HEADER OXIDOREDUCTASE 05-SEP-04 1XD8 TITLE CRYSTAL STRUCTURE OF THE NITROGENASE FE PROTEIN ASP39ASN COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROGENASE IRON PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NITROGENASE FE PROTEIN, NITROGENASE COMPONENT II, COMPND 5 NITROGENASE REDUCTASE; COMPND 6 EC: 1.18.6.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AZOTOBACTER VINELANDII; SOURCE 3 ORGANISM_TAXID: 354; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: CJ236; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PTZ19U; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PLCS586 KEYWDS [FES] CLUSTER, FE PROTEIN, SIGNAL TRANSDUCTION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.B.JANG,M.S.JEONG,L.C.SEEFELDT,J.W.PETERS REVDAT 5 25-OCT-23 1XD8 1 REMARK REVDAT 4 10-NOV-21 1XD8 1 REMARK SEQADV LINK REVDAT 3 04-SEP-19 1XD8 1 ATOM REVDAT 2 24-FEB-09 1XD8 1 VERSN REVDAT 1 01-MAR-05 1XD8 0 JRNL AUTH S.B.JANG,M.S.JEONG,L.C.SEEFELDT,J.W.PETERS JRNL TITL STRUCTURAL AND BIOCHEMICAL IMPLICATIONS OF SINGLE AMINO ACID JRNL TITL 2 SUBSTITUTIONS IN THE NUCLEOTIDE-DEPENDENT SWITCH REGIONS OF JRNL TITL 3 THE NITROGENASE FE PROTEIN FROM AZOTOBACTER VINELANDII JRNL REF J.BIOL.INORG.CHEM. V. 9 1028 2004 JRNL REFN ISSN 0949-8257 JRNL PMID 15549494 JRNL DOI 10.1007/S00775-004-0605-5 REMARK 2 REMARK 2 RESOLUTION. 2.70 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.0 REMARK 3 NUMBER OF REFLECTIONS : 14893 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.296 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 755 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.75 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE : 0.2960 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 755 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 : 4374 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 0 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) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 2.773 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 1XD8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-SEP-04. REMARK 100 THE DEPOSITION ID IS D_1000030228. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-SEP-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : COPPER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17701 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.31500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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 1NIP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, TRIS HCL, SODIUM ACETATE, PH REMARK 280 8.5, SMALL TUBES, TEMPERATURE 298K 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 46.05450 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 50 NE2 HIS A 50 CD2 -0.068 REMARK 500 HIS A 209 NE2 HIS A 209 CD2 -0.075 REMARK 500 HIS B 209 NE2 HIS B 209 CD2 -0.066 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 ARG A 46 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 100 CD - NE - CZ ANGL. DEV. = 12.3 DEGREES REMARK 500 ARG A 100 NE - CZ - NH1 ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 100 NE - CZ - NH2 ANGL. DEV. = -10.4 DEGREES REMARK 500 ARG A 223 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 223 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 245 CD - NE - CZ ANGL. DEV. = 16.6 DEGREES REMARK 500 ARG A 245 NE - CZ - NH1 ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG A 245 NE - CZ - NH2 ANGL. DEV. = -8.8 DEGREES REMARK 500 GLU A 287 N - CA - CB ANGL. DEV. = -12.3 DEGREES REMARK 500 ARG B 46 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG B 100 CD - NE - CZ ANGL. DEV. = 17.4 DEGREES REMARK 500 ARG B 100 NE - CZ - NH1 ANGL. DEV. = -10.3 DEGREES REMARK 500 ARG B 100 NE - CZ - NH2 ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG B 140 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 178 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG B 245 CD - NE - CZ ANGL. DEV. = 14.5 DEGREES REMARK 500 ARG B 245 NE - CZ - NH1 ANGL. DEV. = -8.1 DEGREES REMARK 500 ARG B 245 NE - CZ - NH2 ANGL. DEV. = 8.4 DEGREES REMARK 500 GLU B 287 N - CA - CB ANGL. DEV. = -11.2 DEGREES REMARK 500 GLU B 287 CA - CB - CG ANGL. DEV. = 13.8 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 ALA A 42 32.81 -88.10 REMARK 500 TYR A 80 104.92 -38.09 REMARK 500 VAL A 95 -49.87 -132.72 REMARK 500 ASP A 117 171.60 -56.88 REMARK 500 ASN A 142 40.57 39.17 REMARK 500 GLU A 154 143.87 -171.16 REMARK 500 MET A 155 -71.55 -47.17 REMARK 500 SER A 174 30.03 -156.94 REMARK 500 ASP A 190 -64.41 -24.13 REMARK 500 THR A 205 -150.63 -121.29 REMARK 500 ALA B 42 32.36 -88.32 REMARK 500 TYR B 80 103.38 -35.24 REMARK 500 VAL B 95 -50.03 -134.91 REMARK 500 ASP B 117 170.27 -57.08 REMARK 500 ASN B 142 42.40 37.51 REMARK 500 ASN B 173 25.44 -78.52 REMARK 500 SER B 174 29.00 -158.58 REMARK 500 ASP B 190 -63.50 -22.89 REMARK 500 ARG B 191 44.72 -140.32 REMARK 500 THR B 205 -148.10 -119.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 290 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 97 SG REMARK 620 2 SF4 A 290 S1 110.9 REMARK 620 3 SF4 A 290 S3 104.6 104.9 REMARK 620 4 SF4 A 290 S4 119.8 109.1 106.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 290 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 132 SG REMARK 620 2 SF4 A 290 S1 106.6 REMARK 620 3 SF4 A 290 S2 124.4 107.8 REMARK 620 4 SF4 A 290 S4 110.1 103.7 102.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 290 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 97 SG REMARK 620 2 SF4 A 290 S2 111.4 REMARK 620 3 SF4 A 290 S3 117.5 111.0 REMARK 620 4 SF4 A 290 S4 106.9 104.3 104.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 290 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 132 SG REMARK 620 2 SF4 A 290 S1 117.7 REMARK 620 3 SF4 A 290 S2 102.6 108.9 REMARK 620 4 SF4 A 290 S3 110.5 105.6 111.