HEADER SIGNALING PROTEIN, TRANSFERASE 04-JUN-08 2VV7 TITLE BJFIXLH IN UNLIGANDED FERROUS FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: SENSOR PROTEIN FIXL; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: HEME DOMAIN, RESIDUES 151-269; COMPND 5 SYNONYM: BJFIXLH FIXL; COMPND 6 EC: 2.7.13.3, 2.7.3.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRADYRHIZOBIUM JAPONICUM; SOURCE 3 ORGANISM_TAXID: 375; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SIGNALING PROTEIN, TRANSFERASE, PHOSPHOPROTEIN, NITROGEN FIXATION, KEYWDS 2 PER-ARNT-SIM, METAL-BINDING, PAS, FIXL, IRON, HEME, KINASE, TWO- KEYWDS 3 COMPONENT REGULATORY SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR R.A.AYERS,K.MOFFAT REVDAT 7 13-DEC-23 2VV7 1 LINK REVDAT 6 06-FEB-19 2VV7 1 REMARK REVDAT 5 30-JAN-19 2VV7 1 REMARK REVDAT 4 13-JUL-11 2VV7 1 VERSN REVDAT 3 24-FEB-09 2VV7 1 VERSN REVDAT 2 25-NOV-08 2VV7 1 JRNL REVDAT 1 04-NOV-08 2VV7 0 JRNL AUTH R.A.AYERS,K.MOFFAT JRNL TITL CHANGES IN QUATERNARY STRUCTURE IN THE SIGNALING MECHANISMS JRNL TITL 2 OF PAS DOMAINS. JRNL REF BIOCHEMISTRY V. 47 12078 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18942854 JRNL DOI 10.1021/BI801254C REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 40327 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2114 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) : 1.81 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2981 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 152 REMARK 3 BIN FREE R VALUE : 0.3130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3329 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 175 REMARK 3 SOLVENT ATOMS : 332 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.146 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.113 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.177 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3687 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5052 ; 1.985 ; 2.319 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 440 ; 5.980 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;29.186 ;21.807 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 588 ;15.351 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;18.107 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 512 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2870 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1890 ; 0.230 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2538 ; 0.322 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 324 ; 0.159 ; 0.200 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): 49 ; 0.225 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.283 ; 0.200 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): 2128 ; 0.927 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3463 ; 1.454 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1638 ; 2.702 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1580 ; 