HEADER METAL BINDING PROTEIN 23-OCT-17 6BDJ TITLE CRYSTAL STRUCTURE OF DIOXYGENASE TETUR07G02040 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TETUR07G02040; COMPND 3 CHAIN: A, U; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TETRANYCHUS URTICAE; SOURCE 3 ORGANISM_COMMON: TWO-SPOTTED SPIDER MITE; SOURCE 4 ORGANISM_TAXID: 32264; SOURCE 5 GENE: 107361576; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS DIOXYGENASE, TWO-SPOTTED SPIDER MITE, AGRICULTURAL PEST, KEYWDS 2 DETOXIFICATION, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.DANESHIAN,C.R.SCHLACHTER,M.CHRUSZCZ REVDAT 2 29-MAY-19 6BDJ 1 JRNL REVDAT 1 14-NOV-18 6BDJ 0 JRNL AUTH C.R.SCHLACHTER,L.DANESHIAN,J.AMAYA,V.KLAPPER,N.WYBOUW, JRNL AUTH 2 T.BOROWSKI,T.VAN LEEUWEN,V.GRBIC,M.GRBIC,T.M.MAKRIS, JRNL AUTH 3 M.CHRUSZCZ JRNL TITL STRUCTURAL AND FUNCTIONAL CHARACTERIZATION OF AN INTRADIOL JRNL TITL 2 RING-CLEAVAGE DIOXYGENASE FROM THE POLYPHAGOUS SPIDER MITE JRNL TITL 3 HERBIVORE TETRANYCHUS URTICAE KOCH. JRNL REF INSECT BIOCHEM.MOL.BIOL. V. 107 19 2019 JRNL REFN ISSN 0965-1748 JRNL PMID 30529144 JRNL DOI 10.1016/J.IBMB.2018.12.001 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 22883 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1095 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1321 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 76.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.2660 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.2860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3153 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 87 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.23000 REMARK 3 B22 (A**2) : 5.61000 REMARK 3 B33 (A**2) : -2.26000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.60000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.274 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.208 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 : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3263 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2845 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4441 ; 1.588 ; 1.940 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6591 ; 3.838 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 401 ; 6.687 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 162 ;37.401 ;23.765 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 498 ;13.040 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;13.491 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 475 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3687 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 691 ; 0.009 ; 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): 1613 ; 1.892 ; 4.235 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1612 ; 1.893 ; 4.235 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2011 ; 3.109 ; 6.337 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2012 ; 3.109 ; 6.338 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1650 ; 1.771 ; 