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 A 290 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DE0 RELATED DB: PDB REMARK 900 MODULATING THE MIDPOINT POTENTIAL OF THE [4FE-4S] CLUSTER OF THE REMARK 900 NITROGENASE FE PROTEIN REMARK 900 RELATED ID: 1FP6 RELATED DB: PDB REMARK 900 INSIGHTS INTO NUCLEOTIDE SIGNAL TRANSDUCTION IN NITROGENASE: REMARK 900 STRUCTURE OF AN IRON PROTEIN WITH MGADP BOUND REMARK 900 RELATED ID: 1XD9 RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH MGADP BOUND REMARK 900 RELATED ID: 1XDB RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH D129E MUTANT DBREF 1XD8 A 1 289 UNP P00459 NIFH1_AZOVI 1 289 DBREF 1XD8 B 1 289 UNP P00459 NIFH1_AZOVI 1 289 SEQADV 1XD8 ASN A 39 UNP P00459 ASP 39 ENGINEERED MUTATION SEQADV 1XD8 ASN B 39 UNP P00459 ASP 39 ENGINEERED MUTATION SEQRES 1 A 289 ALA MET ARG GLN CYS ALA ILE TYR GLY LYS GLY GLY ILE SEQRES 2 A 289 GLY LYS SER THR THR THR GLN ASN LEU VAL ALA ALA LEU SEQRES 3 A 289 ALA GLU MET GLY LYS LYS VAL MET ILE VAL GLY CYS ASN SEQRES 4 A 289 PRO LYS ALA ASP SER THR ARG LEU ILE LEU HIS SER LYS SEQRES 5 A 289 ALA GLN ASN THR ILE MET GLU MET ALA ALA GLU ALA GLY SEQRES 6 A 289 THR VAL GLU ASP LEU GLU LEU GLU ASP VAL LEU LYS ALA SEQRES 7 A 289 GLY TYR GLY GLY VAL LYS CYS VAL GLU SER GLY GLY PRO SEQRES 8 A 289 GLU PRO GLY VAL GLY CYS ALA GLY ARG GLY VAL ILE THR SEQRES 9 A 289 ALA ILE ASN PHE LEU GLU GLU GLU GLY ALA TYR GLU ASP SEQRES 10 A 289 ASP LEU ASP PHE VAL PHE TYR ASP VAL LEU GLY ASP VAL SEQRES 11 A 289 VAL CYS GLY GLY PHE ALA MET PRO ILE ARG GLU ASN LYS SEQRES 12 A 289 ALA GLN GLU ILE TYR ILE VAL CYS SER GLY GLU MET MET SEQRES 13 A 289 ALA MET TYR ALA ALA ASN ASN ILE SER LYS GLY ILE VAL SEQRES 14 A 289 LYS TYR ALA ASN SER GLY SER VAL ARG LEU GLY GLY LEU SEQRES 15 A 289 ILE CYS ASN SER ARG ASN THR ASP ARG GLU ASP GLU LEU SEQRES 16 A 289 ILE ILE ALA LEU ALA ASN LYS LEU GLY THR GLN MET ILE SEQRES 17 A 289 HIS PHE VAL PRO ARG ASP ASN VAL VAL GLN ARG ALA GLU SEQRES 18 A 289 ILE ARG ARG MET THR VAL ILE GLU TYR ASP PRO LYS ALA SEQRES 19 A 289 LYS GLN ALA ASP GLU TYR ARG ALA LEU ALA ARG LYS VAL SEQRES 20 A 289 VAL ASP ASN LYS LEU LEU VAL ILE PRO ASN PRO ILE THR SEQRES 21 A 289 MET ASP GLU LEU GLU GLU LEU LEU MET GLU PHE GLY ILE SEQRES 22 A 289 MET GLU VAL GLU ASP GLU SER ILE VAL GLY LYS THR ALA SEQRES 23 A 289 GLU GLU VAL SEQRES 1 B 289 ALA MET ARG GLN CYS ALA ILE TYR GLY LYS GLY GLY ILE SEQRES 2 B 289 GLY LYS SER THR THR THR GLN ASN LEU VAL ALA ALA LEU SEQRES 3 B 289 ALA GLU MET GLY LYS LYS VAL MET ILE VAL GLY CYS ASN SEQRES 4 B 289 PRO LYS ALA ASP SER THR ARG LEU ILE LEU HIS SER LYS SEQRES 5 B 289 ALA GLN ASN THR ILE MET GLU MET ALA ALA GLU ALA GLY SEQRES 6 B 289 THR VAL GLU ASP LEU GLU LEU GLU ASP VAL LEU LYS ALA SEQRES 7 B 289 GLY TYR GLY GLY VAL LYS CYS VAL GLU SER GLY GLY PRO SEQRES 8 B 289 GLU PRO GLY VAL GLY CYS ALA GLY ARG GLY VAL ILE THR SEQRES 9 B 289 ALA ILE ASN PHE LEU GLU GLU GLU GLY ALA TYR GLU ASP SEQRES 10 B 289 ASP LEU ASP PHE VAL PHE TYR ASP VAL LEU GLY ASP VAL SEQRES 11 B 289 VAL CYS GLY GLY PHE ALA MET PRO ILE ARG GLU ASN LYS SEQRES 12 B 289 ALA GLN GLU ILE