10 20 30 40 50 60 70 80 2NIP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER IRON PROTEIN 11-MAY-98 2NIP
TITLE NITROGENASE IRON PROTEIN FROM AZOTOBACTER VINELANDII
COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROGENASE IRON PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.18.6.1
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AZOTOBACTER VINELANDII; SOURCE 3 ORGANISM_TAXID: 354; SOURCE 4 STRAIN: OP; SOURCE 5 ATCC: ATCC 13705; SOURCE 6 COLLECTION: ATCC 13705
KEYWDS IRON PROTEIN, OXIDOREDUCTASE
EXPDTA X-RAY DIFFRACTION
AUTHOR H.KOMIYA,M.M.GEORGIADIS,P.CHAKRABARTI,D.WOO,J.J.KORNUC, AUTHOR 2 D.C.REES
REVDAT 3 24-MAR-09 2NIP 1 ATOM CONECT REVDAT 2 24-FEB-09 2NIP 1 VERSN REVDAT 1 11-NOV-98 2NIP 0
JRNL AUTH J.L.SCHLESSMAN,D.WOO,L.JOSHUA-TOR,J.B.HOWARD, JRNL AUTH 2 D.C.REES JRNL TITL CONFORMATIONAL VARIABILITY IN STRUCTURES OF THE JRNL TITL 2 NITROGENASE IRON PROTEINS FROM AZOTOBACTER JRNL TITL 3 VINELANDII AND CLOSTRIDIUM PASTEURIANUM. JRNL REF J.MOL.BIOL. V. 280 669 1998 JRNL REFN ISSN 0022-2836 JRNL PMID 9677296 JRNL DOI 10.1006/JMBI.1998.1898
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0010 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.9 REMARK 3 NUMBER OF REFLECTIONS : 29180 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) : 0.223 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1737 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.28 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2747 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE : 0.3360 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 185 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.025 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4356 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 376 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -19.79000 REMARK 3 B22 (A**2) : -4.98000 REMARK 3 B33 (A**2) : -11.26000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : 50.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 1.90 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.64 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.400 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.640 ; 2.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.620 ; 2.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.180 ; 3.000 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 : AV2_PARAM.PRO REMARK 3 PARAMETER FILE 2 : PARHCSDX_JPJ.PRO REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : AV2_TOPH.PRO REMARK 3 TOPOLOGY FILE 2 : TOPHCSDX_JPJ.PRO REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2NIP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : MAR-95 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.08 REMARK 200 MONOCHROMATOR : SI(111) 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 : 29060 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.130 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : 0.08500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.30900 REMARK 200 R SYM FOR SHELL (I) : 0.30900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL 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 (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN WAS CRYSTALLIZED BY LIQUID- REMARK 280 LIQUID DIFFUSION METHOD, USING 25-30% PEG 4000, 140-200 MM REMARK 280 NA2MOO4, 100 MM TRIS-CL, PH 8.0; PROTEIN WAS HELD IN A BUFFER REMARK 280 OF 20% GLYCEROL, 50 MM TRIS-CL, PH 8.0, 450 MM NACL, AND 2 MM REMARK 280 NA2S2O4 PRIOR TO CRYSTALLIZATION., LIQUID-LIQUID DIFFUSION
