HEADER LYASE 01-AUG-06 2J09 TITLE THERMUS DNA PHOTOLYASE WITH FMN ANTENNA CHROMOPHORE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYRIBODIPYRIMIDINE PHOTO-LYASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DNA PHOTOLYASE, PHOTOREACTIVATING ENZYME; COMPND 5 EC: 4.1.99.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET36B; SOURCE 10 OTHER_DETAILS: GERMAN COLLECTION OF MICROORGANISMS (DSM) KEYWDS LYASE, FLAVOPROTEIN, DNA REPAIR EXPDTA X-RAY DIFFRACTION AUTHOR T.KLAR,G.KAISER,U.HENNECKE,T.CARELL,A.BATSCHAUER,L.-O.ESSEN REVDAT 6 13-DEC-23 2J09 1 REMARK REVDAT 5 05-JUL-17 2J09 1 REMARK REVDAT 4 25-JAN-17 2J09 1 REMARK REVDAT 3 13-JUL-11 2J09 1 VERSN REVDAT 2 24-FEB-09 2J09 1 VERSN REVDAT 1 01-MAY-07 2J09 0 JRNL AUTH T.KLAR,G.KAISER,U.HENNECKE,T.CARELL,A.BATSCHAUER,L.-O.ESSEN JRNL TITL NATURAL AND NON-NATURAL ANTENNA CHROMOPHORES IN THE DNA JRNL TITL 2 PHOTOLYASE FROM THERMUS THERMOPHILUS JRNL REF CHEMBIOCHEM V. 7 1798 2006 JRNL REFN ISSN 1439-4227 JRNL PMID 17051659 JRNL DOI 10.1002/CBIC.200600206 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 33863 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1776 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2288 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.2350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3393 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 95 REMARK 3 SOLVENT ATOMS : 235 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) : 45.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.60000 REMARK 3 B22 (A**2) : 1.60000 REMARK 3 B33 (A**2) : -2.40000 REMARK 3 B12 (A**2) : 0.80000 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): 0.163 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.277 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3549 ; 0.018 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4867 ; 1.601 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 418 ; 7.106 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;30.757 ;21.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 500 ;19.039 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 43 ;19.148 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 488 ; 0.148 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2814 ; 0.019 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1741 ; 0.237 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2357 ; 0.324 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 251 ; 0.214 ; 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): 40 ; 0.240 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.298 ; 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): 2152 ; 2.063 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3352 ; 2.813 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1732 ; 4.576 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1515 ; 6.419 ; 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 260 REMARK 3 RESIDUE RANGE : A 1422 A 1422 REMARK 3 ORIGIN FOR THE GROUP (A): 37.8230 15.7820 27.7610 REMARK 3 T TENSOR REMARK 3 T11: 0.0002 T22: -0.0097 REMARK 3 T33: -0.0022 T12: -0.0240 REMARK 3 T13: -0.0176 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 1.0134 L22: 0.6699 REMARK 3 L33: 1.2887 L12: -0.5438 REMARK 3 L13: 0.0485 L23: -0.1251 REMARK 3 S TENSOR REMARK 3 S11: -0.0457 S12: -0.0631 S13: 0.0204 REMARK 3 S21: 0.0265 S22: 0.0989 S23: -0.0374 REMARK 3 S31: 0.1255 S32: -0.2526 S33: -0.0533 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 261 A 420 REMARK 3 RESIDUE RANGE : A 1421 A 1421 REMARK 3 ORIGIN FOR THE GROUP (A): 33.6390 15.7770 56.1460 REMARK 3 T TENSOR REMARK 3 T11: 0.1617 T22: 0.2128 REMARK 3 T33: -0.1183 T12: 0.2535 REMARK 3 T13: -0.0045 T23: 0.0282 REMARK 3 L TENSOR REMARK 3 L11: 1.5501 L22: 3.3049 REMARK 3 L33: 2.4019 L12: -0.5184 REMARK 3 L13: 0.1273 L23: -0.7547 REMARK 3 S TENSOR REMARK 3 S11: -0.4062 S12: -0.4850 S13: -0.0148 REMARK 3 S21: 0.8518 S22: 0.5106 S23: -0.0337 REMARK 3 S31: -0.1176 S32: -0.5259 S33: -0.1045 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 2J09 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029549. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.50 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 : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35872 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 33.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1IQR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM TRIS-HCL, PH 8.5, 1.0 M NH4 REMARK 280 H2PO4, 11.8 MG/ML PROTEIN. CRYSTAL WAS SOAKED WITH 0.1 MM FMN REMARK 280 FOR 90 MIN PRIOR TO FREEZING., PH 8.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.71367 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 93.42733 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 70.07050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 116.78417 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 23.35683 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.71367 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 93.42733 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 116.78417 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 70.07050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 23.35683 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -62.2 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 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 23.35683 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 MET A 1 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 ARG A 26 CZ NH1 NH2 REMARK 480 LYS A 89 CD CE NZ REMARK 480 LYS A 158 CD CE NZ REMARK 480 ARG A 269 CG CD NE CZ NH1 NH2 REMARK 480 GLN A 276 CG CD OE1 NE2 REMARK 480 GLU A 380 CG CD OE1 OE2 REMARK 480 ARG A 382 CD NE CZ NH1 NH2 REMARK 480 LYS A 385 CG CD CE NZ REMARK 480 LYS A 397 CG CD CE NZ REMARK 480 GLU A 404 CG CD OE1 OE2 REMARK 480 ARG A 409 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 415 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 419 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NH1 ARG A 26 O HOH A 2018 1.10 REMARK 500 O HOH A 2193 O HOH A 2215 1.88 REMARK 500 NE ARG A 26 O HOH A 2018 1.93 REMARK 500 OE1 GLU A 332 O HOH A 2204 1.98 REMARK 500 N GLY A 237 O HOH A 2166 2.01 REMARK 500 O HOH A 2119 O HOH A 2121 2.09 REMARK 500 ND1 HIS A 15 OE2 GLU A 179 2.15 REMARK 500 O HOH A 2075 O HOH A 2230 2.15 REMARK 500 NH1 ARG A 46 O1 PO4 A 1424 2.16 REMARK 500 N GLY A 2 NZ LYS A 89 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 26 NE ARG A 26 CZ 0.596 REMARK 500 LYS A 89 CG LYS A 89 CD 0.430 REMARK 500 LYS A 158 CG LYS A 158 CD -0.337 REMARK 500 ARG A 269 CB ARG A 269 CG -0.206 REMARK 500 GLN A 276 CB GLN A 276 CG 0.472 REMARK 500 GLU A 380 CB GLU A 380 CG -0.192 REMARK 500 ARG A 382 CG ARG A 382 CD 0.268 REMARK 500 LYS A 385 CB LYS A 385 CG -0.313 REMARK 500 LYS A 397 CB LYS A 397 CG 0.403 REMARK 500 GLU A 404 CB GLU A 404 CG -0.234 REMARK 500 ARG A 408 CZ ARG A 