TYR ILE VAL CYS SER GLY GLU MET MET SEQRES 13 B 289 ALA MET TYR ALA ALA ASN ASN ILE SER LYS GLY ILE VAL SEQRES 14 B 289 LYS TYR ALA ASN SER GLY SER VAL ARG LEU GLY GLY LEU SEQRES 15 B 289 ILE CYS ASN SER ARG ASN THR ASP ARG GLU ASP GLU LEU SEQRES 16 B 289 ILE ILE ALA LEU ALA ASN LYS LEU GLY THR GLN MET ILE SEQRES 17 B 289 HIS PHE VAL PRO ARG ASP ASN VAL VAL GLN ARG ALA GLU SEQRES 18 B 289 ILE ARG ARG MET THR VAL ILE GLU TYR ASP PRO LYS ALA SEQRES 19 B 289 LYS GLN ALA ASP GLU TYR ARG ALA LEU ALA ARG LYS VAL SEQRES 20 B 289 VAL ASP ASN LYS LEU LEU VAL ILE PRO ASN PRO ILE THR SEQRES 21 B 289 MET ASP GLU LEU GLU GLU LEU LEU MET GLU PHE GLY ILE SEQRES 22 B 289 MET GLU VAL GLU ASP GLU SER ILE VAL GLY LYS THR ALA SEQRES 23 B 289 GLU GLU VAL HET SF4 A 290 8 HETNAM SF4 IRON/SULFUR CLUSTER FORMUL 3 SF4 FE4 S4 HELIX 1 1 GLY A 14 MET A 29 1 16 HELIX 2 2 THR A 45 HIS A 50 1 6 HELIX 3 3 THR A 56 GLY A 65 1 10 HELIX 4 4 GLU A 71 LEU A 76 1 6 HELIX 5 5 ALA A 98 GLU A 112 1 15 HELIX 6 6 ALA A 136 GLU A 141 1 6 HELIX 7 7 GLU A 154 ASN A 173 1 20 HELIX 8 8 ARG A 191 GLY A 204 1 14 HELIX 9 9 ASN A 215 ILE A 222 1 8 HELIX 10 10 THR A 226 ASP A 231 1 6 HELIX 11 11 ALA A 234 ASN A 250 1 17 HELIX 12 12 THR A 260 PHE A 271 1 12 HELIX 13 13 GLY B 14 MET B 29 1 16 HELIX 14 14 THR B 56 GLY B 65 1 10 HELIX 15 15 GLU B 71 VAL B 75 1 5 HELIX 16 16 ALA B 98 GLU B 112 1 15 HELIX 17 17 ALA B 136 GLU B 141 1 6 HELIX 18 18 GLU B 154 ASN B 173 1 20 HELIX 19 19 ARG B 191 GLY B 204 1 14 HELIX 20 20 ASN B 215 ILE B 222 1 8 HELIX 21 21 THR B 226 ASP B 231 1 6 HELIX 22 22 ALA B 234 ASN B 250 1 17 HELIX 23 23 THR B 260 PHE B 271 1 12 SHEET 1 A 8 LYS A 77 GLY A 79 0 SHEET 2 A 8 VAL A 83 GLU A 87 -1 O CYS A 85 N LYS A 77 SHEET 3 A 8 VAL A 33 GLY A 37 1 N GLY A 37 O VAL A 86 SHEET 4 A 8 PHE A 121 LEU A 127 1 O PHE A 123 N VAL A 36 SHEET 5 A 8 ARG A 3 GLY A 9 1 N ILE A 7 O TYR A 124 SHEET 6 A 8 GLU A 146 CYS A 151 1 O VAL A 150 N TYR A 8 SHEET 7 A 8 ARG A 178 ASN A 185 1 O ASN A 185 N CYS A 151 SHEET 8 A 8 MET A 207 VAL A 211 1 O VAL A 211 N CYS A 184 SHEET 1 B 8 LEU B 76 GLY B 79 0 SHEET 2 B 8 VAL B 83 GLU B 87 -1 O CYS B 85 N LYS B 77 SHEET 3 B 8 VAL B 33 GLY B 37 1 N GLY B 37 O VAL B 86 SHEET 4 B 8 PHE B 121 LEU B 127 1 O PHE B 123 N MET B 34 SHEET 5 B 8 ARG B 3 GLY B 9 1 N ILE B 7 O TYR B 124 SHEET 6 B 8 GLU B 146 CYS B 151 1 O VAL B 150 N TYR B 8 SHEET 7 B 8 ARG B 178 ASN B 185 1 O ASN B 185 N CYS B 151 SHEET 8 B 8 MET B 207 VAL B 211 1 O VAL B 211 N CYS B 184 LINK SG CYS A 97 FE2 SF4 A 290 1555 1555 1.95 LINK SG CYS A 132 FE3 SF4 A 290 1555 1555 2.10 LINK FE1 SF4 A 290 SG CYS B 97 1555 1555 1.87 LINK FE4 SF4 A 290 SG CYS B 132 1555 1555 2.25 SITE 1 AC1 8 CYS A 97 ALA A 98 CYS A 132 GLY A 134 SITE 2 AC1 8 CYS B 97 ALA B 98 CYS B 132 GLY B 134 CRYST1 57.235 92.109 62.821 90.00 101.05 90.00 P 1 21 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 0.017472 0.000000 0.003413 0.00000 SCALE2 0.000000 0.010857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016219 0.00000