HEADER FLAVOPROTEIN 31-MAY-07 2V21 TITLE CRYSTAL STRUCTURE OF THE T. THERMOPHILUS DODECIN IN COMPLEX WITH TITLE 2 PREBOUND FMN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN TTHA1431; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 SYNONYM: DODECIN; COMPND 5 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)GOLD; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS HYPOTHETICAL PROTEIN, FLAVIN BINDING PROTEIN, DODECINS, COENZYME A, KEYWDS 2 FLAVIN DIMER, PUTATIVE STORAGE PROTEIN, FLAVOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.MEISSNER,L.-O.ESSEN REVDAT 7 13-DEC-23 2V21 1 REMARK REVDAT 6 05-JUL-17 2V21 1 REMARK REVDAT 5 22-FEB-12 2V21 1 JRNL REVDAT 4 03-AUG-11 2V21 1 JRNL REMARK REVDAT 3 13-JUL-11 2V21 1 VERSN REVDAT 2 24-FEB-09 2V21 1 VERSN REVDAT 1 11-SEP-07 2V21 0 JRNL AUTH B.MEISSNER,E.SCHLEICHER,S.WEBER,L.-O.ESSEN JRNL TITL THE DODECIN FROM THERMUS THERMOPHILUS, A BIFUNCTIONAL JRNL TITL 2 COFACTOR STORAGE PROTEIN. JRNL REF J.BIOL.CHEM. V. 282 33142 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17855371 JRNL DOI 10.1074/JBC.M704951200 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 17102 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1076 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1218 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 75 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3181 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 95 REMARK 3 SOLVENT ATOMS : 13 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) : 62.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.05000 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): 0.503 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.281 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.205 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.586 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3316 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2294 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4463 ; 0.955 ; 2.011 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5566 ; 0.752 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 396 ; 5.316 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;28.428 ;23.557 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 622 ;14.194 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;13.833 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 494 ; 0.057 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3599 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 666 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 439 ; 0.176 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2299 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1501 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1886 ; 0.079 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 62 ; 0.095 ; 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): 17 ; 0.162 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 45 ; 0.197 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.159 ; 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): 1967 ; 0.376 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3123 ; 0.747 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1487 ; 1.078 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1340 ; 1.862 ; 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B C D E F REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 10 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 15 1 REMARK 3 1 B 2 B 15 1 REMARK 