4.297 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1651 ; 1.770 ; 4.298 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2431 ; 2.922 ; 6.402 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3565 ; 5.624 ;49.103 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3553 ; 5.614 ;48.968 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 56 259 U 56 259 12418 0.11 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 56 A 259 REMARK 3 ORIGIN FOR THE GROUP (A): 47.7910 12.6450 21.4470 REMARK 3 T TENSOR REMARK 3 T11: 0.1269 T22: 0.2641 REMARK 3 T33: 0.0895 T12: -0.1104 REMARK 3 T13: 0.0755 T23: -0.0002 REMARK 3 L TENSOR REMARK 3 L11: 7.5288 L22: 1.4284 REMARK 3 L33: 2.2096 L12: 1.8373 REMARK 3 L13: -2.0020 L23: -1.4903 REMARK 3 S TENSOR REMARK 3 S11: 0.6228 S12: 0.1488 S13: 0.5110 REMARK 3 S21: 0.3285 S22: -0.4277 S23: 0.0706 REMARK 3 S31: -0.3863 S32: 0.4633 S33: -0.1950 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 : U 55 U 259 REMARK 3 ORIGIN FOR THE GROUP (A): 17.3030 0.5380 23.8530 REMARK 3 T TENSOR REMARK 3 T11: 0.0107 T22: 0.3335 REMARK 3 T33: 0.0849 T12: -0.0079 REMARK 3 T13: 0.0180 T23: -0.0256 REMARK 3 L TENSOR REMARK 3 L11: 4.7209 L22: 1.1615 REMARK 3 L33: 4.8445 L12: 0.7513 REMARK 3 L13: -1.8969 L23: -1.2235 REMARK 3 S TENSOR REMARK 3 S11: 0.0968 S12: 0.9078 S13: -0.0624 REMARK 3 S21: 0.0204 S22: 0.2698 S23: 0.1924 REMARK 3 S31: -0.0782 S32: -0.7975 S33: -0.3667 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 6BDJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1000230529. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-AUG-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24133 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : 0.05600 REMARK 200 FOR THE DATA SET : 32.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.25200 REMARK 200 R SYM FOR SHELL (I) : 0.25200 REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LISO4, 0.1 M HEPES PH 7.5, REMARK 280 10%W/V PEG3350, 10 MM CATECHOL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -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 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 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: U 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 ASN A 23 REMARK 465 SER A 24 REMARK 465 CYS A 25 REMARK 465 ALA A 26 REMARK 465 SER A 27 REMARK 465 LYS A 28 REMARK 465 GLU A 29 REMARK 465 GLU A 30 REMARK 465 VAL A 31 REMARK 465 VAL A 32 REMARK 465 PRO A 33 REMARK 465 SER A 34 REMARK 465 PRO A 35 REMARK 465 GLU A 36 REMARK 465 GLU A 37 REMARK 465 GLY A 38 REMARK 465 GLN A 39 REMARK 465 CYS A 40 REMARK 465 SER A 41 REMARK 465 GLN A 42 REMARK 465 GLU A 43 REMARK 465 SER A 44 REMARK 465 VAL A 45 REMARK 465 LYS A 46 REMARK 465 GLN A 47 REMARK 465 SER A 48 REMARK 465 PHE A 49 REMARK 465 VAL A 50 REMARK 465 THR A 51 REMARK 465 ARG A 52 REMARK 465 PHE A 53 REMARK 465 THR A 54 REMARK 465 GLU A 55 REMARK 465 HIS A 206 REMARK 465 SER A 207 REMARK 465 ARG A 208 REMARK 465 SER A 236 REMARK 465 GLY A 237 REMARK 465 