HEADER HYDROLASE 15-DEC-12 4IFX TITLE CRYSTAL STRUCTURE OF TREPONEMA PALLIDUM TP0796 FLAVIN TRAFFICKING TITLE 2 PROTEIN, FAD SUBSTRATE BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: THIAMINE BIOSYNTHESIS LIPOPROTEIN APBE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TREPONEMA PALLIDUM SUBSP. PALLIDUM; SOURCE 3 ORGANISM_TAXID: 243276; SOURCE 4 STRAIN: NICHOLS; SOURCE 5 GENE: APBE, TP0796, TP_0796; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS HYDROLASE, BIMETAL CENTER, FAD PYROPHOSPHATASE, FLAVIN TURNOVER, KEYWDS 2 TREPONEMA PALLIDUM EXPDTA X-RAY DIFFRACTION AUTHOR D.R.TOMCHICK,C.A.BRAUTIGAM,R.K.DEKA,M.V.NORGARD REVDAT 7 20-SEP-23 4IFX 1 REMARK LINK REVDAT 6 17-JUL-19 4IFX 1 REMARK REVDAT 5 15-NOV-17 4IFX 1 REMARK REVDAT 4 08-MAY-13 4IFX 1 JRNL REVDAT 3 13-MAR-13 4IFX 1 JRNL REVDAT 2 06-MAR-13 4IFX 1 TITLE REVDAT 1 27-FEB-13 4IFX 0 JRNL AUTH R.K.DEKA,C.A.BRAUTIGAM,W.Z.LIU,D.R.TOMCHICK,M.V.NORGARD JRNL TITL THE TP0796 LIPOPROTEIN OF TREPONEMA PALLIDUM IS A JRNL TITL 2 BIMETAL-DEPENDENT FAD PYROPHOSPHATASE WITH A POTENTIAL ROLE JRNL TITL 3 IN FLAVIN HOMEOSTASIS. JRNL REF J.BIOL.CHEM. V. 288 11106 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 23447540 JRNL DOI 10.1074/JBC.M113.449975 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 50440 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2687 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3488 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.35 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 195 REMARK 3 BIN FREE R VALUE : 0.3240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2521 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 247 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.40000 REMARK 3 B22 (A**2) : -0.22000 REMARK 3 B33 (A**2) : -0.38000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.12000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.070 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.073 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.554 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2722 ; 0.022 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2630 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3719 ; 2.228 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6006 ; 0.948 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 348 ; 6.682 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;27.205 ;22.437 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 424 ;11.249 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;17.578 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 424 ; 0.142 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3138 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 647 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 7 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 5 A 50 REMARK 3 ORIGIN FOR THE GROUP (A): 52.0232 48.7690 3.1794 REMARK 3 T TENSOR REMARK 3 T11: 0.0387 T22: 0.1083 REMARK 3 T33: 0.0759 T12: -0.0053 REMARK 3 T13: -0.0045 T23: 0.0085 REMARK 3 L TENSOR REMARK 3 L11: 1.0667 L22: 2.0755 REMARK 3 L33: 2.0344 L12: 0.2403 REMARK 3 L13: 0.0098 L23: -0.0592 REMARK 3 S TENSOR REMARK 3 S11: 0.0531 S12: 0.0440 S13: 0.0284 REMARK 3 S21: 0.0432 S22: -0.0613 S23: 0.0046 REMARK 3 S31: -0.0299 S32: 0.1055 S33: 0.0081 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 : A 51 A 94 REMARK 3 ORIGIN FOR THE GROUP (A): 32.9030 46.7747 20.9607 REMARK 3 T TENSOR REMARK 3 T11: 0.1118 T22: 0.0395 REMARK 3 T33: 0.0633 T12: 