3 1 C 2 C 15 1 REMARK 3 1 D 2 D 15 1 REMARK 3 1 E 2 E 15 1 REMARK 3 1 F 2 F 15 1 REMARK 3 2 A 16 A 16 2 REMARK 3 2 B 16 B 16 2 REMARK 3 2 C 16 C 16 2 REMARK 3 2 D 16 D 16 2 REMARK 3 2 E 16 E 16 2 REMARK 3 2 F 16 F 16 2 REMARK 3 3 A 17 A 29 1 REMARK 3 3 B 17 B 29 1 REMARK 3 3 C 17 C 29 1 REMARK 3 3 D 17 D 29 1 REMARK 3 3 E 17 E 29 1 REMARK 3 3 F 17 F 29 1 REMARK 3 4 A 30 A 30 2 REMARK 3 4 B 30 B 30 2 REMARK 3 4 C 30 C 30 2 REMARK 3 4 D 30 D 30 2 REMARK 3 4 E 30 E 30 2 REMARK 3 4 F 30 F 30 2 REMARK 3 5 A 31 A 33 1 REMARK 3 5 B 31 B 33 1 REMARK 3 5 C 31 C 33 1 REMARK 3 5 D 31 D 33 1 REMARK 3 5 E 31 E 33 1 REMARK 3 5 F 31 F 33 1 REMARK 3 6 A 34 A 34 2 REMARK 3 6 B 34 B 34 2 REMARK 3 6 C 34 C 34 2 REMARK 3 6 D 34 D 34 2 REMARK 3 6 E 34 E 34 2 REMARK 3 6 F 34 F 34 2 REMARK 3 7 A 35 A 49 1 REMARK 3 7 B 35 B 49 1 REMARK 3 7 C 35 C 49 1 REMARK 3 7 D 35 D 49 1 REMARK 3 7 E 35 E 49 1 REMARK 3 7 F 35 F 49 1 REMARK 3 8 A 50 A 50 2 REMARK 3 8 B 50 B 50 2 REMARK 3 8 C 50 C 50 2 REMARK 3 8 D 50 D 50 2 REMARK 3 8 E 50 E 50 2 REMARK 3 8 F 50 F 50 2 REMARK 3 9 A 51 A 67 1 REMARK 3 9 B 51 B 67 1 REMARK 3 9 C 51 C 67 1 REMARK 3 9 D 51 D 67 1 REMARK 3 9 E 51 E 67 1 REMARK 3 9 F 51 F 67 1 REMARK 3 10 A 68 A 68 4 REMARK 3 10 B 68 B 68 4 REMARK 3 10 C 68 C 68 4 REMARK 3 10 D 68 D 68 4 REMARK 3 10 E 68 E 68 4 REMARK 3 10 F 68 F 68 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 839 ; 0.02 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 B (A): 839 ; 0.02 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 C (A): 839 ; 0.02 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 D (A): 839 ; 0.02 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 E (A): 839 ; 0.02 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 F (A): 839 ; 0.02 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 A (A): 61 ; 0.86 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 B (A): 61 ; 0.56 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 C (A): 61 ; 1.03 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 D (A): 61 ; 0.54 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 E (A): 61 ; 0.44 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 F (A): 61 ; 0.51 ; 0.50 REMARK 3 TIGHT THERMAL 1 A (A**2): 839 ; 0.05 ; 0.50 REMARK 3 TIGHT THERMAL 1 B (A**2): 839 ; 0.04 ; 0.50 REMARK 3 TIGHT THERMAL 1 C (A**2): 839 ; 0.05 ; 0.50 REMARK 3 TIGHT THERMAL 1 D (A**2): 839 ; 0.04 ; 0.50 REMARK 3 TIGHT THERMAL 1 E (A**2): 839 ; 0.04 ; 0.50 REMARK 3 TIGHT THERMAL 1 F (A**2): 839 ; 0.04 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 61 ; 0.18 ; 2.00 REMARK 3 MEDIUM THERMAL 1 B (A**2): 61 ; 0.15 ; 2.00 REMARK 3 MEDIUM THERMAL 1 C (A**2): 61 ; 0.34 ; 2.00 REMARK 3 MEDIUM THERMAL 1 D (A**2): 61 ; 0.18 ; 2.00 REMARK 3 MEDIUM THERMAL 1 E (A**2): 61 ; 0.17 ; 2.00 REMARK 3 MEDIUM THERMAL 1 F (A**2): 61 ; 0.12 ; 2.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A C F REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 101 A 101 4 REMARK 3 1 C 101 C 101 4 REMARK 3 1 F 101 F 101 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 A (A): 41 ; 0.12 ; 0.50 REMARK 3 MEDIUM POSITIONAL 2 C (A): 41 ; 0.10 ; 0.50 REMARK 3 MEDIUM POSITIONAL 2 F (A): 41 ; 0.12 ; 0.50 REMARK 3 MEDIUM THERMAL 2 A (A**2): 41 ; 0.24 ; 2.00 REMARK 3 MEDIUM THERMAL 2 C (A**2): 41 ; 0.17 ; 2.00 REMARK 3 MEDIUM THERMAL 2 F (A**2): 41 ; 0.26 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 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 2 A 68 REMARK 3 ORIGIN FOR THE GROUP (A): 38.1290 8.0854 