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 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 36.56000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.60500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.26500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.60500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.56000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.26500 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 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: 3770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 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 GLU A 287 REMARK 465 GLU A 288 REMARK 465 VAL A 289
REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 THR A 285 REMARK 475 ALA A 286
REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 32 CD CE NZ REMARK 480 LYS A 52 CD CE NZ REMARK 480 GLU A 63 CD OE1 OE2 REMARK 480 LYS A 233 CD CE NZ REMARK 480 ARG A 245 CG CD NE CZ NH1 NH2 REMARK 480 ASP A 278 CG OD1 OD2 REMARK 480 ILE A 281 CG1 CG2 CD1 REMARK 480 LYS A 284 CG CD CE NZ REMARK 480 LYS B 41 CG CD CE NZ REMARK 480 VAL B 67 CB CG1 CG2 REMARK 480 LEU B 70 CB CG CD1 CD2 REMARK 480 GLU B 71 CB CG CD OE1 OE2 REMARK 480 GLU B 73 CB CG CD OE1 OE2 REMARK 480 ASP B 74 CB CG OD1 OD2 REMARK 480 LYS B 77 CG CD CE NZ REMARK 480 LYS B 84 CE NZ REMARK 480 ARG B 100 CB CG CD NE CZ NH1 NH2
REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CG2 THR A 285 SD MET B 225 1.69 REMARK 500 O ASP A 118 O HOH A 322 1.77 REMARK 500 OG1 THR A 285 CD1 TYR B 230 2.05 REMARK 500 REMARK 500 REMARK: NULL 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 CYS A 97 CB CYS A 97 SG -0.140 REMARK 500 CYS A 132 CB CYS A 132 SG 0.224 REMARK 500 CYS B 97 CB CYS B 97 SG -0.124 REMARK 500 CYS B 132 CB CYS B 132 SG -0.173 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 ASP B 69 O - C - N ANGL. DEV. = -14.4 DEGREES REMARK 500 LEU B 72 CB - CA - C ANGL. DEV. = -17.4 DEGREES REMARK 500 GLU B 73 N - CA - C ANGL. DEV. = -23.0 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 ALA A 42 74.64 61.62 REMARK 500 LYS A 52 -70.84 -63.24 REMARK 500 GLU A 63 -73.00 -88.72 REMARK 500 ASP A 118 77.77 60.14 REMARK 500 ALA A 172 -72.72 -42.76 REMARK 500 THR A 205 -159.20 -140.73 REMARK 500 HIS A 209 146.81 179.24 REMARK 500 ILE A 273 -70.81 -97.17 REMARK 500 GLU A 277 105.80 -59.77 REMARK 500 GLU A 279 -40.04 -137.85 REMARK 500 THR A 285 178.04 -54.36 REMARK 500 ALA B 42 68.05 67.03 REMARK 500 VAL B 67 -66.41 -6.89 REMARK 500 ASP B 69 71.36 -171.11 REMARK 500 LEU B 70 72.53 -177.22 REMARK 500 GLU B 71 166.25 -33.38 REMARK 500 GLU B 73 -49.97 -147.46 REMARK 500 PRO B 93 107.51 -48.82 REMARK 500 THR B 104 -76.42 -64.76 REMARK 500 ASP B 118 79.67 41.72 REMARK 500 LYS B 170 -37.52 -36.85 REMARK 500 ASN B 188 42.86 70.50 REMARK 500 THR B 205 -150.62 -134.51 REMARK 500 ASN B 215 -3.67 -54.43 REMARK 500 LEU B 252 89.99 -69.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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: (11X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLU B 73 50.4 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 425 DISTANCE = 5.49 ANGSTROMS REMARK 525 HOH B 432 DISTANCE = 9.28 ANGSTROMS REMARK 525 HOH A 439 DISTANCE = 6.05 ANGSTROMS REMARK 525 HOH A 445 DISTANCE = 7.25 ANGSTROMS REMARK 525 HOH A 446 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH A 461 DISTANCE = 5.18 ANGSTROMS