3.770 ; 4.500 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): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL 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 : 4 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 153 A 257 REMARK 3 ORIGIN FOR THE GROUP (A): 35.0424 12.7299 32.4878 REMARK 3 T TENSOR REMARK 3 T11: -0.0765 T22: -0.2124 REMARK 3 T33: -0.1166 T12: -0.0159 REMARK 3 T13: -0.0258 T23: 0.0166 REMARK 3 L TENSOR REMARK 3 L11: 2.9655 L22: 2.4117 REMARK 3 L33: 6.1846 L12: 0.9188 REMARK 3 L13: 1.1201 L23: 1.8086 REMARK 3 S TENSOR REMARK 3 S11: 0.2899 S12: -0.1827 S13: -0.1707 REMARK 3 S21: 0.1936 S22: -0.1214 S23: -0.0720 REMARK 3 S31: 0.3545 S32: -0.3274 S33: -0.1685 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 151 B 257 REMARK 3 ORIGIN FOR THE GROUP (A): 47.5911 29.5378 23.7840 REMARK 3 T TENSOR REMARK 3 T11: -0.1427 T22: -0.1622 REMARK 3 T33: -0.0602 T12: 0.0308 REMARK 3 T13: 0.0554 T23: 0.0339 REMARK 3 L TENSOR REMARK 3 L11: 3.8566 L22: 4.0716 REMARK 3 L33: 4.2121 L12: -0.2880 REMARK 3 L13: 1.2236 L23: -0.5115 REMARK 3 S TENSOR REMARK 3 S11: 0.0415 S12: 0.2848 S13: -0.0470 REMARK 3 S21: -0.1182 S22: -0.0989 S23: -0.2891 REMARK 3 S31: -0.0318 S32: 0.2351 S33: 0.0575 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 153 C 257 REMARK 3 ORIGIN FOR THE GROUP (A): 43.6643 56.3842 4.6905 REMARK 3 T TENSOR REMARK 3 T11: -0.1666 T22: -0.1426 REMARK 3 T33: -0.1328 T12: 0.0077 REMARK 3 T13: 0.0466 T23: -0.0270 REMARK 3 L TENSOR REMARK 3 L11: 2.8830 L22: 1.9846 REMARK 3 L33: 6.2522 L12: -0.3155 REMARK 3 L13: 2.0956 L23: 0.1111 REMARK 3 S TENSOR REMARK 3 S11: 0.0751 S12: 0.0823 S13: 0.0477 REMARK 3 S21: -0.0163 S22: -0.0882 S23: 0.0715 REMARK 3 S31: -0.0417 S32: -0.0934 S33: 0.0131 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 151 D 257 REMARK 3 ORIGIN FOR THE GROUP (A): 24.7072 47.6835 14.4755 REMARK 3 T TENSOR REMARK 3 T11: -0.1304 T22: -0.1547 REMARK 3 T33: -0.0804 T12: 0.0524 REMARK 3 T13: 0.0883 T23: -0.0178 REMARK 3 L TENSOR REMARK 3 L11: 5.4577 L22: 3.3860 REMARK 3 L33: 4.4057 L12: 1.1832 REMARK 3 L13: 0.9920 L23: -0.3025 REMARK 3 S TENSOR REMARK 3 S11: 0.1268 S12: -0.2697 S13: 0.2524 REMARK 3 S21: 0.1476 S22: -0.0063 S23: 0.1773 REMARK 3 S31: -0.1531 S32: -0.3558 S33: -0.1205 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. REMARK 4 REMARK 4 2VV7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1290036478. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44159 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 38.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1XJ3 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NACL, PEI, CAPSO, PH 9.