59.3108 REMARK 3 T TENSOR REMARK 3 T11: -0.2814 T22: -0.1331 REMARK 3 T33: -0.1837 T12: -0.0503 REMARK 3 T13: 0.0801 T23: 0.1140 REMARK 3 L TENSOR REMARK 3 L11: 3.8439 L22: 10.8801 REMARK 3 L33: 3.3680 L12: 1.5787 REMARK 3 L13: 0.1234 L23: 2.0366 REMARK 3 S TENSOR REMARK 3 S11: 0.1471 S12: -0.2021 S13: -0.0856 REMARK 3 S21: 0.1347 S22: 0.0466 S23: 0.7332 REMARK 3 S31: 0.0742 S32: -0.5858 S33: -0.1938 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 68 REMARK 3 ORIGIN FOR THE GROUP (A): 57.1887 4.4875 72.5143 REMARK 3 T TENSOR REMARK 3 T11: 0.1020 T22: -0.0997 REMARK 3 T33: -0.2968 T12: -0.0331 REMARK 3 T13: -0.0751 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 7.4765 L22: 2.9370 REMARK 3 L33: 3.8237 L12: 0.0066 REMARK 3 L13: 1.7693 L23: -0.7479 REMARK 3 S TENSOR REMARK 3 S11: 0.1688 S12: -0.7099 S13: -0.2635 REMARK 3 S21: 0.7785 S22: -0.0338 S23: -0.1024 REMARK 3 S31: 0.2065 S32: 0.3040 S33: -0.1350 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 2 C 68 REMARK 3 ORIGIN FOR THE GROUP (A): 53.7330 25.3767 62.2810 REMARK 3 T TENSOR REMARK 3 T11: -0.1296 T22: -0.2864 REMARK 3 T33: -0.1528 T12: -0.0461 REMARK 3 T13: 0.1470 T23: -0.0863 REMARK 3 L TENSOR REMARK 3 L11: 2.6518 L22: 6.3941 REMARK 3 L33: 8.5464 L12: 0.1160 REMARK 3 L13: 1.5723 L23: -3.3930 REMARK 3 S TENSOR REMARK 3 S11: 0.1269 S12: -0.2020 S13: 0.5271 REMARK 3 S21: 0.6265 S22: -0.0374 S23: 0.0027 REMARK 3 S31: -0.8423 S32: 0.1432 S33: -0.0896 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 2 D 68 REMARK 3 ORIGIN FOR THE GROUP (A): 78.1799 5.8183 40.1992 REMARK 3 T TENSOR REMARK 3 T11: -0.2227 T22: 0.0422 REMARK 3 T33: -0.0460 T12: 0.0156 REMARK 3 T13: 0.0652 T23: -0.1033 REMARK 3 L TENSOR REMARK 3 L11: 4.5908 L22: 4.2819 REMARK 3 L33: 10.4781 L12: -1.4992 REMARK 3 L13: 2.7277 L23: -3.2010 REMARK 3 S TENSOR REMARK 3 S11: 0.1842 S12: 0.6204 S13: -0.2829 REMARK 3 S21: -0.5125 S22: -0.2510 S23: -0.6974 REMARK 3 S31: 0.5353 S32: 0.8965 S33: 0.0668 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 2 E 68 REMARK 3 ORIGIN FOR THE GROUP (A): 73.2124 23.1821 55.1147 REMARK 3 T TENSOR REMARK 3 T11: -0.2289 T22: -0.1142 REMARK 3 T33: -0.0281 T12: -0.2066 REMARK 3 T13: -0.0463 T23: -0.0806 REMARK 3 L TENSOR REMARK 3 L11: 6.3156 L22: 5.7866 REMARK 3 L33: 8.0110 L12: -3.0630 REMARK 3 L13: -4.8721 L23: 2.9919 REMARK 3 S TENSOR REMARK 3 S11: 0.4252 S12: -0.3200 S13: 0.6709 REMARK 3 S21: 0.1212 S22: 0.0731 S23: -0.7445 REMARK 3 S31: -0.7817 S32: 0.7467 S33: -0.4983 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 2 F 68 REMARK 3 ORIGIN FOR THE GROUP (A): 75.5887 1.2761 63.3039 REMARK 3 T TENSOR REMARK 3 T11: -0.1600 T22: 0.1176 REMARK 3 T33: -0.1055 T12: 0.0528 REMARK 3 T13: -0.1860 T23: 0.0334 REMARK 3 L TENSOR REMARK 3 L11: 3.4874 L22: 9.9857 REMARK 3 L33: 3.7199 L12: 0.7437 REMARK 3 L13: -0.0643 L23: -1.1086 REMARK 3 S TENSOR REMARK 3 S11: 0.0633 S12: -0.5927 S13: -0.2604 REMARK 3 S21: 0.8050 S22: 0.0198 S23: -0.7274 REMARK 3 S31: 0.3883 S32: 0.6828 S33: -0.0831 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 : 1.40 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 2V21 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1290032744. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-DEC-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 1.54 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 : 18248 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 19.