HEADER OXIDOREDUCTASE 11-NOV-14 4WWJ TITLE UNDA, AN OXYGEN-ACTIVATING, NON-HEME IRON DEPENDENT TITLE 2 DESATURASE/DECARBOXYLASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TENA/THI-4 FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UNDA, OXYGEN-ACTIVATING NON-HEME IRON DEPENDENT COMPND 5 DESATURASE/DECARBOXYLASE; COMPND 6 EC: 1.-.-.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PROTEGENS PF-5; SOURCE 3 ORGANISM_TAXID: 220664; SOURCE 4 GENE: PFL_4321; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NON-HEME IRON DEPENDENT DESATURASE/DECARBOXYLASE, 1-UNDECENE KEYWDS 2 BIOSYNTHESIS, ALIPHATIC MEDIUM-CHAIN 1-ALKENES BIOSYNTHESIS, KEYWDS 3 METALLOENZYME EXPDTA X-RAY DIFFRACTION AUTHOR X.LI,J.D.H.CATE REVDAT 2 07-JAN-15 4WWJ 1 JRNL REVDAT 1 24-DEC-14 4WWJ 0 JRNL AUTH Z.RUI,X.LI,X.ZHU,J.LIU,B.DOMIGAN,I.BARR,J.H.CATE,W.ZHANG JRNL TITL MICROBIAL BIOSYNTHESIS OF MEDIUM-CHAIN 1-ALKENES BY A JRNL TITL 2 NONHEME IRON OXIDASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 111 18237 2014 JRNL REFN ESSN 1091-6490 JRNL PMID 25489112 JRNL DOI 10.1073/PNAS.1419701112 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 118.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 78154 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) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4120 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5753 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE SET COUNT : 285 REMARK 3 BIN FREE R VALUE : 0.3620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4170 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 95 REMARK 3 SOLVENT ATOMS : 545 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.18000 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): 0.105 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.094 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4389 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4093 ; 0.052 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5954 ; 1.998 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9368 ; 1.034 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 518 ; 5.651 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 216 ;37.081 ;23.148 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 736 ;15.516 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;19.557 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 637 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4911 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1079 ; 0.004 ; 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): 2063 ; 5.772 ; 3.029 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2062 ; 5.761 ; 3.025 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2581 ; 6.546 ; 4.507 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2582 ; 6.551 ; 4.513 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2326 ; 7.233 ; 3.698 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2306 ; 7.140 ; 3.665 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3343 ; 7.703 ; 5.212 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5938 ; 7.865 ;26.759 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5650 ; 7.665 ;25.860 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 8481 ; 6.336 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 145 ;28.621 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 8789 ;15.081 ; 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 : NULL 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 4WWJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000204601. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5-7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.999 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82274 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 118.690 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: PDB ENTRY 3OQL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES, 1.8 M AMMONIUM SULFATE, 0.2 REMARK 280 MM IRON(II) AMMONIUM SULFATE, PH 6.5-7.0, EVAPORATION, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 2 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,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z REMARK 290 7555 -X+1/2,Y+1/2,-Z REMARK 290 8555 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 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 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 70.69000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 109.22000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 70.69000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 109.22000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 70.69000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 109.22000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 70.69000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 109.22000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -163.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -190.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 402 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 434 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 407 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 429 LIES ON A SPECIAL POSITION. 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 GLY A -1 REMARK 465 PRO A 0 REMARK 465 MET A 1 REMARK 465 LEU A 258 REMARK 465 ALA A 259 REMARK 465 GLU A 260 REMARK 465 GLY A 261 REMARK 465 GLY B -1 REMARK 465 PRO B 0 REMARK 465 MET B 1 REMARK 465 LEU B 258 REMARK 465 ALA B 259 REMARK 465 GLU B 260 REMARK 465 GLY B 261 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 O HOH A 505 O HOH A 650 1.66 REMARK 500 NH1 ARG A 96 O3 SO4 A 306 2.02 REMARK 500 O HOH A 547 O HOH A 595 2.03 REMARK 500 O HOH A 619 O HOH A 644 2.05 REMARK 500 NH1 ARG B 96 O2 SO4 B 306 2.07 REMARK 500 O3 SO4 A 307 O HOH A 563 2.10 REMARK 500 O HOH A 545 O HOH A 589 2.10 REMARK 500 O HOH B 496 O HOH B 627 2.13 REMARK 500 OE2 GLU B 159 O2 GOL B 302 2.13 REMARK 500 O HOH B 494 O HOH B 495 2.14 REMARK 500 O HOH A 539 O HOH