HEADER OXIDOREDUCTASE 19-NOV-18 6N4L TITLE DITHIONITE-REDUCED ADP-BOUND FORM OF THE NITROGENASE FE-PROTEIN FROM TITLE 2 A. VINELANDII COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROGENASE IRON PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NITROGENASE FE PROTEIN 1,NITROGENASE COMPONENT II, COMPND 5 NITROGENASE REDUCTASE; COMPND 6 EC: 1.18.6.1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AZOTOBACTER VINELANDII; SOURCE 3 ORGANISM_TAXID: 354 KEYWDS NITROGENASE, IRON SULFUR CLUSTER, ADP, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR B.B.WENKE,T.SPATZAL,D.C.REES REVDAT 5 06-NOV-24 6N4L 1 REMARK REVDAT 4 11-OCT-23 6N4L 1 REMARK REVDAT 3 01-JAN-20 6N4L 1 REMARK REVDAT 2 27-MAR-19 6N4L 1 JRNL REVDAT 1 13-FEB-19 6N4L 0 JRNL AUTH B.B.WENKE,T.SPATZAL,D.C.REES JRNL TITL SITE-SPECIFIC OXIDATION STATE ASSIGNMENTS OF THE IRON ATOMS JRNL TITL 2 IN THE [4FE:4S]2+/1+/0STATES OF THE NITROGENASE FE-PROTEIN. JRNL REF ANGEW. CHEM. INT. ED. ENGL. V. 58 3894 2019 JRNL REFN ESSN 1521-3773 JRNL PMID 30698901 JRNL DOI 10.1002/ANIE.201813966 REMARK 2 REMARK 2 RESOLUTION. 1.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0232 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 92016 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 + TEST SET) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.157 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4770 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.13 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6735 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 343 REMARK 3 BIN FREE R VALUE : 0.2230 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2140 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 267 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.24000 REMARK 3 B22 (A**2) : 0.26000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.033 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.031 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.022 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.066 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.978 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2415 ; 0.007 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2319 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3290 ; 1.466 ; 1.642 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5412 ; 1.389 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 332 ; 6.318 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;30.199 ;23.361 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 461 ;12.483 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;16.939 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 323 ; 0.064 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2756 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 464 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 4732 ; 0.822 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 149 ;14.403 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4803 ; 6.865 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 283 REMARK 3 ORIGIN FOR THE GROUP (A): -1.5050 -4.1019 13.3532 REMARK 3 T TENSOR REMARK 3 T11: 0.0467 T22: 0.0052 REMARK 3 T33: 0.0215 T12: 0.0118 REMARK 3 T13: 0.0189 T23: 0.0079 REMARK 3 L TENSOR REMARK 3 L11: 0.8978 L22: 1.5509 REMARK 3 L33: 0.7425 L12: 0.3379 REMARK 3 L13: -0.2728 L23: 0.1931 REMARK 3 S TENSOR REMARK 3 S11: 0.0038 S12: -0.0128 S13: 0.0453 REMARK 3 S21: 0.0332 S22: 0.0039 S23: 0.1088 REMARK 3 S31: 0.0475 S32: 0.0076 S33: -0.0077 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6N4L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1000238067. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8856 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 96897 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.130 REMARK 200 RESOLUTION RANGE LOW (A) : 53.041 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 11.90 REMARK 200 R MERGE FOR SHELL (I) : 0.79900 REMARK 200 R SYM FOR SHELL (I) : 0.79900 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1G5P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40% PEG 400, 0.17 MM CYMAL 7, 0.1 M REMARK 280 HEPES PH 7.5, 5 MM DITHIONITE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.31500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.69900 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.31500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 37.69900 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 300 REMARK: THE BIOLOGICAL UNIT CONTAINS AN SF4, SITTING ON THE REMARK 300 CRYSTALLOGRAPHIC TWO-FOLD AXIS 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: 6050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -87.0 KCAL/MOL 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 LYS A 284 REMARK 465 THR A 285 REMARK 465 ALA A 286 REMARK 465 GLU A 287 REMARK 465 GLU A 288 REMARK 465 VAL A 289 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 53 -133.50 -158.54 REMARK 500 VAL A 131 79.27 -117.25 REMARK 500 SER A 176 34.50 -146.27 REMARK 500 THR A 205 -151.91 -109.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 AS-ISOLATED, THE PROTEIN HAS A 4FE:4S CLUSTER (SF4), SITTING ON THE REMARK 600 2-FOLD AXIS 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 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 16 OG REMARK 620 2 ADP A 301 O3B 91.8 REMARK 620 3 HOH A 436 O 175.1 92.6 REMARK 620 4 HOH A 440 O 87.9 94.8 89.4 REMARK 620 5 HOH A 473 O 87.1 177.1 88.6 87.8 REMARK 620 6 HOH A 480 O 91.1 88.7 91.3 176.4 88.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 303 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 97 SG REMARK 620 2 SF4 A 303 S3 123.2 REMARK 620 3 SF4 A 303 S4 103.7 104.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 303 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 132 SG REMARK 620 2 SF4 A 303 S3 104.4 REMARK 620 3 SF4 A 303 S4 128.3 104.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 303 DBREF 6N4L A 1 289 UNP P00459 NIFH1_AZOVI 2 290 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 ASP 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 HET ADP A 301 27 HET MG A 302 1 HET SF4 A 303 4 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM SF4 IRON/SULFUR CLUSTER FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 MG MG 2+ FORMUL 4 SF4 FE4 S4 FORMUL 5 HOH *267(H2 O) HELIX 1 AA1 GLY A 14 MET A 29 1 16 HELIX 2 AA2 THR A 45 HIS A 50 1 6 HELIX 3 AA3 THR A 56 GLY A 65 1 10 HELIX 4 AA4 THR A 66 LEU A 70 5 5 HELIX 5 AA5 GLU A 71 LEU A 76 1 6 HELIX 6 AA6 TYR A 80 GLY A 82 5 3 HELIX 7 AA7 GLY A 99 GLU A 112 1 14 HELIX 8 AA8 CYS A 132 GLU A 141 1 10 HELIX 9 AA9 GLU A 154 TYR A 171 1 18 HELIX 10 AB1 ARG A 191 GLY A 204 1 14 HELIX 11 AB2 ASN A 215 ARG A 223 1 9 HELIX 12 AB3 THR A 226 ASP A 231 1 6 HELIX 13 AB4 ALA A 234 ASN A 250 1 17 HELIX 14 AB5 THR A 260 PHE A 271 1 12 SHEET 1 AA1 8 LYS A 77 ALA A 78 0 SHEET 2 AA1 8 LYS A 84 GLU A 87 -1 O CYS A 85 N LYS A 77 SHEET 3 AA1 8 VAL A 33 CYS A 38 1 N GLY A 37 O VAL A 86 SHEET 4 AA1 8 PHE A 121 VAL A 126 1 O ASP A 125 N CYS A 38 SHEET 5 AA1 8 ARG A 3 TYR A 8 1 N CYS A 5 O VAL A 122 SHEET 6 AA1 8 GLU A 146 CYS A 151 1 O TYR A 148 N ALA A 6 SHEET 7 AA1 8 ARG A 178 ASN A 185 1 O GLY A 180 N ILE A 147 SHEET 8 AA1 8 MET A 207 VAL A 211 1 O VAL A 211 N CYS A 184 LINK OD1 ASP A 278 CA GLY A 283 1555 2555 1.53 LINK OG SER A 16 MG MG A 302 1555 1555 2.06 LINK SG CYS A 97 FE1 SF4 A 303 1555 1555 2.30 LINK SG CYS A 132 FE2 SF4 A 303 1555 1555 2.30 LINK O3B ADP A 301 MG MG A 302 1555 1555 2.05 LINK MG MG A 302 O HOH A 436 1555 1555 2.10 LINK MG MG A 302 O HOH A 440 1555 1555 2.04 LINK MG MG A 302 O HOH A 473 1555 1555 2.13 LINK MG MG A 302 O HOH A 480 1555 1555 2.07 SITE 1 AC1 26 GLY A 12 ILE A 13 GLY A 14 LYS A 15 SITE 2 AC1 26 SER A 16 THR A 17 MET A 156 ASN A 185 SITE 3 AC1 26 VAL A 211 PRO A 212 ARG A 213 ASP A 214 SITE 4 AC1 26 VAL A 217 GLN A 218 GLU A 221 GLN A 236 SITE 5 AC1 26 MET A 274 MG A 302 HOH A 436 HOH A 440 SITE 6 AC1 26 HOH A 452 HOH A 462 HOH A 480 HOH A 493 SITE 7 AC1 26 HOH A 516 HOH A 555 SITE 1 AC2 6 SER A 16 ADP A 301 HOH A 436 HOH A 440 SITE 2 AC2 6 HOH A 473 HOH A 480 SITE 1 AC3 5 GLY A 96 CYS A 97 CYS A 132 GLY A 133 SITE 2 AC3 5 VAL A 282 CRYST1 45.587 74.630 75.398 90.00 90.00 90.00 P 2 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 0.021936 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013399 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013263 0.00000