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.36000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 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 1MOG REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM ACETATE, 0.1 M SODIUM REMARK 280 CACODYLATE, PH 6.5, 30% MPD REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 101.20400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.88250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.88250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.60200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.88250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.88250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 151.80600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.88250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.88250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 50.60200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.88250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.88250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 151.80600 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 101.20400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 31690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -98.4 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 0.000000 -1.000000 0.000000 65.76500 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 65.76500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 101.20400 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 465 MET B 1 REMARK 465 MET C 1 REMARK 465 MET D 1 REMARK 465 MET E 1 REMARK 465 MET F 1 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 THR A 69 CA C O CB OG1 CG2 REMARK 470 THR B 69 CA C O CB OG1 CG2 REMARK 470 THR C 69 CA C O CB OG1 CG2 REMARK 470 GLU D 50 CB CG CD OE1 OE2 REMARK 470 THR D 69 CA C O CB OG1 CG2 REMARK 470 THR E 69 CA C O CB OG1 CG2 REMARK 470 THR F 69 CA C O CB OG1 CG2 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 C 68 -132.79 61.64 REMARK 500 GLU D 68 53.33 27.35 REMARK 500 GLU E 68 89.52 39.33 REMARK 500 GLU F 68 83.52 41.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMN F 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1069 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA F 1069 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2UX9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE T. THERMOPHILUS DODECIN R65A MUTANT REMARK 900 RELATED ID: 2V18 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE T. THERMOPHILUS DODECIN REMARK 900 RELATED ID: 2V19 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE T. THERMOPHILUS DODECIN R45A MUTANT REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE T69 NOT DEFINED DBREF 2V21 A 1 69 UNP Q5SIE3 Q5SIE3_THET8 1 69 DBREF 2V21 B 1 69 UNP Q5SIE3 Q5SIE3_THET8 1 69 DBREF 2V21 C 1 69 UNP Q5SIE3 Q5SIE3_THET8 1 69 DBREF 2V21 D 1 69 UNP Q5SIE3 Q5SIE3_THET8 1 69 DBREF 2V21 E 1 69 UNP Q5SIE3 Q5SIE3_THET8 1 69 DBREF 2V21 F 1 69 UNP Q5SIE3 Q5SIE3_THET8 1 69 SEQRES 1 A 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 A 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 A 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 A 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 A 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 A 69 LEU GLU GLU THR SEQRES 1 B 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 B 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 B 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 B 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 B 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 B 69 LEU