HEADER ELECTRON TRANSPORT(NON-HEME FE PROTEIN) 02-JUN-88 4FD1 OBSLTE 31-OCT-93 4FD1 5FD1 TITLE REFINEMENT OF THE 7 FE FERREDOXIN FROM AZOTOBACTER AT 1.9 TITLE 2 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE:; COMPND 3 CHAIN: NULL; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1 KEYWDS ELECTRON TRANSPORT(NON-HEME FE PROTEIN) EXPDTA X-RAY DIFFRACTION AUTHOR C.D.STOUT REVDAT 5 31-OCT-93 4FD1 3 OBSLTE REVDAT 4 15-OCT-90 4FD1 1 JRNL REMARK REVDAT 3 19-APR-89 4FD1 1 REMARK REVDAT 2 09-JAN-89 4FD1 3 HETATM CONECT REVDAT 1 16-JUL-88 4FD1 0 SPRSDE 16-JUL-88 4FD1 3FD1 JRNL AUTH C.D.STOUT JRNL TITL REFINEMENT OF THE 7 FE FERREDOXIN FROM AZOTOBACTER JRNL TITL 2 AT 1.9 ANGSTROMS RESOLUTION JRNL REF J.MOL.BIOL. V. 205 545 1989 JRNL REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.SOMAN,S.IISMAA,C.D.STOUT REMARK 1 TITL CRYSTALLOGRAPHIC ANALYSIS OF TWO SITE-DIRECTED REMARK 1 TITL 2 MUTANTS OF AZOTOBACTER VINELANDII FERREDOXIN REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 2 REMARK 1 AUTH A.E.MARTIN,B.K.BURGESS,C.D.STOUT,V.L.CASH,D.R.DEAN, REMARK 1 AUTH 2 G.M.JENSEN,P.J.STEPHENS REMARK 1 TITL SITE-DIRECTED MUTAGENESIS OF AZOTOBACTER REMARK 1 TITL 2 VINELANDII FERREDOXIN I. (FE-S) CLUSTER-DRIVEN REMARK 1 TITL 3 PROTEIN REARRANGEMENT REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 87 598 1990 REMARK 1 REFN ASTM PNASA6 US ISSN 0027-8424 REMARK 1 REFERENCE 3 REMARK 1 AUTH C.D.STOUT REMARK 1 TITL 7-IRON FERREDOXIN REVISITED REMARK 1 REF J.BIOL.CHEM. V. 263 9256 1988 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH P.J.STEPHENS,T.V.MORGAN,F.DEVLIN,J.E.PENNER-HAHN, REMARK 1 AUTH 2 K.O.HODGSON,R.A.SCOTT,C.D.STOUT,B.K.BURGESS REMARK 1 TITL (4FE-4S)-CLUSTER-DEPLETED AZOTOBACTER VINELANDII REMARK 1 TITL 2 FERREDOXIN I. A NEW 3FE IRON-SULFUR PROTEIN REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 82 5661 1985 REMARK 1 REFN ASTM PNASA6 US ISSN 0027-8424 REMARK 1 REFERENCE 5 REMARK 1 AUTH J.B.HOWARD,T.W.LORSBACH,D.GHOSH,K.MELIS,C.D.STOUT REMARK 1 TITL STRUCTURE OF AZOTOBACTER VINELANDII 7FE REMARK 1 TITL 2 FERREDOXIN. AMINO ACID SEQUENCE AND ELECTRON REMARK 1 TITL 3 DENSITY MAPS OF RESIDUES REMARK 1 REF J.BIOL.CHEM. V. 258 508 1983 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 6 REMARK 1 AUTH D.GHOSH,S.O'DONNELL,W.FUREYJUNIOR,A.H.ROBBINS, REMARK 1 AUTH 2 C.D.STOUT REMARK 1 TITL IRON-SULFUR CLUSTERS AND PROTEIN STRUCTURE OF REMARK 1 TITL 2 AZOTOBACTER FERREDOXIN AT 2.0 ANGSTROMS RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 158 73 1982 REMARK 1 REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 1 REFERENCE 7 REMARK 1 AUTH D.GHOSH,W.FUREYJUNIOR,S.O'DONNELL,C.D.STOUT REMARK 1 TITL STRUCTURE OF A 7FE FERREDOXIN FROM AZOTOBACTER REMARK 1 TITL 2 VINELANDII REMARK 1 REF J.BIOL.CHEM. V. 256 4185 1981 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 8 REMARK 1 AUTH C.D.STOUT,D.GHOSH,V.PATTABHI,A.H.ROBBINS REMARK 1 TITL IRON-SULFUR CLUSTERS IN AZOTOBACTER FERREDOXIN AT REMARK 1 TITL 2 2.5 ANGSTROMS RESOLUTION REMARK 1 REF J.BIOL.CHEM. V. 255 1797 1980 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 9 REMARK 1 AUTH C.D.STOUT REMARK 1 TITL STRUCTURE OF THE IRON-SULFUR CLUSTERS IN REMARK 1 TITL 2 AZOTOBACTER FERREDOXIN AT 4.0 ANGSTROMS RESOLUTION REMARK 1 REF AM.CRYST.ASSOC.,ABSTR. V. 6 97 1979 REMARK 1 REF 2 PAPERS (WINTER MEETING) REMARK 1 REFN US ISSN 0569-4221 REMARK 1 REFERENCE 10 REMARK 1 AUTH C.D.STOUT REMARK 1 TITL TWO CRYSTAL FORMS OF AZOTOBACTER FERREDOXIN REMARK 1 REF J.BIOL.CHEM. V. 254 3598 1979 REMARK 1 REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REFERENCE 11 REMARK 1 AUTH C.D.STOUT REMARK 1 TITL STRUCTURE OF THE IRON-SULPHUR CLUSTERS IN REMARK 1 TITL 2 AZOTOBACTER FERREDOXIN AT 4.0 ANGSTROMS RESOLUTION REMARK 1 REF NATURE V. 279 83 1979 REMARK 1 REFN ASTM NATUAS UK ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. NULL ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : NULL REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL 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 : NULL 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) : NULL 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 : 841 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 21 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 4FD1 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 4FD1 THIS PROTEIN HAS A CUBANE-LIKE (3FE-4S) CLUSTER AND REMARK 5 ALSO A 4FD1 STANDARD (4FE-4S) CLUSTER. 