0.0043 REMARK 3 T13: 0.0496 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 1.0983 L22: 2.9600 REMARK 3 L33: 2.9902 L12: 0.5790 REMARK 3 L13: 0.4055 L23: 0.4036 REMARK 3 S TENSOR REMARK 3 S11: 0.0159 S12: -0.0174 S13: 0.1314 REMARK 3 S21: 0.2718 S22: 0.0717 S23: 0.0728 REMARK 3 S31: -0.4078 S32: 0.0535 S33: -0.0876 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 : A 95 A 133 REMARK 3 ORIGIN FOR THE GROUP (A): 36.1341 32.5178 30.5031 REMARK 3 T TENSOR REMARK 3 T11: 0.2063 T22: 0.0890 REMARK 3 T33: 0.0467 T12: 0.0339 REMARK 3 T13: -0.0373 T23: -0.0233 REMARK 3 L TENSOR REMARK 3 L11: 3.0358 L22: 6.3032 REMARK 3 L33: 4.8490 L12: -1.0864 REMARK 3 L13: 0.6581 L23: 1.1853 REMARK 3 S TENSOR REMARK 3 S11: 0.0676 S12: -0.2313 S13: -0.1351 REMARK 3 S21: 0.8983 S22: 0.1542 S23: -0.2550 REMARK 3 S31: 0.6277 S32: 0.4731 S33: -0.2218 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 : A 134 A 199 REMARK 3 ORIGIN FOR THE GROUP (A): 36.5049 46.4278 10.7297 REMARK 3 T TENSOR REMARK 3 T11: 0.0647 T22: 0.0662 REMARK 3 T33: 0.0825 T12: 0.0013 REMARK 3 T13: 0.0107 T23: -0.0022 REMARK 3 L TENSOR REMARK 3 L11: 0.2467 L22: 0.7090 REMARK 3 L33: 0.1890 L12: -0.1673 REMARK 3 L13: 0.2131 L23: -0.1220 REMARK 3 S TENSOR REMARK 3 S11: -0.0302 S12: -0.0511 S13: 0.0119 REMARK 3 S21: 0.1053 S22: 0.0256 S23: 0.1288 REMARK 3 S31: -0.0238 S32: -0.0545 S33: 0.0046 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 : A 200 A 243 REMARK 3 ORIGIN FOR THE GROUP (A): 46.5174 29.6647 0.7781 REMARK 3 T TENSOR REMARK 3 T11: 0.0619 T22: 0.0886 REMARK 3 T33: 0.0931 T12: 0.0013 REMARK 3 T13: -0.0098 T23: -0.0092 REMARK 3 L TENSOR REMARK 3 L11: 1.2294 L22: 2.8359 REMARK 3 L33: 3.2690 L12: -0.1175 REMARK 3 L13: 0.3519 L23: -0.7215 REMARK 3 S TENSOR REMARK 3 S11: 0.0603 S12: -0.0591 S13: -0.1158 REMARK 3 S21: -0.0334 S22: -0.1364 S23: -0.2575 REMARK 3 S31: 0.2694 S32: 0.3205 S33: 0.0761 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 : A 244 A 266 REMARK 3 ORIGIN FOR THE GROUP (A): 42.6100 24.2454 24.9140 REMARK 3 T TENSOR REMARK 3 T11: 0.0971 T22: 0.0407 REMARK 3 T33: 0.0549 T12: 0.0044 REMARK 3 T13: -0.0267 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 8.3062 L22: 4.4073 REMARK 3 L33: 2.0336 L12: -2.4359 REMARK 3 L13: 2.5435 L23: -0.4083 REMARK 3 S TENSOR REMARK 3 S11: 0.0351 S12: 0.1783 S13: -0.1067 REMARK 3 S21: 0.3209 S22: -0.0094 S23: -0.3958 REMARK 3 S31: 0.0588 S32: 0.2533 S33: -0.0257 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 267 A 340 REMARK 3 ORIGIN FOR THE GROUP (A): 35.7715 24.3892 5.2261 REMARK 3 T TENSOR REMARK 3 T11: 0.0473 T22: 0.0622 REMARK 3 T33: 0.0762 T12: -0.0033 REMARK 3 T13: -0.0197 T23: -0.0052 REMARK 3 L TENSOR REMARK 3 L11: 0.9340 L22: 2.0650 REMARK 3 L33: 0.6850 L12: -0.5569 REMARK 3 L13: -0.3548 L23: 0.3165 REMARK 3 S TENSOR REMARK 3 S11: 0.0296 S12: 0.0860 S13: -0.0553 REMARK 3 S21: -0.0622 S22: -0.0649 S23: 0.1869 REMARK 3 S31: 0.0021 S32: -0.0342 S33: 0.0354 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4IFX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-DEC-12. REMARK 100 THE DEPOSITION ID IS D_1000076701. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-3000, SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53215 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.62800 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 4IFU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES, 0.8 M SODIUM ACETATE, 0.1 M REMARK 280 NACL, 20% (W/V) ETHYLENE GLYCOL, PH 6.5, HANGING-DROP VAPOR REMARK 280 DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 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 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 58.41250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.53950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.41250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.53950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 567 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 574 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 CYS A 1 REMARK 465 GLY A 2 REMARK 465 GLY A 3 REMARK 465 ARG A 4 REMARK 465 ASP A 201 REMARK 465 VAL A 202 REMARK 465 ARG A 203 REMARK 465 SER A 204 REMARK 465 ALA A 205 REMARK 465 ALA A 206 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 CYS A 235 CB CYS A 235 SG -0.128 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 12 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 29 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 29 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 129 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP A 218 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 279 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 279 NE - CZ - NH2 ANGL. DEV. = -3.6 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 SER A 70 -139.71 -114.27 REMARK 500 ALA A 115 67.83 -46.26 REMARK 500 PRO A 118 -79.72 -49.80 REMARK 500 ASP A 119 111.69 153.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 162 O REMARK 620 2 ASP A 284 OD1 80.7 REMARK 620 3 ASP A 284 O 87.8 90.7 REMARK 620 4 THR A 288 OG1 106.4 172.0 93.1 REMARK 620 5 FAD A 401 O1A 97.6 87.4 173.9 88.1 REMARK 620 6 HOH A 501 O 163.7 83.6 96.6 89.0 77.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 284 OD1 REMARK 620 2 FAD A 401 O1P 174.5 REMARK 620 3 FAD A 401 O1A 88.8 87.0 REMARK 620 4 HOH A 502 O 86.4 98.2 105.7 REMARK 620 5 HOH A 503 O 86.6 95.7 154.8 98.7 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 FAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 405 DBREF 4IFX A 1 340 UNP O83774 APBE_TREPA 23 362 SEQRES 1 A 340 CYS GLY GLY ARG ALA ARG VAL ARG GLU TYR SER ARG ALA SEQRES 2 A 340 GLU LEU VAL ILE GLY THR LEU CYS ARG VAL ARG VAL TYR SEQRES 3 A 340 SER LYS ARG PRO ALA ALA GLU VAL HIS ALA ALA LEU GLU SEQRES 4 A 340 GLU VAL PHE THR LEU LEU GLN GLN GLN GLU MET VAL LEU SEQRES 5 A 340 SER ALA ASN ARG ASP ASP SER ALA LEU ALA ALA LEU ASN SEQRES 6 A 340 ALA GLN ALA GLY SER ALA PRO VAL VAL VAL ASP ARG SER SEQRES 7 A 340 LEU TYR ALA LEU LEU GLU ARG ALA LEU PHE PHE ALA GLU SEQRES 8 A 340 LYS SER GLY GLY ALA PHE ASN PRO ALA LEU GLY ALA VAL SEQRES 9 A 340 VAL LYS LEU TRP ASN ILE GLY PHE ASP ARG ALA ALA VAL SEQRES 10 A 340 PRO ASP PRO ASP ALA LEU LYS GLU ALA LEU THR ARG CYS SEQRES 11 A 340 ASP PHE ARG GLN VAL HIS LEU ARG ALA GLY VAL SER VAL SEQRES 12 A 340 GLY ALA PRO HIS THR VAL GLN LEU ALA GLN ALA GLY MET SEQRES 13 A 340 GLN LEU ASP LEU GLY ALA ILE ALA LYS GLY PHE LEU ALA SEQRES 14 A 340 ASP LYS ILE VAL GLN LEU LEU THR ALA HIS ALA LEU ASP SEQRES 15 A 340 SER ALA LEU VAL ASP LEU GLY GLY ASN ILE PHE ALA LEU SEQRES 16 A 340 GLY LEU LYS TYR GLY ASP VAL ARG SER ALA ALA ALA GLN SEQRES 17 A 340 ARG LEU GLU TRP ASN VAL GLY ILE ARG ASP PRO HIS GLY SEQRES 18 A 340 THR GLY GLN LYS PRO ALA LEU VAL VAL SER VAL ARG ASP SEQRES 19 A 340 CYS SER VAL VAL THR SER GLY ALA TYR GLU ARG PHE PHE SEQRES 20 A 340 GLU ARG ASP GLY VAL ARG TYR HIS HIS ILE ILE ASP PRO SEQRES 21 A 340 VAL THR GLY PHE PRO ALA HIS THR ASP VAL ASP SER