ALA A 260 REMARK 465 GLY A 261 REMARK 465 GLU A 262 REMARK 465 ASN A 263 REMARK 465 LEU A 264 REMARK 465 TYR A 265 REMARK 465 PHE A 266 REMARK 465 GLN A 267 REMARK 465 ASN U 23 REMARK 465 SER U 24 REMARK 465 CYS U 25 REMARK 465 ALA U 26 REMARK 465 SER U 27 REMARK 465 LYS U 28 REMARK 465 GLU U 29 REMARK 465 GLU U 30 REMARK 465 VAL U 31 REMARK 465 VAL U 32 REMARK 465 PRO U 33 REMARK 465 SER U 34 REMARK 465 PRO U 35 REMARK 465 GLU U 36 REMARK 465 GLU U 37 REMARK 465 GLY U 38 REMARK 465 GLN U 39 REMARK 465 CYS U 40 REMARK 465 SER U 41 REMARK 465 GLN U 42 REMARK 465 GLU U 43 REMARK 465 SER U 44 REMARK 465 VAL U 45 REMARK 465 LYS U 46 REMARK 465 GLN U 47 REMARK 465 SER U 48 REMARK 465 PHE U 49 REMARK 465 VAL U 50 REMARK 465 THR U 51 REMARK 465 ARG U 52 REMARK 465 PHE U 53 REMARK 465 THR U 54 REMARK 465 GLY U 237 REMARK 465 ASP U 238 REMARK 465 ALA U 260 REMARK 465 GLY U 261 REMARK 465 GLU U 262 REMARK 465 ASN U 263 REMARK 465 LEU U 264 REMARK 465 TYR U 265 REMARK 465 PHE U 266 REMARK 465 GLN U 267 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 LYS A 100 CG CD CE NZ REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 LYS A 124 CG CD CE NZ REMARK 470 ARG A 126 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 128 CG CD CE NZ REMARK 470 GLU A 130 CG CD OE1 OE2 REMARK 470 GLU A 149 CG CD OE1 OE2 REMARK 470 GLU A 190 CG CD OE1 OE2 REMARK 470 GLN A 204 CG CD OE1 NE2 REMARK 470 LYS A 224 CG CD CE NZ REMARK 470 ASP A 238 CG OD1 OD2 REMARK 470 LEU A 251 CG CD1 CD2 REMARK 470 GLU U 55 CG CD OE1 OE2 REMARK 470 LYS U 100 CG CD CE NZ REMARK 470 LYS U 103 CG CD CE NZ REMARK 470 LYS U 124 CG CD CE NZ REMARK 470 ARG U 126 CG CD NE CZ NH1 NH2 REMARK 470 VAL U 127 CG1 CG2 REMARK 470 LYS U 128 CG CD CE NZ REMARK 470 ARG U 129 CG CD NE CZ NH1 NH2 REMARK 470 LYS U 131 CG CD CE NZ REMARK 470 LYS U 135 CG CD CE NZ REMARK 470 LYS U 224 CG CD CE NZ REMARK 470 GLN U 233 CG CD OE1 NE2 REMARK 470 LEU U 251 CG CD1 CD2 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 GLU A 217 CG GLU A 217 CD 0.098 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 GLU A 80 -123.87 57.99 REMARK 500 LYS A 124 62.84 38.88 REMARK 500 GLU U 80 -124.89 56.52 REMARK 500 LYS U 128 5.02 81.41 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 U 453 DISTANCE = 6.23 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 FE A 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 118 OH REMARK 620 2 TYR A 163 OH 115.8 REMARK 620 3 HIS A 169 NE2 98.5 105.0 REMARK 620 4 HIS A 171 NE2 106.2 135.2 82.8 REMARK 620 5 HOH A 401 O 115.7 63.3 145.8 85.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE U 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR U 118 OH REMARK 620 2 TYR U 163 OH 92.4 REMARK 620 3 HIS U 169 NE2 106.9 96.6 REMARK 620 4 HIS U 171 NE2 109.0 142.4 105.8 REMARK 620 5 HOH U 403 O 94.9 62.9 151.0 84.1 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 FE A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE U 301 DBREF 6BDJ A 23 259 UNP T1K8P1 T1K8P1_TETUR 23 259 DBREF 6BDJ U 