A 565 2.15 REMARK 500 NZ LYS B 185 O HOH B 401 2.15 REMARK 500 O HOH B 470 O HOH B 614 2.16 REMARK 500 O HOH B 517 O HOH B 632 2.17 REMARK 500 O1 SO4 B 309 O HOH B 491 2.17 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 OE1 GLN B 196 O1 GOL B 305 4555 1.88 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 7 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 45 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 MET A 54 CG - SD - CE ANGL. DEV. = -13.3 DEGREES REMARK 500 ARG A 91 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 113 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 LEU A 147 CA - CB - CG ANGL. DEV. = 21.1 DEGREES REMARK 500 ARG A 186 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 186 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG B 45 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 91 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 186 NE - CZ - NH2 ANGL. DEV. = -3.0 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 THR A 154 -69.76 -106.35 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 FE A 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 101 OE2 REMARK 620 2 HIS A 104 ND1 92.1 REMARK 620 3 HIS A 194 NE2 173.4 89.1 REMARK 620 4 GOL A 302 O1 90.9 100.7 95.3 REMARK 620 5 GOL A 302 O2 90.5 177.4 88.3 78.8 REMARK 620 6 HOH A 667 O 87.0 94.9 86.4 164.3 85.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 101 OE2 REMARK 620 2 HIS B 104 ND1 91.4 REMARK 620 3 HIS B 194 NE2 175.0 91.6 REMARK 620 4 GOL B 302 O2 90.6 170.9 87.1 REMARK 620 5 GOL B 302 O1 90.5 91.0 93.6 80.1 REMARK 620 6 HOH B 491 O 91.2 100.3 84.3 88.5 168.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 310 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4WWZ RELATED DB: PDB REMARK 900 UNDA COMPLEXED WITH 2,3-DODECENOIC ACID REMARK 900 RELATED ID: 4WX0 RELATED DB: PDB REMARK 900 UNDA COMPLEXED WITH BETA-HYDROXYDODECANOIC ACID DBREF 4WWJ A 1 261 UNP Q4K8M0 Q4K8M0_PSEF5 1 261 DBREF 4WWJ B 1 261 UNP Q4K8M0 Q4K8M0_PSEF5 1 261 SEQADV 4WWJ GLY A -1 UNP Q4K8M0 EXPRESSION TAG SEQADV 4WWJ PRO A 0 UNP Q4K8M0 EXPRESSION TAG SEQADV 4WWJ GLY B -1 UNP Q4K8M0 EXPRESSION TAG SEQADV 4WWJ PRO B 0 UNP Q4K8M0 EXPRESSION TAG SEQRES 1 A 263 GLY PRO MET ILE ASP THR PHE SER ARG THR GLY PRO LEU SEQRES 2 A 263 MET GLU ALA ALA SER TYR PRO ALA TRP THR GLN GLN LEU SEQRES 3 A 263 ILE GLN ASP CYS SER GLU SER LYS ARG ARG VAL VAL GLU SEQRES 4 A 263 HIS GLU LEU TYR GLN ARG MET ARG ASP ASN LYS LEU SER SEQRES 5 A 263 ALA LYS VAL MET ARG GLN TYR LEU ILE GLY GLY TRP PRO SEQRES 6 A 263 VAL VAL GLU GLN PHE ALA LEU TYR MET ALA GLN ASN LEU SEQRES 7 A 263 THR LYS THR ARG PHE ALA ARG HIS PRO GLY GLU ASP MET SEQRES 8 A 263 ALA ARG ARG TRP LEU MET ARG ASN ILE ARG VAL GLU LEU SEQRES 9 A 263 ASN HIS ALA ASP TYR TRP VAL HIS TRP SER ARG ALA HIS SEQRES 10 A 263 GLY VAL THR LEU GLU ASP LEU GLN ALA GLN GLN VAL PRO SEQRES 11 A 263 PRO GLU LEU HIS ALA LEU SER HIS TRP CYS TRP HIS THR SEQRES 12 A 263 SER SER ALA ASP SER LEU ILE VAL ALA ILE ALA ALA THR SEQRES 13 A 