HEADER ELECTRON TRANSPORT 02-JUL-92 1FLV TITLE STRUCTURE OF THE OXIDIZED LONG CHAIN FLAVODOXIN FROM ANABAENA 7120 AT TITLE 2 2 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: FLAVODOXIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC SP.; SOURCE 3 ORGANISM_TAXID: 103690; SOURCE 4 STRAIN: PCC 7120 KEYWDS ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR S.T.RAO,M.SUNDARALINGAM REVDAT 6 07-FEB-24 1FLV 1 REMARK REVDAT 5 29-NOV-17 1FLV 1 HELIX REVDAT 4 13-JUL-11 1FLV 1 VERSN REVDAT 3 24-FEB-09 1FLV 1 VERSN REVDAT 2 01-APR-03 1FLV 1 JRNL REVDAT 1 31-OCT-93 1FLV 0 JRNL AUTH S.T.RAO,F.SHAFFIE,C.YU,K.A.SATYSHUR,B.J.STOCKMAN, JRNL AUTH 2 J.L.MARKLEY,M.SUNDARLINGAM JRNL TITL STRUCTURE OF THE OXIDIZED LONG-CHAIN FLAVODOXIN FROM JRNL TITL 2 ANABAENA 7120 AT 2 A RESOLUTION. JRNL REF PROTEIN SCI. V. 1 1413 1992 JRNL REFN ISSN 0961-8368 JRNL PMID 1303762 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) : 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) : 0.185 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 : 1326 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 104 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) : 0.020 REMARK 3 BOND ANGLES (DEGREES) : 3.000 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 1FLV 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_1000173336. 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: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 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 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 16.00000 REMARK 290 SMTRY3 2 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 SER A 1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 34 NE2 HIS A 34 CD2 -0.068 REMARK 500 REMARK 500 REMARK: NULL 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 VAL A 18 CG1 - CB - CG2 ANGL. DEV. = -10.4 DEGREES REMARK 500 ARG A 23 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 24 CB - CG - OD2 ANGL. DEV. = 8.6 DEGREES REMARK 500 GLY A 27 N - CA - C ANGL. DEV. = -15.5 DEGREES REMARK 500 ASP A 35 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 TRP A 57 CD1 - CG - CD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 TRP A 57 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 TRP A 66 CD1 - CG - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 TRP A 66 CE2 - CD2 - CG ANGL. DEV. = -5.2 DEGREES REMARK 500 TYR A 85 CB - CG - CD2 ANGL. DEV. = -5.1 DEGREES REMARK 500 LEU A 105 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 ARG A 112 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 112 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 TRP A 120 CD1 - CG - CD2 ANGL. DEV. = 8.0 DEGREES REMARK 500 TRP A 120 CG - CD1 - NE1 ANGL. DEV. = -6.4 DEGREES REMARK 500 TRP A 120 CE2 - CD2 - CG ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG A 134 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 VAL A 139 CA - CB - CG2 ANGL. DEV. = -10.0 DEGREES REMARK 500 ASP A 144 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 GLU A 145 OE1 - CD - OE2 ANGL. DEV. = -7.7 DEGREES REMARK 500 ARG A 155 CB - CG - CD ANGL. DEV. = 16.3 DEGREES REMARK 500 ARG A 155 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 155 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP A 159 CD1 - CG - CD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 TRP A 159 CE2 - CD2 - CG ANGL. DEV. = -6.0 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 GLN A 11 -65.33 -90.63 REMARK 500 ASN A 28 -29.29 -176.80 REMARK 500 ILE A 59 77.47 57.61 REMARK 500 ASN A 97 27.12 -145.02 REMARK 500 PHE A 167 -33.90 172.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN A 170 DBREF 1FLV A 1 169 UNP P0A3D9 FLAV_ANASP 1 169 SEQRES 1 A 169 SER LYS LYS ILE GLY LEU PHE TYR GLY THR GLN THR GLY SEQRES 2 A 169 LYS THR GLU SER VAL ALA GLU ILE ILE ARG ASP GLU PHE SEQRES 3 A 169 GLY ASN ASP VAL VAL THR LEU HIS ASP VAL SER GLN ALA SEQRES 4 A 169 GLU VAL THR ASP LEU ASN ASP TYR GLN TYR LEU ILE ILE SEQRES 5 A 169 GLY CYS PRO THR TRP ASN ILE GLY GLU LEU GLN SER ASP SEQRES 6 A 169 TRP GLU GLY LEU TYR SER GLU LEU ASP ASP VAL ASP PHE SEQRES 7 A 169 ASN GLY LYS LEU VAL ALA TYR PHE GLY THR GLY ASP GLN SEQRES 8 A 169 ILE GLY TYR ALA ASP ASN PHE GLN ASP ALA ILE GLY ILE SEQRES 9 A 169 LEU GLU GLU LYS ILE SER GLN ARG GLY GLY LYS THR VAL SEQRES 10 A 169 GLY TYR TRP SER THR ASP GLY TYR ASP PHE ASN ASP SER SEQRES 11 A 169 LYS ALA LEU ARG ASN GLY LYS PHE VAL GLY LEU ALA LEU SEQRES 12 A 169 ASP GLU ASP ASN GLN SER ASP LEU THR ASP ASP ARG ILE SEQRES 13 A 169 LYS SER TRP VAL ALA GLN LEU LYS SER GLU PHE GLY LEU HET FMN A 170 31 HETNAM FMN FLAVIN MONONUCLEOTIDE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 FMN C17 H21 N4 O9 P FORMUL 3 HOH *104(H2 O) HELIX 1 H1 GLY A 13 PHE A 26 1 14 HELIX 2 H11 GLU A 40 ASP A 46 5 7 HELIX 3 H2 TYR A 70 VAL A 76 5 7 HELIX 4 H3 ASP A 100 SER A 110 1 11 SHEET 1 S1 5 VAL A 30 VAL A 36 0 SHEET 2 S1 5 ILE A 4 GLY A 9 1 SHEET 3 S1 5 GLN A 48 CYS A 54 1 SHEET 4 S1 5 LYS A 81 PHE A 86 1 SHEET 5 S1 5 LYS A 115 VAL A 117 1 SHEET 1 S2 5 VAL A 30 VAL A 36 0 SHEET 2 S2 5 ILE A 4 GLY A 9 1 SHEET 3 S2 5 GLN A 48 CYS A 54 1 SHEET 4 S2 5 LYS A 81 PHE A 86 1 SHEET 5 S2 5 LEU A 141 LEU A 143 1 SITE 1 AC1 22 THR A 10 GLN A 11 THR A 12 GLY A 13 SITE 2 AC1 22 LYS A 14 THR A 15 PRO A 55 THR A 56 SITE 3 AC1 22 TRP A 57 ASN A 58 ILE A 59 GLY A 60 SITE 4 AC1 22 THR A 88 GLY A 89 ASP A 90 TYR A 94 SITE 5 AC1 22 ASN A 97 PHE A 98 GLN A 99 ASP A 146 SITE 6 AC1 22 HOH A 202 HOH A 249 CRYST1 48.000 32.000 51.600 90.00 92.00 90.00 P 1 21 1 2 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 0.020833 0.000000 0.000728 0.00000 SCALE2 0.000000 0.031250 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019392 0.00000