10 20 30 40 50 60 70 80 1CP2 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER OXIDOREDUCTASE 11-MAY-98 1CP2
TITLE NITROGENASE IRON PROTEIN FROM CLOSTRIDIUM PASTEURIANUM
COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROGENASE IRON PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CP2; COMPND 5 EC: 1.18.6.1; COMPND 6 OTHER_DETAILS: COVALENT BRIDGE BETWEEN CYS 94 AND CYS 129 COMPND 7 GAMMA SULFURS AND THE FE'S OF 4FE4S CLUSTER
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM PASTEURIANUM; SOURCE 3 ORGANISM_TAXID: 1501; SOURCE 4 CELL_LINE: W5; SOURCE 5 ATCC: ATCC 6013; SOURCE 6 COLLECTION: ATCC 6013
KEYWDS OXIDOREDUCTASE, NITROGENASE IRON PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR J.L.SCHLESSMAN,D.WOO,L.JOSHUA-TOR,J.B.HOWARD,D.C.REES
REVDAT 5 24-MAR-09 1CP2 1 ATOM CONECT REVDAT 4 24-FEB-09 1CP2 1 VERSN REVDAT 3 30-SEP-03 1CP2 1 DBREF REVDAT 2 18-NOV-98 1CP2 3 SOURCE COMPND REMARK HETATM REVDAT 2 2 3 KEYWDS HEADER CONECT LINK REVDAT 1 04-NOV-98 1CP2 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. 1.93 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 5.00 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) (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 31231 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) : 0.209 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3083 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) : 1.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2808 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE : 0.3850 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 311 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.022 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3940 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 114 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.30 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) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 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) : 0.018 REMARK 3 BOND ANGLES (DEGREES) : 2.00 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.89 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 : CP2_PARAM.PRO REMARK 3 PARAMETER FILE 2 : WATER_PARAM.PRO REMARK 3 PARAMETER FILE 3 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : CP2_TOPH.PRO REMARK 3 TOPOLOGY FILE 2 : WATER_TOPH.PRO REMARK 3 TOPOLOGY FILE 3 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1CP2 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 : NOV-93 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 7.5 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 : GRAPHITE(002) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS IIC REMARK 200 DATA SCALING SOFTWARE : REFSTAT REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36808 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 15.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.07250 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.0 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: PDB ENTRY 1NIP REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN WAS CRYSTALLIZED BY LIQUID- REMARK 280 LIQUID DIFFUSION METHOD. PRECIPITANT CONTAINED 5-15% GLYCEROL, REMARK 280 18.75-22.5% PEG 4000, 230-270 MM CACL2, AND 50 MM HEPES PH REMARK 280 7.5. PROTEIN WAS STORED BEFORE CRYSTALLIZATION IN 20% REMARK 280 GLYCEROL, 50 MM HEPES, PH 7.5, AND 2 MM NA2S2O4., LIQUID - REMARK 280 LIQUID DIFFUSION
