HEADER LYASE 01-AUG-06 2J07 TITLE THERMUS DNA PHOTOLYASE WITH 8-HDF 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, NUCLEOTIDE-BINDING, DNA REPAIR EXPDTA X-RAY DIFFRACTION AUTHOR T.KLAR,G.KAISER,U.HENNECKE,T.CARELL,A.BATSCHAUER,L.-O.ESSEN REVDAT 5 13-DEC-23 2J07 1 REMARK REVDAT 4 05-JUL-17 2J07 1 REMARK REVDAT 3 13-JUL-11 2J07 1 VERSN REVDAT 2 24-FEB-09 2J07 1 VERSN REVDAT 1 01-MAY-07 2J07 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. 1.95 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.86 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 36800 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1950 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2609 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE SET COUNT : 163 REMARK 3 BIN FREE R VALUE : 0.2710 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 : 87 REMARK 3 SOLVENT ATOMS : 356 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) : 44.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.43000 REMARK 3 B22 (A**2) : -0.43000 REMARK 3 B33 (A**2) : 0.65000 REMARK 3 B12 (A**2) : -0.22000 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): 0.141 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.904 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3577 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4895 ; 1.462 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 418 ; 6.768 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;30.983 ;21.287 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 522 ;19.281 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;16.670 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 489 ; 0.148 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2840 ; 0.018 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1740 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2377 ; 0.322 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 329 ; 0.230 ; 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): 50 ; 0.208 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 24 ; 0.294 ; 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): 2157 ; 1.815 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3359 ; 2.465 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1751 ; 4.032 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1536 ; 5.709 ; 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: -0.0007 T22: -0.0029 REMARK 3 T33: 0.0102 T12: -0.0145 REMARK 3 T13: -0.0167 T23: 0.0102 REMARK 3 L TENSOR REMARK 3 L11: 0.9461 L22: 0.5926 REMARK 3 L33: 1.0701 L12: -0.5237 REMARK 3 L13: 0.1036 L23: -0.0585 REMARK 3 S TENSOR REMARK 3 S11: -0.0077 S12: -0.0634 S13: 0.0104 REMARK 3 S21: 0.0177 S22: 0.0787 S23: -0.0101 REMARK 3 S31: 0.0913 S32: -0.1718 S33: -0.0710 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: 0.1016 T22: 0.2080 REMARK 3 T33: -0.0883 T12: 0.1984 REMARK 3 T13: -0.0011 T23: 0.0380 REMARK 3 L TENSOR REMARK 3 L11: 1.6861 L22: 2.4582 REMARK 3 L33: 1.9820 L12: -0.4214 REMARK 3 L13: 0.1633 L23: -0.6534 REMARK 3 S TENSOR REMARK 3 S11: -0.3336 S12: -0.5464 S13: -0.0298 REMARK 3 S21: 0.6366 S22: 0.4233 S23: -0.0027 REMARK 3 S31: -0.0696 S32: -0.3657 S33: -0.0898 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 2J07 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_1290029545. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-DEC-02 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 : 36800 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 18.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.5000 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 (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 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 8-HDF 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 46.75400 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 93.50800 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 70.13100 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 116.88500 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 23.37700 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 46.75400 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 93.50800 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 116.88500 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 70.13100 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 23.37700 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: 6610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.7 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 23.37700 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 A2095 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 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 