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 THR A 151 REMARK 465 ILE A 152 REMARK 465 GLU A 258 REMARK 465 HIS A 259 REMARK 465 GLN A 260 REMARK 465 GLN A 261 REMARK 465 THR A 262 REMARK 465 GLN A 263 REMARK 465 ALA A 264 REMARK 465 ARG A 265 REMARK 465 LEU A 266 REMARK 465 GLN A 267 REMARK 465 GLU A 268 REMARK 465 LEU A 269 REMARK 465 HIS B 259 REMARK 465 GLN B 260 REMARK 465 GLN B 261 REMARK 465 THR B 262 REMARK 465 GLN B 263 REMARK 465 ALA B 264 REMARK 465 ARG B 265 REMARK 465 LEU B 266 REMARK 465 GLN B 267 REMARK 465 GLU B 268 REMARK 465 LEU B 269 REMARK 465 THR C 151 REMARK 465 ILE C 152 REMARK 465 HIS C 259 REMARK 465 GLN C 260 REMARK 465 GLN C 261 REMARK 465 THR C 262 REMARK 465 GLN C 263 REMARK 465 ALA C 264 REMARK 465 ARG C 265 REMARK 465 LEU C 266 REMARK 465 GLN C 267 REMARK 465 GLU C 268 REMARK 465 LEU C 269 REMARK 465 HIS D 259 REMARK 465 GLN D 260 REMARK 465 GLN D 261 REMARK 465 THR D 262 REMARK 465 GLN D 263 REMARK 465 ALA D 264 REMARK 465 ARG D 265 REMARK 465 LEU D 266 REMARK 465 GLN D 267 REMARK 465 GLU D 268 REMARK 465 LEU D 269 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU B 258 CA C O CB CG CD OE1 REMARK 470 GLU B 258 OE2 REMARK 470 GLU C 258 CA C O CB CG CD OE1 REMARK 470 GLU C 258 OE2 REMARK 470 GLU D 258 CA C O CB CG CD OE1 REMARK 470 GLU D 258 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 NH2 ARG A 174 O HOH A 2013 2.10 REMARK 500 OD2 ASP A 154 O HOH A 2003 2.17 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 199 NE - CZ - NH1 ANGL. DEV. = 3.4 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 ILE B 218 -59.31 -128.66 REMARK 500 ILE C 218 -51.22 -126.95 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 A2047 DISTANCE = 5.90 ANGSTROMS 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 NA C1259 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 181 O REMARK 620 2 ILE A 184 O 108.1 REMARK 620 3 LEU C 181 O 98.5 134.8 REMARK 620 4 ILE C 184 O 137.4 86.8 97.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A1258 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 200 NE2 REMARK 620 2 HEM A1258 NA 99.3 REMARK 620 3 HEM A1258 NB 97.0 96.2 REMARK 620 4 HEM A1258 NC 94.7 166.0 83.3 REMARK 620 5 HEM A1258 ND 96.0 83.6 166.9 93.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B1258 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 200 NE2 REMARK 620 2 HEM B1258 NA 99.0 REMARK 620 3 HEM B1258 NB 100.6 95.4 REMARK 620 4 HEM B1258 NC 96.5 164.4 83.0 REMARK 620 5 HEM B1258 ND 96.2 82.3 163.2 94.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM C1258 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 200 NE2 REMARK 620 2 HEM C1258 NA 98.0 REMARK 620 3 HEM C1258 NB 94.6 89.6 REMARK 620 4 HEM C1258 NC 100.1 161.8 87.5 REMARK 620 5 HEM C1258 ND 99.2 85.7 166.0 92.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM D1258 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 200 NE2 REMARK 620 2 HEM D1258 NA 100.6 REMARK 620 3 HEM D1258 NB 96.7 89.7 REMARK 620 4 HEM D1258 NC 98.0 161.3 85.8 REMARK 620 5 HEM D1258 ND 102.3 87.1 161.1 91.