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 37.93500 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: 2280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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 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 40 CB CG CD CE NZ REMARK 480 ARG A 45 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 61 CD NE CZ NH1 NH2 REMARK 480 GLU A 65 CG CD OE1 OE2 REMARK 480 ASP A 66 CG OD1 OD2 REMARK 480 ASP A 70 CB CG OD1 OD2 REMARK 480 ASP A 114 CB CG OD1 OD2 REMARK 480 ARG A 137 CB CG CD NE CZ NH1 NH2 REMARK 480 GLU A 151 CB CG CD OE1 OE2 REMARK 480 LYS A 167 CB CG CD CE NZ REMARK 480 LYS A 170 CB CG CD CE NZ REMARK 480 VAL A 186 CB CG1 CG2 REMARK 480 LYS A 198 CB CG CD CE NZ REMARK 480 ARG A 210 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS A 221 CB CG CD CE NZ REMARK 480 LYS A 254 CB CG CD CE NZ REMARK 480 GLU A 259 CB CG CD OE1 OE2 REMARK 480 LYS B 40 CB CG CD CE NZ REMARK 480 ARG B 45 CG CD NE CZ NH1 NH2 REMARK 480 LYS B 54 CD CE NZ REMARK 480 ARG B 61 CB CG CD NE CZ NH1 NH2 REMARK 480 GLU B 62 CB CG CD OE1 OE2 REMARK 480 GLU B 65 CB CG CD OE1 OE2 REMARK 480 ASP B 66 CB CG OD1 OD2 REMARK 480 GLU B 107 CB CG CD OE1 OE2 REMARK 480 GLN B 108 CB CG CD OE1 NE2 REMARK 480 ASP B 114 CB CG OD1 OD2 REMARK 480 LYS B 140 CB CG CD CE NZ REMARK 480 LYS B 167 CB CG CD CE NZ REMARK 480 LYS B 170 CB CG CD CE NZ REMARK 480 LYS B 185 CB CG CD CE NZ REMARK 480 GLU B 191 CB CG CD OE1 OE2 REMARK 480 THR B 215 CB OG1 CG2 REMARK 480 GLU B 218 CB CG CD OE1 OE2 REMARK 480 ILE B 219 CB CG1 CG2 CD1 REMARK 480 ASN B 220 CB CG OD1 ND2 REMARK 480 LYS B 221 CB CG CD CE NZ REMARK 480 GLU B 232 CB CG CD OE1 OE2 REMARK 480 GLN B 258 CB CG CD OE1 NE2 REMARK 480 GLU B 259 CB CG CD OE1 OE2
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 CD2 LEU A 124 O HOH A 330 1.18 REMARK 500 NZ LYS A 40 O HOH A 312 1.23 REMARK 500 O HOH B 301 O HOH B 345 1.50 REMARK 500 FE4 SF4 B 290 O HOH B 346 1.56 REMARK 500 FE3 SF4 B 290 O HOH B 346 1.58 REMARK 500 FE1 SF4 B 290 O HOH B 346 1.62 REMARK 500 CB LYS A 14 O HOH A 331 1.89 REMARK 500 CE LYS A 14 O HOH A 331 2.11 REMARK 500 O GLU A 63 OD1 ASP A 66 2.14 REMARK 500 S2 SF4 B 290 O HOH B 346 2.15 REMARK 500 CE LYS A 40 O HOH A 312 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CE LYS A 170 CE MET B 266 1554 1.45 REMARK 500 NZ LYS A 170 CE MET B 266 1554 1.98 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 45 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 61 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 MET A 134 CG - SD - CE ANGL. DEV. = 10.6 DEGREES REMARK 500 ARG A 137 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 210 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ILE A 252 N - CA - C ANGL. DEV. = -17.5 DEGREES REMARK 500 ARG B 45 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG B 61 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 CYS B 231 CA - CB - SG ANGL. DEV. = 8.3 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 ASP A 66 30.93 -98.07 REMARK 500 ASP A 70 -12.15 -47.61 REMARK 500 ASP A 114 1.00 -52.94 REMARK 500 LYS A 170 -78.55 157.77 REMARK 500 GLU A 189 34.91 -89.46 REMARK 500 SER A 202 -154.51 -111.08 REMARK 500 HIS A 206 142.07 -171.29 REMARK 500 ASP A 228 81.87 -170.07 REMARK 500 PRO A 255 161.47 -46.30 REMARK 500 LEU B 48 42.43 -87.40 REMARK 500 GLU B 62 -96.82 -68.26 REMARK 500 GLU B 63 -0.28 -44.72 REMARK 500 ASP B 66 61.94 -65.64 REMARK 500 VAL B 92 -53.30 -132.86 REMARK 500 LYS B 140 -38.50 -28.19 REMARK 500 SER B 171 -15.24 162.02 REMARK 500 SER B 202 -150.08 -113.24 REMARK 500 LYS B 221 48.11 71.51 REMARK 500 TYR B 227 -100.67 -61.90 REMARK 500 CYS B 231 143.54 166.