263 ASN TYR ALA ILE GLU GLY ALA THR GLY GLU TRP SER ALA SEQRES 14 A 263 LEU VAL CYS SER ASN GLY ILE TYR ALA ALA ALA PHE PRO SEQRES 15 A 263 GLU GLU ASP ARG LYS ARG ALA MET LYS TRP LEU LYS MET SEQRES 16 A 263 HIS ALA GLN TYR ASP ASP ALA HIS PRO TRP GLU ALA LEU SEQRES 17 A 263 GLU ILE ILE VAL THR LEU ALA GLY LEU ASN PRO THR LYS SEQRES 18 A 263 ALA LEU GLN ALA GLU LEU ARG GLN ALA ILE CYS LYS SER SEQRES 19 A 263 TYR ASP TYR MET TYR LEU PHE LEU GLU ARG CYS MET GLN SEQRES 20 A 263 GLN GLU LYS THR ALA VAL THR ARG GLU ARG LEU ALA LEU SEQRES 21 A 263 ALA GLU GLY SEQRES 1 B 263 GLY PRO MET ILE ASP THR PHE SER ARG THR GLY PRO LEU SEQRES 2 B 263 MET GLU ALA ALA SER TYR PRO ALA TRP THR GLN GLN LEU SEQRES 3 B 263 ILE GLN ASP CYS SER GLU SER LYS ARG ARG VAL VAL GLU SEQRES 4 B 263 HIS GLU LEU TYR GLN ARG MET ARG ASP ASN LYS LEU SER SEQRES 5 B 263 ALA LYS VAL MET ARG GLN TYR LEU ILE GLY GLY TRP PRO SEQRES 6 B 263 VAL VAL GLU GLN PHE ALA LEU TYR MET ALA GLN ASN LEU SEQRES 7 B 263 THR LYS THR ARG PHE ALA ARG HIS PRO GLY GLU ASP MET SEQRES 8 B 263 ALA ARG ARG TRP LEU MET ARG ASN ILE ARG VAL GLU LEU SEQRES 9 B 263 ASN HIS ALA ASP TYR TRP VAL HIS TRP SER ARG ALA HIS SEQRES 10 B 263 GLY VAL THR LEU GLU ASP LEU GLN ALA GLN GLN VAL PRO SEQRES 11 B 263 PRO GLU LEU HIS ALA LEU SER HIS TRP CYS TRP HIS THR SEQRES 12 B 263 SER SER ALA ASP SER LEU ILE VAL ALA ILE ALA ALA THR SEQRES 13 B 263 ASN TYR ALA ILE GLU GLY ALA THR GLY GLU TRP SER ALA SEQRES 14 B 263 LEU VAL CYS SER ASN GLY ILE TYR ALA ALA ALA PHE PRO SEQRES 15 B 263 GLU GLU ASP ARG LYS ARG ALA MET LYS TRP LEU LYS MET SEQRES 16 B 263 HIS ALA GLN TYR ASP ASP ALA HIS PRO TRP GLU ALA LEU SEQRES 17 B 263 GLU ILE ILE VAL THR LEU ALA GLY LEU ASN PRO THR LYS SEQRES 18 B 263 ALA LEU GLN ALA GLU LEU ARG GLN ALA ILE CYS LYS SER SEQRES 19 B 263 TYR ASP TYR MET TYR LEU PHE LEU GLU ARG CYS MET GLN SEQRES 20 B 263 GLN GLU LYS THR ALA VAL THR ARG GLU ARG LEU ALA LEU SEQRES 21 B 263 ALA GLU GLY HET FE A 301 1 HET GOL A 302 6 HET GOL A 303 6 HET GOL A 304 6 HET GOL A 305 6 HET SO4 A 306 5 HET SO4 A 307 5 HET SO4 A 308 5 HET SO4 A 309 5 HET FE B 301 1 HET GOL B 302 6 HET GOL B 303 6 HET GOL B 304 6 HET GOL B 305 6 HET SO4 B 306 5 HET SO4 B 307 5 HET SO4 B 308 5 HET SO4 B 309 5 HET SO4 B 310 5 HETNAM FE FE (III) ION HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 FE 2(FE 3+) FORMUL 4 GOL 8(C3 H8 O3) FORMUL 8 SO4 9(O4 S 2-) FORMUL 22 HOH *545(H2 O) HELIX 1 AA1 GLU A 13 TYR A 17 5 5 HELIX 2 AA2 PRO A 18 GLU A 37 1 20 HELIX 3 AA3 HIS A 38 ASP A 46 1 9 HELIX 4 AA4 SER A 50 THR A 77 1 28 HELIX 5 AA5 GLY A 86 GLU A 101 1 16 HELIX 6 AA6 ASN A 103 HIS A 115 1 13 HELIX 7 AA7 THR A 118 GLN A 125 1 8 HELIX 8 AA8 PRO A 128 ASP A 145 1 18 HELIX 9 AA9 SER A 146 ASN A 155 1 10 HELIX 10 AB1 TYR A 156 SER A 171 1 16 HELIX 11 AB2 GLY A 173 ALA A 178 1 6 HELIX 12 AB3 PRO A 180 GLN A 196 1 17 HELIX 13 AB4 ASP A 199 GLY A 214 1 16 HELIX 14 AB5 THR A 218 ALA A 257 1 40 HELIX 15 AB6 GLU B 13 TYR B 17 5 5 HELIX 16 AB7 PRO B 18 GLU B 37 1 20 HELIX 17 AB8 HIS B 38 ASP B 