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A1258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B1258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM C1258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM D1258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA C1259 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1259 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C1260 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DP6 RELATED DB: PDB REMARK 900 OXYGEN-BINDING COMPLEX OF FIXL HEME DOMAIN REMARK 900 RELATED ID: 1LSW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE FERROUS BJFIXL HEME DOMAIN REMARK 900 RELATED ID: 1XJ2 RELATED DB: PDB REMARK 900 CO-BOUND STRUCTURE OF BJFIXLH REMARK 900 RELATED ID: 1LSX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE METHYLIMIDAZOLE-BOUND BJFIXL HEMEDOMAIN REMARK 900 RELATED ID: 1DP9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF IMIDAZOLE-BOUND FIXL HEME DOMAIN REMARK 900 RELATED ID: 1XJ6 RELATED DB: PDB REMARK 900 STRUCTURE OF BJFIXLH IN THE UNLIGANDED FERROUS FORM REMARK 900 RELATED ID: 1DP8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE NITRIC OXIDE BOUND FIXL HEME DOMAIN REMARK 900 RELATED ID: 1LT0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CN-BOUND BJFIXL HEME DOMAIN REMARK 900 RELATED ID: 2CMN RELATED DB: PDB REMARK 900 A PROXIMAL ARGININE RESIDUE IN THE SWITCHING MECHANISM OF THE FIXL REMARK 900 OXYGEN SENSOR REMARK 900 RELATED ID: 1XJ4 RELATED DB: PDB REMARK 900 CO-BOUND STRUCTURE OF BJFIXLH REMARK 900 RELATED ID: 1LSV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CO-BOUND BJFIXL HEME DOMAIN REMARK 900 RELATED ID: 1Y28 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE R220A METBJFIXL HEME DOMAIN REMARK 900 RELATED ID: 1DRM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LIGAND FREE BJFIXL HEME DOMAIN REMARK 900 RELATED ID: 1XJ3 RELATED DB: PDB REMARK 900 BJFIXLH IN UNLIGANDED FERROUS FORM REMARK 900 RELATED ID: 2VV6 RELATED DB: PDB REMARK 900 MOLECULAR MECHANISM OF SIGNAL TRANSDUCTION IN BJFIXL REMARK 900 RELATED ID: 2VV8 RELATED DB: PDB REMARK 900 MOLECULAR MECHANISM OF SIGNAL TRANSDUCTION IN BJFIXL DBREF 2VV7 A 151 269 UNP P23222 FIXL_BRAJA 151 269 DBREF 2VV7 B 151 269 UNP P23222 FIXL_BRAJA 151 269 DBREF 2VV7 C 151 269 UNP P23222 FIXL_BRAJA 151 269 DBREF 2VV7 D 151 269 UNP P23222 FIXL_BRAJA 151 269 SEQRES 1 A 119 THR ILE PRO ASP ALA MET ILE VAL ILE ASP GLY HIS GLY SEQRES 2 A 119 ILE ILE GLN LEU PHE SER THR ALA ALA GLU ARG LEU PHE SEQRES 3 A 119 GLY TRP SER GLU LEU GLU ALA ILE GLY GLN ASN VAL ASN SEQRES 4 A 119 ILE LEU MET PRO GLU PRO ASP ARG SER ARG HIS ASP SER SEQRES 5 A 119 TYR ILE SER ARG TYR ARG THR THR SER ASP PRO HIS ILE SEQRES 6 A 119 ILE GLY ILE GLY ARG ILE VAL THR GLY LYS ARG ARG ASP SEQRES 7 A 119 GLY THR THR PHE PRO MET HIS LEU SER ILE GLY GLU MET SEQRES 8 A 119 GLN SER GLY GLY GLU PRO TYR PHE THR GLY PHE VAL ARG SEQRES 9 A 119 ASP LEU THR GLU HIS GLN GLN THR GLN ALA ARG LEU GLN SEQRES 10 A 119 GLU LEU SEQRES 1 B 119 THR ILE PRO ASP ALA MET ILE VAL ILE ASP GLY HIS GLY SEQRES 2 B 119 ILE ILE GLN LEU PHE SER THR ALA ALA GLU