23 259 UNP T1K8P1 T1K8P1_TETUR 23 259 SEQADV 6BDJ ALA A 260 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ GLY A 261 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ GLU A 262 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ ASN A 263 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ LEU A 264 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ TYR A 265 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ PHE A 266 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ GLN A 267 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ ALA U 260 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ GLY U 261 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ GLU U 262 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ ASN U 263 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ LEU U 264 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ TYR U 265 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ PHE U 266 UNP T1K8P1 EXPRESSION TAG SEQADV 6BDJ GLN U 267 UNP T1K8P1 EXPRESSION TAG SEQRES 1 A 245 ASN SER CYS ALA SER LYS GLU GLU VAL VAL PRO SER PRO SEQRES 2 A 245 GLU GLU GLY GLN CYS SER GLN GLU SER VAL LYS GLN SER SEQRES 3 A 245 PHE VAL THR ARG PHE THR GLU CYS SER LEU SER PRO GLU SEQRES 4 A 245 VAL GLY GLU GLY PRO TYR PHE ILE GLU GLU ASP ILE ILE SEQRES 5 A 245 ARG SER ASN ILE VAL GLU ASP ARG ILE GLY ILE ARG LEU SEQRES 6 A 245 ASN VAL THR LEU ASN LEU VAL ASP PHE ASN THR CYS LYS SEQRES 7 A 245 PRO ILE LYS GLY ALA LYS VAL TYR ILE TRP GLN PRO ASP SEQRES 8 A 245 TYR SER GLY ILE TYR SER GLY PHE MET ASP LYS PRO ARG SEQRES 9 A 245 VAL LYS ARG GLU LYS MET TYR PRO LYS ASP PRO ARG ARG SEQRES 10 A 245 PHE LEU ARG GLY THR GLN VAL THR ASN GLU ASN GLY THR SEQRES 11 A 245 VAL THR PHE GLU THR LEU PHE PRO GLY HIS TYR PRO GLY SEQRES 12 A 245 ARG THR PRO HIS ILE HIS TYR ARG ILE HIS ALA ASN GLY SEQRES 13 A 245 ASN VAL ALA HIS ILE GLY GLN ILE PHE PHE ASP GLU SER SEQRES 14 A 245 THR SER GLN VAL ILE GLN SER LYS SER PRO TYR ASN GLN SEQRES 15 A 245 VAL HIS SER ARG ARG MET LYS ASN GLU GLU ASP GLY GLU SEQRES 16 A 245 PHE THR TYR PHE ASN GLY LYS LYS SER ILE ILE ASN ILE SEQRES 17 A 245 ASP PRO GLN SER LEU SER GLY ASP SER LEU GLU GLY ILE SEQRES 18 A 245 LEU ASN LEU ALA ILE ASN PRO LEU HIS ARG SER ASN LEU SEQRES 19 A 245 MET TRP ALA ALA GLY GLU ASN LEU TYR PHE GLN SEQRES 1 U 245 ASN SER CYS ALA SER LYS GLU GLU VAL VAL PRO SER PRO SEQRES 2 U 245 GLU GLU GLY GLN CYS SER GLN GLU SER VAL LYS GLN SER SEQRES 3 U 245 PHE VAL THR ARG PHE THR GLU CYS SER LEU SER PRO GLU SEQRES 4 U 245 VAL GLY GLU GLY PRO TYR PHE ILE GLU GLU ASP ILE ILE SEQRES 5 U 245 ARG SER ASN ILE VAL GLU ASP ARG ILE GLY ILE ARG LEU SEQRES 6 U 245 ASN VAL THR LEU ASN LEU VAL ASP PHE ASN THR CYS LYS SEQRES 7 U 245 PRO ILE LYS GLY ALA LYS VAL TYR ILE TRP GLN PRO ASP SEQRES 8 U 245 TYR SER GLY ILE TYR SER GLY PHE MET ASP LYS PRO ARG SEQRES 9 U 245 VAL LYS ARG GLU LYS MET TYR PRO LYS ASP PRO ARG ARG SEQRES 10 U 245 PHE LEU ARG GLY THR GLN VAL THR ASN GLU ASN GLY THR SEQRES 11 U 245 VAL THR PHE GLU THR