VAL SEQRES 22 A 340 SER ILE PHE ALA PRO ARG SER THR ASP ALA ASP ALA LEU SEQRES 23 A 340 ALA THR ALA CYS PHE VAL LEU GLY TYR GLU LYS SER CYS SEQRES 24 A 340 ALA LEU LEU ARG GLU PHE PRO GLY VAL ASP ALA LEU PHE SEQRES 25 A 340 ILE PHE PRO ASP LYS ARG VAL ARG ALA SER ALA GLY ILE SEQRES 26 A 340 VAL ASP ARG VAL ARG VAL LEU ASP ALA ARG PHE VAL LEU SEQRES 27 A 340 GLU ARG HET FAD A 401 53 HET MG A 402 1 HET MG A 403 1 HET ACT A 404 4 HET ACT A 405 4 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM MG MAGNESIUM ION HETNAM ACT ACETATE ION FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 MG 2(MG 2+) FORMUL 5 ACT 2(C2 H3 O2 1-) FORMUL 7 HOH *247(H2 O) HELIX 1 1 PRO A 30 SER A 53 1 24 HELIX 2 2 SER A 59 GLN A 67 1 9 HELIX 3 3 ASP A 76 SER A 93 1 18 HELIX 4 4 LEU A 101 ARG A 114 1 14 HELIX 5 5 ASP A 119 THR A 128 1 10 HELIX 6 6 ARG A 129 CYS A 130 5 2 HELIX 7 7 ASP A 131 ARG A 133 5 3 HELIX 8 8 ILE A 163 HIS A 179 1 17 HELIX 9 9 ARG A 279 GLY A 294 1 16 HELIX 10 10 GLY A 294 ARG A 303 1 10 HELIX 11 11 ILE A 325 ASP A 327 5 3 SHEET 1 A 9 ARG A 8 VAL A 16 0 SHEET 2 A 9 THR A 19 SER A 27 -1 O VAL A 25 N TYR A 10 SHEET 3 A 9 ALA A 184 LEU A 188 -1 O ASP A 187 N ARG A 22 SHEET 4 A 9 ASN A 191 LEU A 195 -1 O PHE A 193 N VAL A 186 SHEET 5 A 9 CYS A 235 GLY A 241 -1 O CYS A 235 N ALA A 194 SHEET 6 A 9 SER A 272 ALA A 277 -1 O ALA A 277 N SER A 236 SHEET 7 A 9 ASP A 309 ILE A 313 -1 O LEU A 311 N SER A 274 SHEET 8 A 9 ARG A 318 ALA A 321 -1 O ARG A 320 N PHE A 312 SHEET 9 A 9 VAL A 337 LEU A 338 1 O VAL A 337 N VAL A 319 SHEET 1 B 3 VAL A 73 VAL A 75 0 SHEET 2 B 3 HIS A 147 LEU A 151 -1 O VAL A 149 N VAL A 73 SHEET 3 B 3 VAL A 135 ALA A 139 -1 N HIS A 136 O GLN A 150 SHEET 1 C 2 LYS A 198 TYR A 199 0 SHEET 2 C 2 ARG A 209 LEU A 210 -1 O LEU A 210 N LYS A 198 SHEET 1 D 3 TRP A 212 ARG A 217 0 SHEET 2 D 3 PRO A 226 VAL A 232 -1 O VAL A 230 N VAL A 214 SHEET 3 D 3 VAL A 329 VAL A 331 -1 O ARG A 330 N VAL A 229 SHEET 1 E 2 PHE A 246 ARG A 249 0 SHEET 2 E 2 VAL A 252 HIS A 255 -1 O TYR A 254 N PHE A 247 LINK O ALA A 162 MG MG A 402 1555 1555 2.50 LINK OD1 ASP A 284 MG MG A 402 1555 1555 2.31 LINK O ASP A 284 MG MG A 402 1555 1555 2.32 LINK OD1 ASP A 284 MG MG A 403 1555 1555 2.37 LINK OG1 THR A 288 MG MG A 402 1555 1555 2.38 LINK O1A FAD A 401 MG MG A 402 1555 1555 2.36 LINK O1P FAD A 401 MG MG A 403 1555 1555 2.22 LINK O1A FAD A 401 MG MG A 403 1555 1555 2.23 LINK MG MG A 402 O HOH A 501 1555 1555 2.49 LINK MG MG A 403 O HOH A 502 1555 1555 2.60 LINK MG MG A 403 O HOH A 503 1555 1555 2.15 SITE 1 AC1 30 ILE A 17 GLY A 18 SER A 53 ASN A 55 SITE 2 AC1 30 ALA A 96 PHE A 97 ASN A 98 LEU A 101 SITE 3 AC1 30 ASP A 159 GLY A 161 ALA A 162 ALA A 164 SITE 4 AC1 30 LYS A 165 SER A 240 GLU A 244 ARG A 245 SITE 5 AC1 30 HIS A 256 ILE A 257 ILE A 258 ASP A 284 SITE 6 AC1 30 THR A 288 MG A 402 MG A 403 HOH A 501 SITE 7 AC1 30 HOH A 505 HOH A 507 HOH A 563 HOH A 644 SITE 8 AC1 30 HOH A 651 HOH A 744 SITE 1 AC2 6 ALA A 162 ASP A 284 THR A 288 FAD A 401 SITE 2 AC2 6 MG A 403 HOH A 501 SITE 1 AC3 6 LYS A 165 ASP A 284 FAD A 401 MG A 402 SITE 2 AC3 6 HOH A 502 HOH A 503 SITE 1 AC4 7 SER A 27 LYS A 28 ALA A 180 LEU A 181 SITE 2 AC4 7 ASP A 182 HOH A 513 HOH A 594 SITE 1 AC5 5 ARG A 24 LEU A 185 LYS A 198 TRP A 212 SITE 2 AC5 5 ASN A 213 CRYST1 116.825 47.079 57.583 90.00 102.00 90.00 C 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 0.008560 0.000000 0.001819 0.00000 SCALE2 0.000000 0.021241 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017754 0.00000