ARG LEU PHE SEQRES 3 B 119 GLY TRP SER GLU LEU GLU ALA ILE GLY GLN ASN VAL ASN SEQRES 4 B 119 ILE LEU MET PRO GLU PRO ASP ARG SER ARG HIS ASP SER SEQRES 5 B 119 TYR ILE SER ARG TYR ARG THR THR SER ASP PRO HIS ILE SEQRES 6 B 119 ILE GLY ILE GLY ARG ILE VAL THR GLY LYS ARG ARG ASP SEQRES 7 B 119 GLY THR THR PHE PRO MET HIS LEU SER ILE GLY GLU MET SEQRES 8 B 119 GLN SER GLY GLY GLU PRO TYR PHE THR GLY PHE VAL ARG SEQRES 9 B 119 ASP LEU THR GLU HIS GLN GLN THR GLN ALA ARG LEU GLN SEQRES 10 B 119 GLU LEU SEQRES 1 C 119 THR ILE PRO ASP ALA MET ILE VAL ILE ASP GLY HIS GLY SEQRES 2 C 119 ILE ILE GLN LEU PHE SER THR ALA ALA GLU ARG LEU PHE SEQRES 3 C 119 GLY TRP SER GLU LEU GLU ALA ILE GLY GLN ASN VAL ASN SEQRES 4 C 119 ILE LEU MET PRO GLU PRO ASP ARG SER ARG HIS ASP SER SEQRES 5 C 119 TYR ILE SER ARG TYR ARG THR THR SER ASP PRO HIS ILE SEQRES 6 C 119 ILE GLY ILE GLY ARG ILE VAL THR GLY LYS ARG ARG ASP SEQRES 7 C 119 GLY THR THR PHE PRO MET HIS LEU SER ILE GLY GLU MET SEQRES 8 C 119 GLN SER GLY GLY GLU PRO TYR PHE THR GLY PHE VAL ARG SEQRES 9 C 119 ASP LEU THR GLU HIS GLN GLN THR GLN ALA ARG LEU GLN SEQRES 10 C 119 GLU LEU SEQRES 1 D 119 THR ILE PRO ASP ALA MET ILE VAL ILE ASP GLY HIS GLY SEQRES 2 D 119 ILE ILE GLN LEU PHE SER THR ALA ALA GLU ARG LEU PHE SEQRES 3 D 119 GLY TRP SER GLU LEU GLU ALA ILE GLY GLN ASN VAL ASN SEQRES 4 D 119 ILE LEU MET PRO GLU PRO ASP ARG SER ARG HIS ASP SER SEQRES 5 D 119 TYR ILE SER ARG TYR ARG THR THR SER ASP PRO HIS ILE SEQRES 6 D 119 ILE GLY ILE GLY ARG ILE VAL THR GLY LYS ARG ARG ASP SEQRES 7 D 119 GLY THR THR PHE PRO MET HIS LEU SER ILE GLY GLU MET SEQRES 8 D 119 GLN SER GLY GLY GLU PRO TYR PHE THR GLY PHE VAL ARG SEQRES 9 D 119 ASP LEU THR GLU HIS GLN GLN THR GLN ALA ARG LEU GLN SEQRES 10 D 119 GLU LEU HET HEM A1258 43 HET CL A1259 1 HET HEM B1258 43 HET HEM C1258 43 HET NA C1259 1 HET CL C1260 1 HET HEM D1258 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN HEM HEME FORMUL 5 HEM 4(C34 H32 FE N4 O4) FORMUL 6 CL 2(CL 1-) FORMUL 9 NA NA 1+ FORMUL 12 HOH *332(H2 O) HELIX 1 1 SER A 169 GLY A 177 1 9 HELIX 2 2 SER A 179 ILE A 184 1 6 HELIX 3 3 VAL A 188 MET A 192 5 5 HELIX 4 4 PRO A 195 SER A 211 1 17 HELIX 5 5 SER B 169 GLY B 177 1 9 HELIX 6 6 SER B 179 ILE B 184 1 6 HELIX 7 7 VAL B 188 MET B 192 5 5 HELIX 8 8 PRO B 195 SER B 211 1 17 HELIX 9 9 SER C 169 GLY C 177 1 9 HELIX 10 10 SER C 179 ILE C 184 1 6 HELIX 11 11 VAL C 188 MET C 192 5 5 HELIX 12 12 PRO C 195 SER C 211 1 17 HELIX 13 13 SER D 169 GLY D 177 1 9 HELIX 14 14 SER D 179 ILE D 184 1 6 HELIX 15 15 VAL D 188 MET D 192 5 5 HELIX 16 16 PRO D 195 SER D 211 1 17 SHEET 1 AA 5 ILE A 165 PHE A 168 0 SHEET 2 AA 5 ALA A 155 ASP A 160 -1 O VAL A 158 N GLN A 166 SHEET 3 AA 5 GLU A 246 ASP A 255 -1 O PHE A 249 N ILE A 159 SHEET 4 AA 5 THR A 231 SER A 243 -1 O HIS A 235 N ARG A 254 SHEET 5 AA 5 ARG A 220 LYS A 225 -1 O ARG A 220 N LEU A 236 SHEET 1 BA 5 ILE B 165 PHE B 168 0 SHEET 2 BA 5 ALA B 155 ASP B 160 -1 O VAL B 