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: FS4 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: 4FE4S CLUSTER CYS LIGANDS REMARK 800 SITE_IDENTIFIER: WMA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NUCLEOTIDE BINDING SITE, WALKER MOTIF A REMARK 800 SITE_IDENTIFIER: WMB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NUCLEOTIDE BINDING SITE, WALKER MOTIF B REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 A 290
DBREF 2NIP A 1 289 UNP P00459 NIFH1_AZOVI 1 289 DBREF 2NIP B 1 289 UNP P00459 NIFH1_AZOVI 1 289
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 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 ASP 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 FORMUL 4 HOH *372(H2 O)
HELIX 1 1 LYS A 15 GLU A 28 1 14 HELIX 2 2 ARG A 46 LEU A 49 1 4 HELIX 3 3 ILE A 57 ALA A 61 1 5 HELIX 4 4 LEU A 72 VAL A 75 1 4 HELIX 5 5 TYR A 80 GLY A 82 5 3 HELIX 6 6 ARG A 100 GLU A 111 5 12 HELIX 7 7 ALA A 114 GLU A 116 5 3 HELIX 8 8 GLY A 133 ARG A 140 1 8 HELIX 9 9 MET A 155 LYS A 170 1 16 HELIX 10 10 ALA A 172 SER A 174 5 3 HELIX 11 11 GLU A 192 LEU A 203 1 12 HELIX 12 12 ASN A 215 ARG A 223 1 9 HELIX 13 13 VAL A 227 TYR A 230 1 4 HELIX 14 14 LYS A 235 ASP A 249 1 15 HELIX 15 15 MET A 261 GLU A 270 1 10 HELIX 16 16 LYS B 15 MET B 29 1 15 HELIX 17 17 ARG B 46 LEU B 49 1 4 HELIX 18 18 MET B 58 MET B 60 5 3 HELIX 19 19 TYR B 80 GLY B 82 5 3 HELIX 20 20 ALA B 98 GLU B 111 5 14 HELIX 21 21 MET B 137 ARG B 140 1 4 HELIX 22 22 MET B 155 TYR B 171 1 17 HELIX 23 23 GLU B 192 LEU B 203 1 12 HELIX 24 24 ASN B 215 ILE B 222 1 8 HELIX 25 25 VAL B 227 TYR B 230 1 4 HELIX 26 26 LYS B 235 VAL B 248 1 14 HELIX 27 27 MET B 261 GLU B 270 1 10
SHEET 1 A 7 MET A 207 VAL A 211 0 SHEET 2 A 7 ARG A 178 ASN A 185 1 N LEU A 182 O ILE A 208 SHEET 3 A 7 GLU A 146 CYS A 151 1 N ILE A 147 O ARG A 178 SHEET 4 A 7 ARG A 3 GLY A 9 1 N ALA A 6 O GLU A 146 SHEET 5 A 7 PHE A 121 LEU A 127 1 N VAL A 122 O ARG A 3 SHEET 6 A 7 VAL A 33 GLY A 37 1 N MET A 34 O PHE A 121 SHEET 7 A 7 LYS A 84 GLU A 87 1 N LYS A 84 O ILE A 35 SHEET 1 B 7 MET B 207 VAL B 211 0 SHEET 2 B 7 ARG B 178 ASN B 185 1 N LEU B 182 O ILE B 208 SHEET 3 B 7 GLU B 146 CYS B 151 1 N ILE B 147 O ARG B 178 SHEET 4 B 7 ARG B 3 GLY B 9 1 N ALA B 6 O GLU B 146 SHEET 5 B 7 PHE B 121 LEU B 127 1 N VAL B 122 O ARG B 3 SHEET 6 B 7 VAL B 33 GLY B 37 1 N MET B 34 O PHE B 121 SHEET 7 B 7 LYS B 84 GLU B 87 1 N LYS B 84 O ILE B 35
LINK FE1 SF4 A 290 SG CYS B 97 1555 1555 2.15 LINK FE2 SF4 A 290 SG CYS A 132 1555 1555 2.35 LINK FE3 SF4 A 290 SG CYS A 97 1555 1555 2.12 LINK FE4 SF4 A 290 SG CYS B 132 1555 1555 2.34
SITE 1 FS4 4 CYS A 97 CYS A 132 CYS B 97 CYS B 132 SITE 1 WMA 16 GLY A 9 LYS A 10 GLY A 11 GLY A 12 SITE 2 WMA 16 ILE A 13 GLY A 14 LYS A 15 SER A 16 SITE 3 WMA 16 GLY B 9 LYS B 10 GLY B 11 GLY B 12 SITE 4 WMA 16 ILE B 13 GLY B 14 LYS B 15 SER B 16 SITE 1 WMB 2 ASP A 125 ASP B 125 SITE 1 AC1 10 CYS A 97 CYS A 132 GLY A 133 PHE A 135 SITE 2 AC1 10 CYS B 97 ALA B 98 GLY B 99 CYS B 132 SITE 3 AC1 10 GLY B 134 PHE B 135
CRYST1 73.120 90.530 91.210 90.00 90.00 90.00 P 21 21 21 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 0.013676 0.000000 0.000000 0.00000
SCALE2 0.000000 0.011046 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010964 0.00000