GLU GLU THR SEQRES 1 C 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 C 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 C 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 C 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 C 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 C 69 LEU GLU GLU THR SEQRES 1 D 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 D 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 D 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 D 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 D 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 D 69 LEU GLU GLU THR SEQRES 1 E 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 E 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 E 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 E 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 E 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 E 69 LEU GLU GLU THR SEQRES 1 F 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 F 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 F 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 F 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 F 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 F 69 LEU GLU GLU THR HET FMN A 101 31 HET NA A1069 1 HET FMN C 101 31 HET FMN F 101 31 HET NA F1069 1 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM NA SODIUM ION HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 7 FMN 3(C17 H21 N4 O9 P) FORMUL 8 NA 2(NA 1+) FORMUL 12 HOH *13(H2 O) HELIX 1 1 GLY A 17 LEU A 33 1 17 HELIX 2 2 GLY B 17 LEU B 33 1 17 HELIX 3 3 GLY C 17 LEU C 33 1 17 HELIX 4 4 GLY D 17 LEU D 33 1 17 HELIX 5 5 GLY E 17 LEU E 33 1 17 HELIX 6 6 GLY F 17 LEU F 33 1 17 SHEET 1 AA 4 TYR A 5 SER A 14 0 SHEET 2 AA 4 GLY A 52 ARG A 65 -1 O TYR A 56 N SER A 14 SHEET 3 AA 4 LEU A 36 GLY A 49 -1 N ASP A 37 O GLY A 63 SHEET 4 AA 4 LEU B 36 GLY B 49 -1 O ILE B 44 N VAL A 41 SHEET 1 AB 4 TYR A 5 SER A 14 0 SHEET 2 AB 4 GLY A 52 ARG A 65 -1 O TYR A 56 N SER A 14 SHEET 3 AB 4 LEU A 36 GLY A 49 -1 N ASP A 37 O GLY A 63 SHEET 4 AB 4 LEU C 36 GLY C 49 1 O ASP C 37 N ILE A 48 SITE 1 AC1 8 LYS A 3 TYR A 5 ASP A 37 TRP A 38 SITE 2 AC1 8 ARG A 65 ARG B 45 THR B 47 GLN B 57 SITE 1 AC2 8 ARG A 45 THR A 47 GLN A 57 LYS C 3 SITE 2 AC2 8 TYR C 5 ASP C 37 TRP C 38 ARG C 65 SITE 1 AC3 9 VAL D 11 ARG D 45 THR D 47 GLN D 57 SITE 2 AC3 9 LYS F 3 TYR F 5 ASP F 37 TRP F 38 SITE 3 AC3 9 ARG F 65 SITE 1 AC4 3 GLU A 19 GLU B 19 GLU C 19 SITE 1 AC5 4 GLU C 68 GLU D 19 GLU E 19 GLU F 19 CRYST1 65.765 65.765 202.408 90.00 90.00 90.00 P 41 21 2 48 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 0.015206 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015206 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004941 0.00000 MTRIX1 1 -0.123200 0.455340 -0.881750 107.05479 1 MTRIX2 1 -0.936350 -0.347670 -0.048710 66.72353 1 MTRIX3 1 -0.328740 0.819630 0.469190 40.41164 1 MTRIX1 2 -0.123180 -0.931600 -0.341970 89.66434 1 MTRIX2 2 0.458530 -0.359030 0.812920 -58.05132 1 MTRIX3 2 -0.880100 -0.056670 0.471400 78.68407 1 MTRIX1 3 -0.671970 0.330650 0.662670 62.05007 1 MTRIX2 3 0.335660 -0.661630 0.670510 -41.54006 1 MTRIX3 3 0.660140 0.673000 0.333610 -9.64790 1 MTRIX1 4 -0.355350 -0.932270 -0.067800 89.47807 1 MTRIX2 4 0.472510 -0.116570 -0.873580 24.34116 1 MTRIX3 4 0.806510 -0.342470 0.481930 -18.33639 1 MTRIX1 5 -0.456340 0.352150 -0.817150 123.88330 1 MTRIX2 5 0.114870 0.933980 0.338340 -23.20238 1 MTRIX3 5 0.882360 0.060530 -0.466670 22.08135 1