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 145 0.08 SIDE_CHAIN REMARK 500 ARG A 210 0.30 SIDE_CHAIN 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 THR B 230 45.9 L L OUTSIDE RANGE REMARK 500 TYR B 268 23.1 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: FES REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: THE FS4 IS COVALENTLY BONDED THROUGH ITS FE REMARK 800 ATOMS TO THE GAMMA SULFURS OF CYS 94 AND CYS 129 OF EACH REMARK 800 SUBUNIT. REMARK 800 SITE_IDENTIFIER: WMA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: WALKER A MOTIF REMARK 800 SITE_IDENTIFIER: WMB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: WALKER B MOTIF REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 B 290
DBREF 1CP2 A 1 269 UNP P00456 NIFH1_CLOPA 1 269 DBREF 1CP2 B 1 269 UNP P00456 NIFH1_CLOPA 1 269
SEQRES 1 A 269 MET ARG GLN VAL ALA ILE TYR GLY LYS GLY GLY ILE GLY SEQRES 2 A 269 LYS SER THR THR THR GLN ASN LEU THR SER GLY LEU HIS SEQRES 3 A 269 ALA MET GLY LYS THR ILE MET VAL VAL GLY CYS ASP PRO SEQRES 4 A 269 LYS ALA ASP SER THR ARG LEU LEU LEU GLY GLY LEU ALA SEQRES 5 A 269 GLN LYS SER VAL LEU ASP THR LEU ARG GLU GLU GLY GLU SEQRES 6 A 269 ASP VAL GLU LEU ASP SER ILE LEU LYS GLU GLY TYR GLY SEQRES 7 A 269 GLY ILE ARG CYS VAL GLU SER GLY GLY PRO GLU PRO GLY SEQRES 8 A 269 VAL GLY CYS ALA GLY ARG GLY ILE ILE THR SER ILE ASN SEQRES 9 A 269 MET LEU GLU GLN LEU GLY ALA TYR THR ASP ASP LEU ASP SEQRES 10 A 269 TYR VAL PHE TYR ASP VAL LEU GLY ASP VAL VAL CYS GLY SEQRES 11 A 269 GLY PHE ALA MET PRO ILE ARG GLU GLY LYS ALA GLN GLU SEQRES 12 A 269 ILE TYR ILE VAL ALA SER GLY GLU MET MET ALA LEU TYR SEQRES 13 A 269 ALA ALA ASN ASN ILE SER LYS GLY ILE GLN LYS TYR ALA SEQRES 14 A 269 LYS SER GLY GLY VAL ARG LEU GLY GLY ILE ILE CYS ASN SEQRES 15 A 269 SER ARG LYS VAL ALA ASN GLU TYR GLU LEU LEU ASP ALA SEQRES 16 A 269 PHE ALA LYS GLU LEU GLY SER GLN LEU ILE HIS PHE VAL SEQRES 17 A 269 PRO ARG SER PRO MET VAL THR LYS ALA GLU ILE ASN LYS SEQRES 18 A 269 GLN THR VAL ILE GLU TYR ASP PRO THR CYS GLU GLN ALA SEQRES 19 A 269 GLU GLU TYR ARG GLU LEU ALA ARG LYS VAL ASP ALA ASN SEQRES 20 A 269 GLU LEU PHE VAL ILE PRO LYS PRO MET THR GLN GLU ARG SEQRES 21 A 269 LEU GLU GLU ILE LEU MET GLN TYR GLY SEQRES 1 B 269 MET ARG GLN VAL ALA ILE TYR GLY LYS GLY GLY ILE GLY SEQRES 2 B 269 LYS SER THR THR THR GLN ASN LEU THR SER GLY LEU HIS SEQRES 3 B 269 ALA MET GLY LYS THR ILE MET VAL VAL GLY CYS ASP PRO SEQRES 4 B 269 LYS ALA ASP SER THR ARG LEU LEU LEU GLY GLY LEU ALA SEQRES 5 B 269 GLN LYS SER VAL LEU ASP THR LEU ARG GLU GLU GLY GLU SEQRES 6 B 269 ASP VAL GLU LEU ASP SER ILE LEU LYS GLU GLY TYR GLY SEQRES 7 B 269 GLY ILE ARG CYS VAL GLU SER GLY GLY PRO GLU PRO GLY SEQRES 8 B 269 VAL GLY CYS ALA GLY ARG GLY ILE ILE THR SER ILE ASN SEQRES 9 B 269 MET LEU GLU GLN LEU GLY ALA TYR THR