LEU PHE PRO GLY HIS TYR PRO GLY SEQRES 12 U 245 ARG THR PRO HIS ILE HIS TYR ARG ILE HIS ALA ASN GLY SEQRES 13 U 245 ASN VAL ALA HIS ILE GLY GLN ILE PHE PHE ASP GLU SER SEQRES 14 U 245 THR SER GLN VAL ILE GLN SER LYS SER PRO TYR ASN GLN SEQRES 15 U 245 VAL HIS SER ARG ARG MET LYS ASN GLU GLU ASP GLY GLU SEQRES 16 U 245 PHE THR TYR PHE ASN GLY LYS LYS SER ILE ILE ASN ILE SEQRES 17 U 245 ASP PRO GLN SER LEU SER GLY ASP SER LEU GLU GLY ILE SEQRES 18 U 245 LEU ASN LEU ALA ILE ASN PRO LEU HIS ARG SER ASN LEU SEQRES 19 U 245 MET TRP ALA ALA GLY GLU ASN LEU TYR PHE GLN HET FE A 301 1 HET FE U 301 1 HETNAM FE FE (III) ION FORMUL 3 FE 2(FE 3+) FORMUL 5 HOH *87(H2 O) HELIX 1 AA1 ASP A 189 SER A 198 1 10 HELIX 2 AA2 PRO A 201 VAL A 205 5 5 HELIX 3 AA3 LYS A 211 GLU A 214 5 4 HELIX 4 AA4 ASP A 215 PHE A 221 1 7 HELIX 5 AA5 ASN A 222 LYS A 225 5 4 HELIX 6 AA6 PRO A 232 LEU A 235 5 4 HELIX 7 AA7 ASP U 189 SER U 198 1 10 HELIX 8 AA8 PRO U 201 VAL U 205 5 5 HELIX 9 AA9 LYS U 211 GLU U 214 5 4 HELIX 10 AB1 ASP U 215 PHE U 221 1 7 HELIX 11 AB2 ASN U 222 LYS U 225 5 4 HELIX 12 AB3 PRO U 232 SER U 236 5 5 SHEET 1 AA1 8 ARG A 142 VAL A 146 0 SHEET 2 AA1 8 LYS A 106 TRP A 110 -1 N VAL A 107 O GLN A 145 SHEET 3 AA1 8 ILE A 170 ALA A 176 -1 O ARG A 173 N TYR A 108 SHEET 4 AA1 8 ASN A 179 PHE A 188 -1 O ILE A 186 N ILE A 170 SHEET 5 AA1 8 ILE A 227 ILE A 230 1 O ILE A 228 N PHE A 187 SHEET 6 AA1 8 LEU A 240 ILE A 248 -1 O ILE A 243 N ASN A 229 SHEET 7 AA1 8 ARG A 86 ASP A 95 1 N ASN A 92 O LEU A 246 SHEET 8 AA1 8 THR A 152 LEU A 158 -1 O THR A 157 N LEU A 87 SHEET 1 AA2 8 ARG U 142 VAL U 146 0 SHEET 2 AA2 8 LYS U 106 TRP U 110 -1 N VAL U 107 O GLN U 145 SHEET 3 AA2 8 ILE U 170 ALA U 176 -1 O ARG U 173 N TYR U 108 SHEET 4 AA2 8 ASN U 179 PHE U 188 -1 O ILE U 186 N ILE U 170 SHEET 5 AA2 8 ILE U 227 ILE U 230 1 O ILE U 228 N PHE U 187 SHEET 6 AA2 8 LEU U 240 ILE U 248 -1 O ILE U 243 N ASN U 229 SHEET 7 AA2 8 ARG U 86 ASP U 95 1 N ASN U 92 O LEU U 246 SHEET 8 AA2 8 THR U 152 LEU U 158 -1 O THR U 157 N LEU U 87 SSBOND 1 CYS A 56 CYS A 99 1555 1555 2.05 SSBOND 2 CYS U 56 CYS U 99 1555 1555 2.03 LINK OH TYR A 118 FE FE A 301 1555 1555 1.94 LINK OH BTYR A 163 FE FE A 301 1555 1555 2.15 LINK NE2 HIS A 169 FE FE A 301 1555 1555 2.47 LINK NE2 HIS A 171 FE FE A 301 1555 1555 2.34 LINK OH TYR U 118 FE FE U 301 1555 1555 2.02 LINK OH ATYR U 163 FE FE U 301 1555 1555 2.31 LINK NE2 HIS U 169 FE FE U 301 1555 1555 2.09 LINK NE2 HIS U 171 FE FE U 301 1555 1555 2.12 LINK FE FE A 301 O HOH A 401 1555 1555 2.17 LINK FE FE U 301 O HOH U 403 1555 1555 2.40 CISPEP 1 SER A 200 PRO A 201 0 -3.06 CISPEP 2 SER U 200 PRO U 201 0 -5.13 SITE 1 AC1 5 TYR A 118 TYR A 163 HIS A 169 HIS A 171 SITE 2 AC1 5 HOH A 401 SITE 1 AC2 5 TYR U 118 TYR U 163 HIS U 169 HIS U 171 SITE 2 AC2 5 HOH U 403 CRYST1 61.091 45.415 83.040 90.00 94.29 90.00 P 1 2 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 0.016369 0.000000 0.001228 0.00000 SCALE2 0.000000 0.022019 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012076 0.00000