408 NH1 0.083 REMARK 500 ARG A 409 CB ARG A 409 CG -0.400 REMARK 500 ARG A 415 CB ARG A 415 CG -0.477 REMARK 500 ARG A 419 CB ARG A 419 CG -0.205 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 26 CD - NE - CZ ANGL. DEV. = -33.1 DEGREES REMARK 500 ARG A 26 NE - CZ - NH1 ANGL. DEV. = -59.5 DEGREES REMARK 500 ARG A 26 NE - CZ - NH2 ANGL. DEV. = 42.0 DEGREES REMARK 500 ARG A 55 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 55 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 LYS A 89 CB - CG - CD ANGL. DEV. = 42.9 DEGREES REMARK 500 LYS A 158 CB - CG - CD ANGL. DEV. = 33.3 DEGREES REMARK 500 ARG A 269 CA - CB - CG ANGL. DEV. = 20.8 DEGREES REMARK 500 GLU A 380 CB - CG - CD ANGL. DEV. = -37.5 DEGREES REMARK 500 ARG A 382 CG - CD - NE ANGL. DEV. = 13.3 DEGREES REMARK 500 GLU A 404 CA - CB - CG ANGL. DEV. = 31.8 DEGREES REMARK 500 ARG A 408 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 409 CA - CB - CG ANGL. DEV. = 23.0 DEGREES REMARK 500 ARG A 415 CA - CB - CG ANGL. DEV. = 44.1 DEGREES REMARK 500 ARG A 415 CB - CG - CD ANGL. DEV. = 21.5 DEGREES REMARK 500 ARG A 419 CA - CB - CG ANGL. DEV. = 19.1 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 ARG A 9 -108.46 -120.51 REMARK 500 ASP A 11 53.32 -156.96 REMARK 500 ASP A 278 102.26 -177.38 REMARK 500 ASP A 378 73.47 -150.17 REMARK 500 ALA A 388 70.65 -154.42 REMARK 500 ARG A 415 48.18 -83.14 REMARK 500 ASP A 416 -23.97 -177.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 415 ASP A 416 -147.87 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 ARG A 26 0.16 SIDE CHAIN REMARK 500 ARG A 55 0.10 SIDE CHAIN 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 A2023 DISTANCE = 6.53 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1423 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1424 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 1421 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN A 1422 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J07 RELATED DB: PDB REMARK 900 THERMUS DNA PHOTOLYASE WITH 8-HDF ANTENNA CHROMOPHORE REMARK 900 RELATED ID: 2J08 RELATED DB: PDB REMARK 900 THERMUS DNA PHOTOLYASE WITH 8-IOD-RIBOFLAVIN ANTENNA CHROMOPHORE DBREF 2J09 A 1 420 UNP P61497 PHR_THET8 1 420 SEQRES 1 A 420 MET GLY PRO LEU LEU VAL TRP HIS ARG GLY ASP LEU ARG SEQRES 2 A 420 LEU HIS ASP HIS PRO ALA LEU LEU GLU ALA LEU ALA ARG SEQRES 3 A 420 GLY PRO VAL VAL GLY LEU VAL VAL LEU ASP PRO ASN ASN SEQRES 4 A 420 LEU LYS THR THR PRO ARG ARG ARG ALA TRP PHE LEU GLU SEQRES 5 A 420 ASN VAL ARG ALA LEU ARG GLU ALA TYR ARG ALA ARG GLY SEQRES 6 A 420 GLY ALA LEU TRP VAL LEU GLU GLY LEU PRO TRP GLU LYS SEQRES 7 A 420 VAL PRO GLU ALA ALA ARG ARG LEU LYS ALA LYS ALA VAL SEQRES 8 A 420 TYR ALA LEU THR SER HIS THR PRO TYR GLY ARG TYR ARG SEQRES 9 A 420 ASP GLY ARG VAL ARG GLU ALA LEU PRO VAL PRO LEU HIS SEQRES 10 A 420 LEU LEU PRO ALA PRO HIS LEU LEU PRO PRO ASP LEU PRO SEQRES 11 A 420 ARG ALA TYR ARG VAL TYR THR PRO PHE SER ARG LEU TYR SEQRES 12 A 420 ARG GLY ALA ALA PRO PRO LEU PRO PRO PRO GLU ALA LEU SEQRES 13 A 420 PRO LYS GLY PRO GLU GLU GLY GLU ILE PRO ARG GLU ASP SEQRES 14 A 420 PRO GLY LEU PRO LEU PRO GLU PRO GLY GLU GLU ALA ALA SEQRES 15 A 420 LEU ALA GLY LEU ARG ALA PHE LEU GLU ALA LYS LEU PRO SEQRES 16 A 420 ARG TYR ALA GLU GLU ARG ASP ARG LEU ASP GLY GLU GLY SEQRES 17 A 420 GLY SER ARG LEU SER PRO TYR PHE ALA LEU GLY VAL LEU SEQRES 18 A 420 SER PRO ARG LEU ALA ALA TRP GLU ALA GLU ARG ARG GLY SEQRES 19 A 420 GLY