ASP ASP LEU ASP SEQRES 10 B 269 TYR VAL PHE TYR ASP VAL LEU GLY ASP VAL VAL CYS GLY SEQRES 11 B 269 GLY PHE ALA MET PRO ILE ARG GLU GLY LYS ALA GLN GLU SEQRES 12 B 269 ILE TYR ILE VAL ALA SER GLY GLU MET MET ALA LEU TYR SEQRES 13 B 269 ALA ALA ASN ASN ILE SER LYS GLY ILE GLN LYS TYR ALA SEQRES 14 B 269 LYS SER GLY GLY VAL ARG LEU GLY GLY ILE ILE CYS ASN SEQRES 15 B 269 SER ARG LYS VAL ALA ASN GLU TYR GLU LEU LEU ASP ALA SEQRES 16 B 269 PHE ALA LYS GLU LEU GLY SER GLN LEU ILE HIS PHE VAL SEQRES 17 B 269 PRO ARG SER PRO MET VAL THR LYS ALA GLU ILE ASN LYS SEQRES 18 B 269 GLN THR VAL ILE GLU TYR ASP PRO THR CYS GLU GLN ALA SEQRES 19 B 269 GLU GLU TYR ARG GLU LEU ALA ARG LYS VAL ASP ALA ASN SEQRES 20 B 269 GLU LEU PHE VAL ILE PRO LYS PRO MET THR GLN GLU ARG SEQRES 21 B 269 LEU GLU GLU ILE LEU MET GLN TYR GLY
HET SF4 B 290 8
HETNAM SF4 IRON/SULFUR CLUSTER
FORMUL 3 SF4 FE4 S4 FORMUL 4 HOH *118(H2 O)
HELIX 1 1 LYS A 14 MET A 28 1 15 HELIX 2 2 ARG A 45 LEU A 48 1 4 HELIX 3 3 VAL A 56 ASP A 66 1 11 HELIX 4 4 LEU A 69 ILE A 72 1 4 HELIX 5 5 TYR A 77 GLY A 79 5 3 HELIX 6 6 ALA A 95 GLN A 108 1 14 HELIX 7 7 MET A 134 ARG A 137 1 4 HELIX 8 8 MET A 152 TYR A 168 1 17 HELIX 9 9 TYR A 190 GLU A 199 1 10 HELIX 10 10 PRO A 212 ILE A 219 1 8 HELIX 11 11 VAL A 224 TYR A 227 1 4 HELIX 12 12 GLU A 232 ALA A 246 1 15 HELIX 13 13 GLN A 258 GLN A 267 1 10 HELIX 14 14 LYS B 14 MET B 28 1 15 HELIX 15 15 VAL B 56 GLU B 63 1 8 HELIX 16 16 LEU B 69 ILE B 72 1 4 HELIX 17 17 TYR B 77 GLY B 79 5 3 HELIX 18 18 ALA B 95 GLN B 108 1 14 HELIX 19 19 PHE B 132 ARG B 137 5 6 HELIX 20 20 MET B 152 ALA B 169 1 18 HELIX 21 21 GLU B 189 GLU B 199 1 11 HELIX 22 22 PRO B 212 ASN B 220 1 9 HELIX 23 23 GLU B 232 ASP B 245 1 14 HELIX 24 24 GLN B 258 GLN B 267 1 10
SHEET 1 A 7 LEU A 204 VAL A 208 0 SHEET 2 A 7 ARG A 175 ASN A 182 1 N ILE A 179 O ILE A 205 SHEET 3 A 7 GLU A 143 ALA A 148 1 N ILE A 144 O ARG A 175 SHEET 4 A 7 ARG A 2 GLY A 8 1 N ALA A 5 O GLU A 143 SHEET 5 A 7 TYR A 118 LEU A 124 1 N VAL A 119 O ARG A 2 SHEET 6 A 7 ILE A 32 CYS A 37 1 N MET A 33 O TYR A 118 SHEET 7 A 7 ARG A 81 GLU A 84 1 N ARG A 81 O VAL A 34 SHEET 1 B 7 LEU B 204 VAL B 208 0 SHEET 2 B 7 ARG B 175 ASN B 182 1 N ILE B 179 O ILE B 205 SHEET 3 B 7 GLU B 143 ALA B 148 1 N ILE B 144 O ARG B 175 SHEET 4 B 7 ARG B 2 GLY B 8 1 N ALA B 5 O GLU B 143 SHEET 5 B 7 TYR B 118 LEU B 124 1 N VAL B 119 O ARG B 2 SHEET 6 B 7 ILE B 32 CYS B 37 1 N MET B 33 O TYR B 118 SHEET 7 B 7 ARG B 81 GLU B 84 1 N ARG B 81 O VAL B 34
LINK FE1 SF4 B 290 SG CYS B 94 1555 1555 2.32 LINK FE2 SF4 B 290 SG CYS A 129 1555 1555 2.30 LINK FE2 SF4 B 290 O HOH B 346 1555 1555 1.70 LINK FE3 SF4 B 290 SG CYS A 94 1555 1555 2.26 LINK FE4 SF4 B 290 SG CYS B 129 1555 1555 2.31
SITE 1 FES 4 CYS A 94 CYS A 129 CYS B 94 CYS B 129 SITE 1 WMA 16 GLY A 8 LYS A 9 GLY A 10 GLY A 11 SITE 2 WMA 16 ILE A 12 GLY A 13 LYS A 14 SER A 15 SITE 3 WMA 16 GLY B 8 LYS B 9 GLY B 10 GLY B 11 SITE 4 WMA 16 ILE B 12 GLY B 13 LYS B 14 SER B 15 SITE 1 WMB 2 ASP A 122 ASP B 122 SITE 1 AC1 8 CYS A 94 CYS A 129 GLY A 131 CYS B 94 SITE 2 AC1 8 ALA B 95 CYS B 129 GLY B 131 HOH B 346
CRYST1 67.600 75.870 53.550 90.00 114.17 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 0.014793 0.000000 0.006639 0.00000
SCALE2 0.000000 0.013180 0.000000 0.00000
SCALE3 0.000000 0.000000 0.020469 0.00000