELATED DB: PDB REMARK 900 ALPHA-SPECTRIN SRC HOMOLOGY 3 DOMAIN, REMARK 900 CIRCULAR PERMUTANT, CUT AT N47-D48 DBREF 1H1G A 1 1 PDB 1H1G 1H1G 1 1 DBREF 1H1G A 2 62 UNP P07751 SPCN_CHICK 965 1025 SEQADV 1H1G SER A 56 UNP P07751 ALA 1019 ENGINEERED MUTATION SEQRES 1 A 62 MET ASP GLU THR GLY LYS GLU LEU VAL LEU ALA LEU TYR SEQRES 2 A 62 ASP TYR GLN GLU LYS SER PRO ARG GLU VAL THR MET LYS SEQRES 3 A 62 LYS GLY ASP ILE LEU THR LEU LEU ASN SER THR ASN LYS SEQRES 4 A 62 ASP TRP TRP LYS VAL GLU VAL ASN ASP ARG GLN GLY PHE SEQRES 5 A 62 VAL PRO ALA SER TYR VAL LYS LYS LEU ASP FORMUL 2 HOH *23(H2 O) SHEET 1 AA 5 GLN A 50 PRO A 54 0 SHEET 2 AA 5 TRP A 41 GLU A 45 -1 O TRP A 42 N VAL A 53 SHEET 3 AA 5 ILE A 30 ASN A 35 -1 O THR A 32 N GLU A 45 SHEET 4 AA 5 LEU A 8 ALA A 11 -1 O VAL A 9 N LEU A 31 SHEET 5 AA 5 VAL A 58 LEU A 61 -1 O LYS A 59 N LEU A 10 CRYST1 33.630 42.300 49.950 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 0.029735 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023641 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020020 0.00000 MASTER 292 0 0 0 5 0 0 6 496 1 0 5 END