4FD1 REMARK 6 REMARK 6 4FD1 THE CHEMICAL SEQUENCE WAS DETERMINED IN COLLABORATION REMARK 6 WITH 4FD1 J. B. HOWARD AND T. LORSBACH OF DEPT. OF REMARK 6 BIOCHEMISTRY, 4FD1 UNIVERSITY OF MINNESOTA, ST. PAUL, REMARK 6 MINNESOTA. SUBSEQUENT 4FD1 WORK ON THIS STRUCTURE YIELDED REMARK 6 SEQUENCE CHANGES 4FD1 1. GLY 62 CHANGED TO GLU 62 4FD1 2. REMARK 6 ASP 76 CHANGED TO GLU 76 4FD1 3. VAL 107 DELETED (REPLACED REMARK 6 BY WATER MOLECULES) 4FD1 REMARK 7 REMARK 7 4FD1 CORRECTION. REVISE ORDER OF CONNECTIVITY ON CONECT REMARK 7 RECORDS. 4FD1 CORRECT FORMAT OF ATOM NAME ON HETATM REMARK 7 RECORDS. 09-JAN-89. 4FD1 REMARK 8 REMARK 8 4FD1 CORRECTION. UPDATE REFERENCE 1 TO REFLECT PUBLICATION. REMARK 8 4FD1 19-APR-89. 4FD1 REMARK 9 REMARK 9 4FD1 CORRECTION. UPDATE JRNL REFERENCE TO REFLECT REMARK 9 PUBLICATION. 4FD1 INSERT NEW PUBLICATION AS REFERENCES 1 REMARK 9 AND 2 AND RENUMBER 4FD1 THE OTHERS. 15-OCT-90. 4FD1 REMARK 10 REMARK 10 4FD1 CORRECTION. THIS ENTRY IS OBSOLETE. 31-OCT-93. 4FD1 REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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) : NULL 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,1/2+Z REMARK 290 3555 1/2-Y,1/2+X,1/4+Z REMARK 290 4555 1/2+Y,1/2-X,3/4+Z REMARK 290 5555 1/2-X,1/2+Y,1/4-Z REMARK 290 6555 1/2+X,1/2-Y,3/4-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,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 47.60000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 27.60000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 27.60000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 23.80000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 27.60000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 27.60000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 71.40000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 27.60000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 27.60000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 23.80000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 27.60000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 27.60000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 71.40000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 47.60000 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 SEQRES 1 106 ALA PHE VAL VAL THR ASP ASN CYS ILE LYS CYS LYS TYR SEQRES 2 106 THR ASP CYS VAL GLU VAL CYS PRO VAL ASP CYS PHE TYR SEQRES 3 106 GLU GLY PRO ASN PHE LEU VAL ILE HIS PRO ASP GLU CYS SEQRES 4 106 ILE ASP CYS ALA LEU CYS GLU PRO GLU CYS PRO ALA GLN SEQRES 5 106 ALA ILE PHE SER GLU ASP GLU VAL PRO GLU ASP MET GLN SEQRES 6 106 GLU PHE ILE GLN LEU ASN ALA GLU LEU ALA GLU VAL TRP SEQRES 7 106 PRO ASN ILE THR GLU LYS LYS ASP PRO LEU PRO ASP ALA SEQRES 8 106 GLU ASP TRP ASP GLY VAL LYS GLY LYS LEU GLN HIS LEU SEQRES 9 106 GLU ARG HET FS4 107 8 HET FS3 108 7 HETNAM FS4 IRON/SULFUR CLUSTER HETNAM FS3 FE3-S4 CLUSTER FORMUL 2 FS4 FE4 S4 FORMUL 3 FS3 FE3 S4 FORMUL 4 HOH *21(H2 O1) HELIX 1 1 ASP 6 ILE 9 5 4 HELIX 2 2 THR 14 CYS 20 5 7 HELIX 3 3 LEU 44 CYS 49 1 6 HELIX 4 4 ASP 58 VAL 60 5 3 HELIX 5 5 PRO 61 MET 64 5 4 HELIX 6 6 GLN 65 GLU 76 1 12 HELIX 7 7 ASP 90 ASP 95 1 6 HELIX 8 8 GLY 99 LEU 104 5 6 SHEET 1 A 2 PHE 2 VAL 4 0 SHEET 2 A 2 ILE 54 SER 56 -1 O PHE 55 N VAL 3 SHEET 1 B 2 PHE 25 GLY 28 0 SHEET 2 B 2 PHE 31 ILE 34 -1 O PHE 31 N GLY 28 CRYST1 55.200 55.200 95.200 90.00 90.00 90.00 P 41 21 2 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 0.018116 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018116 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010504 0.00000