158 N GLN B 166 SHEET 3 BA 5 GLU B 246 ASP B 255 -1 O PHE B 249 N ILE B 159 SHEET 4 BA 5 THR B 231 SER B 243 -1 O HIS B 235 N ARG B 254 SHEET 5 BA 5 ARG B 220 LYS B 225 -1 O ARG B 220 N LEU B 236 SHEET 1 CA 5 ILE C 165 PHE C 168 0 SHEET 2 CA 5 ALA C 155 ASP C 160 -1 O VAL C 158 N GLN C 166 SHEET 3 CA 5 GLU C 246 ASP C 255 -1 O PHE C 249 N ILE C 159 SHEET 4 CA 5 THR C 231 SER C 243 -1 O HIS C 235 N ARG C 254 SHEET 5 CA 5 ARG C 220 LYS C 225 -1 O ARG C 220 N LEU C 236 SHEET 1 DA 5 ILE D 165 PHE D 168 0 SHEET 2 DA 5 ALA D 155 ASP D 160 -1 O VAL D 158 N GLN D 166 SHEET 3 DA 5 GLU D 246 ASP D 255 -1 O PHE D 249 N ILE D 159 SHEET 4 DA 5 THR D 231 SER D 243 -1 O HIS D 235 N ARG D 254 SHEET 5 DA 5 ARG D 220 LYS D 225 -1 O ARG D 220 N LEU D 236 LINK O LEU A 181 NA NA C1259 1565 1555 2.06 LINK O ILE A 184 NA NA C1259 1565 1555 2.25 LINK NE2 HIS A 200 FE HEM A1258 1555 1555 2.22 LINK NE2 HIS B 200 FE HEM B1258 1555 1555 2.03 LINK O LEU C 181 NA NA C1259 1555 1555 2.27 LINK O ILE C 184 NA NA C1259 1555 1555 2.36 LINK NE2 HIS C 200 FE HEM C1258 1555 1555 2.05 LINK NE2 HIS D 200 FE HEM D1258 1555 1555 1.98 CISPEP 1 GLU A 194 PRO A 195 0 -0.67 CISPEP 2 GLU B 194 PRO B 195 0 2.32 CISPEP 3 GLU C 194 PRO C 195 0 3.91 CISPEP 4 GLU D 194 PRO D 195 0 1.33 SITE 1 AC1 21 ILE A 157 ILE A 159 LEU A 191 MET A 192 SITE 2 AC1 21 ASP A 196 HIS A 200 TYR A 203 ARG A 206 SITE 3 AC1 21 TYR A 207 HIS A 214 ILE A 215 ILE A 216 SITE 4 AC1 21 ARG A 220 VAL A 222 THR A 223 MET A 234 SITE 5 AC1 21 LEU A 236 ILE A 238 PHE A 249 GLY A 251 SITE 6 AC1 21 HOH A2077 SITE 1 AC2 24 ILE B 157 ILE B 159 LEU B 191 MET B 192 SITE 2 AC2 24 ASP B 196 HIS B 200 TYR B 203 TYR B 207 SITE 3 AC2 24 PRO B 213 HIS B 214 ILE B 215 ILE B 216 SITE 4 AC2 24 ARG B 220 VAL B 222 THR B 223 MET B 234 SITE 5 AC2 24 LEU B 236 ILE B 238 PHE B 249 GLY B 251 SITE 6 AC2 24 HOH B2092 HOH B2093 HOH B2094 HOH B2095 SITE 1 AC3 22 ILE C 157 ILE C 159 LEU C 191 MET C 192 SITE 2 AC3 22 ASP C 196 HIS C 200 TYR C 203 TYR C 207 SITE 3 AC3 22 HIS C 214 ILE C 215 ILE C 216 ARG C 220 SITE 4 AC3 22 VAL C 222 THR C 223 MET C 234 LEU C 236 SITE 5 AC3 22 ILE C 238 PHE C 249 GLY C 251 HOH C2081 SITE 6 AC3 22 HOH C2082 HOH C2083 SITE 1 AC4 20 HOH A2013 ILE D 157 ILE D 159 LEU D 191 SITE 2 AC4 20 MET D 192 ASP D 196 HIS D 200 TYR D 203 SITE 3 AC4 20 PRO D 213 HIS D 214 ILE D 215 ILE D 216 SITE 4 AC4 20 ARG D 220 VAL D 222 THR D 223 MET D 234 SITE 5 AC4 20 LEU D 236 ILE D 238 PHE D 249 GLY D 251 SITE 1 AC5 7 LEU A 181 GLU A 182 ILE A 184 HOH A2017 SITE 2 AC5 7 LEU C 181 GLU C 182 ILE C 184 SITE 1 AC6 6 ILE A 218 GLY A 219 SER A 237 HOH A2050 SITE 2 AC6 6 SER B 243 GLY B 244 SITE 1 AC7 7 ILE C 218 GLY C 219 SER C 237 HOH C2046 SITE 2 AC7 7 SER D 243 GLY D 244 HOH D2069 CRYST1 48.646 49.814 58.760 73.19 71.12 71.74 P 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 0.020557 -0.006783 -0.005739 0.00000 SCALE2 0.000000 0.021139 -0.004518 0.00000 SCALE3 0.000000 0.000000 0.018392 0.00000