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 NZ LYS A 158 O HOH A 2187 0.49 REMARK 500 NH1 ARG A 26 O HOH A 2025 1.11 REMARK 500 O HOH A 2107 O HOH A 2345 1.51 REMARK 500 O GLU A 236 O HOH A 2261 1.65 REMARK 500 OE2 GLU A 72 O HOH A 2083 1.81 REMARK 500 CD ARG A 269 O HOH A 2279 1.85 REMARK 500 O HOH A 2106 O HOH A 2107 1.86 REMARK 500 N GLY A 237 O HOH A 2264 1.97 REMARK 500 O HOH A 2020 O HOH A 2181 2.07 REMARK 500 N GLU A 380 O HOH A 2332 2.08 REMARK 500 CE LYS A 158 O HOH A 2187 2.09 REMARK 500 O ALA A 198 O HOH A 2228 2.14 REMARK 500 NH1 ARG A 167 O HOH A 2199 2.15 REMARK 500 O HOH A 2296 O HOH A 2297 2.16 REMARK 500 NZ LYS A 89 O HOH A 2112 2.16 REMARK 500 O1 PO4 A 1426 O HOH A 2356 2.19 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 O HOH A 2039 O HOH A 2084 11655 1.93 REMARK 500 O HOH A 2041 O HOH A 2041 11655 2.19 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 0.195 REMARK 500 ARG A 419 CB ARG A 419 CG -0.659 REMARK 500 ARG A 419 CD ARG A 419 NE 2.795 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. = -37.4 DEGREES REMARK 500 ARG A 26 NE - CZ - NH1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 26 NE - CZ - NH2 ANGL. DEV. = -19.1 DEGREES REMARK 500 ARG A 55 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 55 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 ARG A 58 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 419 CA - CB - CG ANGL. DEV. = 35.0 DEGREES REMARK 500 ARG A 419 CB - CG - CD ANGL. DEV. = 36.2 DEGREES REMARK 500 ARG A 419 CG - CD - NE ANGL. DEV. = -34.4 DEGREES REMARK 500 ARG A 419 CD - NE - CZ ANGL. DEV. = -10.4 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 ARG A 9 -110.97 -118.51 REMARK 500 ASP A 11 57.59 -156.74 REMARK 500 GLU A 154 -73.34 -85.33 REMARK 500 ASP A 278 101.65 -177.92 REMARK 500 PRO A 379 -72.63 -45.89 REMARK 500 ALA A 388 67.66 -150.73 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 0.12 SIDE CHAIN REMARK 500 ARG A 55 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLU A 154 12.50 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 A2021 DISTANCE = 6.47 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 A1423 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1424 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1425 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A1426 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A1421 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HDF A1422 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IQR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DNA PHOTOLYASE FROM THERMUSTHERMOPHILUS REMARK 900 RELATED ID: 1IQU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOTOLYASE-THYMINE COMPLEX REMARK 900 RELATED ID: 2CGB RELATED DB: PDB REMARK 900 THERMUS DNA PHOTOLYASE WITH FMN ANTENNA CHROMOPHORE REMARK 900 RELATED ID: 2CGC 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 REMARK 900 RELATED ID: 2J09 RELATED DB: PDB REMARK 900 THERMUS DNA PHOTOLYASE WITH FMN CHROMOPHORE DBREF 2J07 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 FAD A1421 53 HET HDF A1422 26 HET CL A1423 1 HET CL A1424 1 HET CL A1425 1 HET PO4 A1426 5 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM HDF 8-HYDROXY-10-(D-RIBO-2,3,4,5-TETRAHYDROXYPENTYL)-5- HETNAM 2 HDF DEAZAISOALLOXAZINE HETNAM CL CHLORIDE ION HETNAM PO4 PHOSPHATE ION FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 HDF C16 H17 N3 O7 FORMUL 4 CL 3(CL 1-) FORMUL 7 PO4 O4 P 3- FORMUL 8 HOH *356(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 419 1 18 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 ARG A 46 ARG A 336 HOH A2312 SITE 1 AC2 4 HIS A 117 HOH A2144 HOH A2147 HOH A2148 SITE 1 AC3 3 PRO A 148 HOH A2019 HOH A2180 SITE 1 AC4 10 VAL A 135 TYR A 136 THR A 137 ARG A 167 SITE 2 AC4 10 ASP A 360 HOH A2199 HOH A2353 HOH A2354 SITE 3 AC4 10 HOH A2355 HOH A2356 SITE 1 AC5 31 TYR A 197 GLY A 209 SER A 210 ARG A 211 SITE 2 AC5 31 LEU A 212 SER A 213 PHE A 216 TRP A 241 SITE 3 AC5 31 GLU A 244 LEU A 245 TRP A 247 ARG A 248 SITE 4 AC5 31 PHE A 307 LEU A 308 ASN A 310 ARG A 313 SITE 5 AC5 31 ALA A 317 LEU A 339 ASP A 341 GLY A 342 SITE 6 AC5 31 ASP A 343 VAL A 346 ASN A 347 GLN A 349 SITE 7 AC5 31 GLY A 350 HOH A2316 HOH A2341 HOH A2342 SITE 8 AC5 31 HOH A2343 HOH A2344 HOH A2346 SITE 1 AC6 16 ARG A 9 VAL A 34 LEU A 35 ASP A 36 SITE 2 AC6 16 ASN A 39 LEU A 40 ARG A 46 PHE A 50 SITE 3 AC6 16 SER A 96 ARG A 104 LEU A 218 HOH A2003 SITE 4 AC6 16 HOH A2347 HOH A2348 HOH A2349 HOH A2350 CRYST1 112.620 112.620 140.262 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 0.008879 0.005127 0.000000 0.00000 SCALE2 0.000000 0.010253 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007130 0.00000