46 1 9 HELIX 18 AB9 SER B 50 THR B 77 1 28 HELIX 19 AC1 GLY B 86 GLU B 101 1 16 HELIX 20 AC2 ASN B 103 ALA B 114 1 12 HELIX 21 AC3 THR B 118 GLN B 125 1 8 HELIX 22 AC4 PRO B 128 LEU B 131 5 4 HELIX 23 AC5 HIS B 132 ASP B 145 1 14 HELIX 24 AC6 SER B 146 ASN B 155 1 10 HELIX 25 AC7 TYR B 156 CYS B 170 1 15 HELIX 26 AC8 GLY B 173 PHE B 179 1 7 HELIX 27 AC9 PRO B 180 MET B 188 1 9 HELIX 28 AD1 MET B 188 TYR B 197 1 10 HELIX 29 AD2 ASP B 199 GLY B 214 1 16 HELIX 30 AD3 THR B 218 ALA B 257 1 40 LINK OE2 GLU A 101 FE FE A 301 1555 1555 2.20 LINK ND1 HIS A 104 FE FE A 301 1555 1555 2.24 LINK NE2 HIS A 194 FE FE A 301 1555 1555 2.25 LINK OE2 GLU B 101 FE FE B 301 1555 1555 2.18 LINK ND1 HIS B 104 FE FE B 301 1555 1555 2.19 LINK NE2 HIS B 194 FE FE B 301 1555 1555 2.17 LINK FE FE A 301 O1 GOL A 302 1555 1555 2.05 LINK FE FE A 301 O2 GOL A 302 1555 1555 2.26 LINK FE FE A 301 O HOH A 667 1555 1555 2.11 LINK FE FE B 301 O2 GOL B 302 1555 1555 2.22 LINK FE FE B 301 O1 GOL B 302 1555 1555 2.13 LINK FE FE B 301 O HOH B 491 1555 1555 1.94 SITE 1 AC1 5 GLU A 101 HIS A 104 HIS A 194 GOL A 302 SITE 2 AC1 5 HOH A 667 SITE 1 AC2 10 PHE A 68 GLU A 101 HIS A 104 GLU A 159 SITE 2 AC2 10 THR A 162 HIS A 194 FE A 301 GOL A 304 SITE 3 AC2 10 SO4 A 308 HOH A 667 SITE 1 AC3 7 TYR A 41 TYR A 57 GLY A 61 LEU A 134 SITE 2 AC3 7 MET A 236 PHE A 239 GOL A 304 SITE 1 AC4 8 GLY A 61 VAL A 65 ILE A 158 THR A 162 SITE 2 AC4 8 TRP A 165 MET A 236 GOL A 302 GOL A 303 SITE 1 AC5 3 ARG A 96 ARG A 99 HOH A 442 SITE 1 AC6 6 ARG A 92 ARG A 96 HOH A 526 HOH A 532 SITE 2 AC6 6 HOH A 647 HOH A 694 SITE 1 AC7 6 ARG A 99 ASN A 103 TYR A 107 HOH A 442 SITE 2 AC7 6 HOH A 472 HOH A 563 SITE 1 AC8 9 TRP A 93 ASN A 97 VAL A 100 GLU A 101 SITE 2 AC8 9 GLU A 159 ASP A 198 HIS A 201 GOL A 302 SITE 3 AC8 9 HOH A 561 SITE 1 AC9 5 PRO A 85 GLY A 86 GLU A 87 ASP A 88 SITE 2 AC9 5 MET A 89 SITE 1 AD1 5 GLU B 101 HIS B 104 HIS B 194 GOL B 302 SITE 2 AD1 5 HOH B 491 SITE 1 AD2 9 PHE B 68 GLU B 101 HIS B 104 GLU B 159 SITE 2 AD2 9 HIS B 194 FE B 301 GOL B 304 SO4 B 309 SITE 3 AD2 9 HOH B 491 SITE 1 AD3 7 TYR B 41 TYR B 57 GLY B 61 LEU B 134 SITE 2 AD3 7 MET B 236 PHE B 239 GOL B 304 SITE 1 AD4 8 GLY B 61 VAL B 65 ILE B 158 THR B 162 SITE 2 AD4 8 TRP B 165 MET B 236 GOL B 302 GOL B 303 SITE 1 AD5 9 ARG B 7 THR B 8 PRO B 10 LEU B 11 SITE 2 AD5 9 CYS B 170 ALA B 176 MET B 188 LYS B 192 SITE 3 AD5 9 GLN B 196 SITE 1 AD6 3 ARG B 92 ARG B 96 HOH B 430 SITE 1 AD7 5 ARG B 99 ASN B 103 TYR B 107 HOH B 448 SITE 2 AD7 5 HOH B 494 SITE 1 AD8 3 ARG B 96 ARG B 99 HOH B 415 SITE 1 AD9 8 PHE B 68 ASN B 97 GLU B 101 GLU B 159 SITE 2 AD9 8 HIS B 201 GOL B 302 HOH B 491 HOH B 492 SITE 1 AE1 6 HIS B 84 PRO B 85 GLY B 86 GLU B 87 SITE 2 AE1 6 ASP B 88 MET B 89 CRYST1 141.380 218.440 67.310 90.00 90.00 90.00 C 2 2 2 16 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 0.007073 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004578 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014857 0.00000 MASTER 502 0 19 30 0 0 39 6 0 0 0 42 END