GLU GLY ALA ARG LYS TRP VAL ALA GLU LEU LEU TRP SEQRES 20 A 420 ARG ASP PHE SER TYR HIS LEU LEU TYR HIS PHE PRO TRP SEQRES 21 A 420 MET ALA GLU ARG PRO LEU ASP PRO ARG PHE GLN ALA PHE SEQRES 22 A 420 PRO TRP GLN GLU ASP GLU ALA LEU PHE GLN ALA TRP TYR SEQRES 23 A 420 GLU GLY LYS THR GLY VAL PRO LEU VAL ASP ALA ALA MET SEQRES 24 A 420 ARG GLU LEU HIS ALA THR GLY PHE LEU SER ASN ARG ALA SEQRES 25 A 420 ARG MET ASN ALA ALA GLN PHE ALA VAL LYS HIS LEU LEU SEQRES 26 A 420 LEU PRO TRP LYS ARG CYS GLU GLU ALA PHE ARG HIS LEU SEQRES 27 A 420 LEU LEU ASP GLY ASP ARG ALA VAL ASN LEU GLN GLY TRP SEQRES 28 A 420 GLN TRP ALA GLY GLY LEU GLY VAL ASP ALA ALA PRO TYR SEQRES 29 A 420 PHE ARG VAL PHE ASN PRO VAL LEU GLN GLY GLU ARG HIS SEQRES 30 A 420 ASP PRO GLU GLY ARG TRP LEU LYS ARG TRP ALA PRO GLU SEQRES 31 A 420 TYR PRO SER TYR ALA PRO LYS ASP PRO VAL VAL ASP LEU SEQRES 32 A 420 GLU GLU ALA ARG ARG ARG TYR LEU ARG LEU ALA ARG ASP SEQRES 33 A 420 LEU ALA ARG GLY HET CL A 902 1 HET FAD A1421 53 HET FMN A1422 31 HET PO4 A1423 5 HET PO4 A1424 5 HETNAM CL CHLORIDE ION HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM PO4 PHOSPHATE ION HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 CL CL 1- FORMUL 3 FAD C27 H33 N9 O15 P2 FORMUL 4 FMN C17 H21 N4 O9 P FORMUL 5 PO4 2(O4 P 3-) FORMUL 7 HOH *235(H2 O) HELIX 1 1 HIS A 17 ALA A 25 1 9 HELIX 2 2 ASP A 36 LYS A 41 1 6 HELIX 3 3 THR A 43 ARG A 64 1 22 HELIX 4 4 LEU A 74 LEU A 86 1 13 HELIX 5 5 THR A 98 LEU A 112 1 15 HELIX 6 6 VAL A 135 ARG A 141 1 7 HELIX 7 7 GLY A 178 LYS A 193 1 16 HELIX 8 8 ARG A 196 ARG A 201 1 6 HELIX 9 9 LEU A 212 LEU A 218 1 7 HELIX 10 10 SER A 222 GLY A 234 1 13 HELIX 11 11 GLY A 235 PHE A 258 1 24 HELIX 12 12 PRO A 259 GLU A 263 5 5 HELIX 13 13 ASP A 267 GLN A 271 5 5 HELIX 14 14 ASP A 278 GLU A 287 1 10 HELIX 15 15 VAL A 292 GLY A 306 1 15 HELIX 16 16 SER A 309 HIS A 323 1 15 HELIX 17 17 PRO A 327 LEU A 339 1 13 HELIX 18 18 ASP A 343 GLY A 355 1 13 HELIX 19 19 GLY A 358 ALA A 362 5 5 HELIX 20 20 ASN A 369 ASP A 378 1 10 HELIX 21 21 GLY A 381 ALA A 388 1 8 HELIX 22 22 ASP A 402 ARG A 415 1 14 SHEET 1 AA 5 LEU A 68 GLU A 72 0 SHEET 2 AA 5 VAL A 29 LEU A 35 1 O GLY A 31 N TRP A 69 SHEET 3 AA 5 LEU A 4 TRP A 7 1 O LEU A 4 N VAL A 30 SHEET 4 AA 5 ALA A 90 LEU A 94 1 O ALA A 90 N LEU A 5 SHEET 5 AA 5 LEU A 116 LEU A 119 1 O HIS A 117 N ALA A 93 SITE 1 AC1 3 HIS A 117 HOH A2089 HOH A2090 SITE 1 AC2 7 VAL A 135 TYR A 136 THR A 137 ARG A 167 SITE 2 AC2 7 ASP A 360 HOH A2232 HOH A2233 SITE 1 AC3 7 THR A 42 ARG A 46 GLU A 77 ARG A 336 SITE 2 AC3 7 HIS A 337 HOH A2234 HOH A2235 SITE 1 AC4 30 TYR A 197 GLY A 209 SER A 210 ARG A 211 SITE 2 AC4 30 LEU A 212 SER A 213 PHE A 216 TRP A 241 SITE 3 AC4 30 GLU A 244 LEU A 245 TRP A 247 ARG A 248 SITE 4 AC4 30 PHE A 307 LEU A 308 ASN A 310 ARG A 313 SITE 5 AC4 30 ALA A 317 ASP A 341 GLY A 342 ASP A 343 SITE 6 AC4 30 VAL A 346 ASN A 347 GLN A 349 GLY A 350 SITE 7 AC4 30 TRP A 351 HOH A2210 HOH A2223 HOH A2224 SITE 8 AC4 30 HOH A2225 HOH A2226 SITE 1 AC5 17 ARG A 9 GLY A 10 VAL A 34 LEU A 35 SITE 2 AC5 17 ASP A 36 ASN A 39 LEU A 40 PHE A 50 SITE 3 AC5 17 SER A 96 THR A 98 ARG A 104 LEU A 218 SITE 4 AC5 17 HOH A2071 HOH A2228 HOH A2229 HOH A2230 SITE 5 AC5 17 HOH A2231 CRYST1 112.433 112.433 140.141 90.00 90.00 120.00 P 61 2 2 12 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 0.008894 0.005135 0.000000 0.00000 SCALE2 0.000000 0.010270 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007136 0.00000