HEADER TRANSFERASE 13-APR-10 2XBN TITLE INHIBITION OF THE PLP-DEPENDENT ENZYME SERINE PALMITOYLTRANSFERASE BY TITLE 2 CYCLOSERINE: EVIDENCE FOR A NOVEL DECARBOXYLATIVE MECHANISM OF TITLE 3 INACTIVATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE PALMITOYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 2-420; COMPND 5 SYNONYM: SPT, SPT1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SPHINGOMONAS PAUCIMOBILIS; SOURCE 3 ORGANISM_TAXID: 13689; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE, PYRIDOXAL PHOSPHATE EXPDTA X-RAY DIFFRACTION AUTHOR J.LOWTHER,B.A.YARD,K.A.JOHNSON,L.G.CARTER,V.T.BHAT,M.C.C.RAMAN, AUTHOR 2 D.J.CLARKE,B.RAMAKERS,S.A.MCMAHON,J.H.NAISMITH,D.J.CAMPOPIANO REVDAT 4 08-MAY-24 2XBN 1 REMARK LINK REVDAT 3 25-AUG-10 2XBN 1 JRNL REVDAT 2 07-JUL-10 2XBN 1 REMARK ATOM ANISOU HETATM REVDAT 1 19-MAY-10 2XBN 0 JRNL AUTH J.LOWTHER,B.A.YARD,K.A.JOHNSON,L.G.CARTER,V.T.BHAT, JRNL AUTH 2 M.C.C.RAMAN,D.J.CLARKE,B.RAMAKERS,S.A.MCMAHON,J.H.NAISMITH, JRNL AUTH 3 D.J.CAMPOPIANO JRNL TITL INHIBITION OF THE PLP-DEPENDENT ENZYME SERINE JRNL TITL 2 PALMITOYLTRANSFERASE BY CYCLOSERINE: EVIDENCE FOR A NOVEL JRNL TITL 3 DECARBOXYLATIVE MECHANISM OF INACTIVATION. JRNL REF MOL.BIOSYSTEMS V. 6 1682 2010 JRNL REFN ISSN 1742-206X JRNL PMID 20445930 JRNL DOI 10.1039/C003743E REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 66128 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3527 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4339 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 240 REMARK 3 BIN FREE R VALUE : 0.2720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3006 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 298 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 3.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.37000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : -0.11000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.059 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.975 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3123 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2110 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4229 ; 1.164 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5151 ; 0.835 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 409 ; 5.343 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 129 ;35.878 ;23.643 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 534 ;11.952 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;16.484 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 475 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3519 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 633 ; 0.001 ; 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): 1983 ; 0.524 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 829 ; 0.145 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3175 ; 0.913 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1140 ; 1.914 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1049 ; 2.961 ; 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): 5233 ; 0.598 ; 3.000 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 22 A 37 REMARK 3 ORIGIN FOR THE GROUP (A): -14.6550 4.5860 40.2790 REMARK 3 T TENSOR REMARK 3 T11: 0.3247 T22: 0.2572 REMARK 3 T33: 0.1622 T12: -0.0553 REMARK 3 T13: 0.0710 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 2.2936 L22: 6.1780 REMARK 3 L33: 14.5812 L12: 0.6497 REMARK 3 L13: 5.2982 L23: 6.3079 REMARK 3 S TENSOR REMARK 3 S11: -0.1090 S12: -0.0723 S13: -0.0537 REMARK 3 S21: 0.7120 S22: 0.1965 S23: 0.0834 REMARK 3 S31: 0.3887 S32: -0.0001 S33: -0.0874 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 38 A 94 REMARK 3 ORIGIN FOR THE GROUP (A): 1.3250 29.9070 37.5210 REMARK 3 T TENSOR REMARK 3 T11: 0.1474 T22: 0.1548 REMARK 3 T33: 0.1598 T12: -0.0001 REMARK 3 T13: 0.0041 T23: -0.0303 REMARK 3 L TENSOR REMARK 3 L11: 0.7271 L22: 0.4732 REMARK 3 L33: 1.3135 L12: 0.0271 REMARK 3 L13: -0.0973 L23: 0.2088 REMARK 3 S TENSOR REMARK 3 S11: -0.0161 S12: -0.1362 S13: 0.1143 REMARK 3 S21: 0.1079 S22: -0.0195 S23: 0.0004 REMARK 3 S31: -0.1033 S32: -0.0739 S33: 0.0356 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 311 REMARK 3 ORIGIN FOR THE GROUP (A): 14.4530 11.5800 23.3880 REMARK 3 T TENSOR REMARK 3 T11: 0.1145 T22: 0.1413 REMARK 3 T33: 0.1261 T12: 0.0062 REMARK 3 T13: 0.0215 T23: -0.0020 REMARK 3 L TENSOR REMARK 3 L11: 0.6466 L22: 1.2148 REMARK 3 L33: 0.5386 L12: -0.3880 REMARK 3 L13: 0.2063 L23: -0.1181 REMARK 3 S TENSOR REMARK 3 S11: 0.0203 S12: 0.0052 S13: -0.0048 REMARK 3 S21: 0.0279 S22: -0.0083 S23: -0.1228 REMARK 3 S31: 0.0793 S32: 0.0915 S33: -0.0120 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 312 A 374 REMARK 3 ORIGIN FOR THE GROUP (A): 12.9950 21.5860 47.7710 REMARK 3 T TENSOR REMARK 3 T11: 0.1926 T22: 0.1721 REMARK 3 T33: 0.1334 T12: 0.0205 REMARK 3 T13: -0.0486 T23: -0.0489 REMARK 3 L TENSOR REMARK 3 L11: 1.4242 L22: 1.4897 REMARK 3 L33: 1.8517 L12: -0.3311 REMARK 3 L13: -0.1728 L23: 0.2678 REMARK 3 S TENSOR REMARK 3 S11: -0.1275 S12: -0.1852 S13: 0.0171 REMARK 3 S21: 0.2929 S22: 0.1211 S23: -0.1726 REMARK 3 S31: 0.1728 S32: 0.1107 S33: 0.0064 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 375 A 411 REMARK 3 ORIGIN FOR THE GROUP (A): 8.2250 20.8010 48.4250 REMARK 3 T TENSOR REMARK 3 T11: 0.2007 T22: 0.1851 REMARK 3 T33: 0.1397 T12: 0.0238 REMARK 3 T13: -0.0263 T23: -0.0288 REMARK 3 L TENSOR REMARK 3 L11: 1.2714 L22: 3.0485 REMARK 3 L33: 2.4103 L12: -0.3424 REMARK 3 L13: -0.2331 L23: -0.3041 REMARK 3 S TENSOR REMARK 3 S11: -0.1184 S12: -0.1076 S13: -0.0769 REMARK 3 S21: 0.2788 S22: 0.1140 S23: -0.0917 REMARK 3 S31: 0.2412 S32: -0.0587 S33: 0.0044 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 412 A 419 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7190 20.3170 62.7780 REMARK 3 T TENSOR REMARK 3 T11: 0.8883 T22: 0.3458 REMARK 3 T33: 0.1445 T12: -0.0512 REMARK 3 T13: -0.1134 T23: -0.0160 REMARK 3 L TENSOR REMARK 3 L11: 19.1599 L22: 20.1808 REMARK 3 L33: 15.3762 L12: -2.3648 REMARK 3 L13: -7.0450 L23: 4.3474 REMARK 3 S TENSOR REMARK 3 S11: 0.0995 S12: -0.7024 S13: -0.3483 REMARK 3 S21: 3.2782 S22: 0.0533 S23: -0.7850 REMARK 3 S31: 0.9437 S32: -0.3259 S33: -0.1528 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 1420 A 1420 REMARK 3 ORIGIN FOR THE GROUP (A): 7.1380 14.9920 30.2260 REMARK 3 T TENSOR REMARK 3 T11: 0.0689 T22: 0.1270 REMARK 3 T33: 0.1409 T12: -0.0469 REMARK 3 T13: -0.0775 T23: 0.0571 REMARK 3 L TENSOR REMARK 3 L11: 56.8748 L22: 12.8843 REMARK 3 L33: 16.8540 L12: -7.5718 REMARK 3 L13: 32.6016 L23: -10.3531 REMARK 3 S TENSOR REMARK 3 S11: 0.9577 S12: -0.8955 S13: 0.6825 REMARK 3 S21: -0.2401 S22: -1.0369 S23: 0.1069 REMARK 3 S31: 0.6348 S32: -0.0165 S33: 0.0792 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. THE PDB FILE WAS REFINED WITH THE TLS PARAMETERS REMARK 3 SEPARATELY (NOT INCLUDED IN ANISO RECORDS), THE R-FACTORS RELATE REMARK 3 TO THIS METHOD OF REFINEMENT. FOR CONSISTENCY WITH THE PDB, THE REMARK 3 AUTHORS AND THE PDB HAVE AGREED TO ADD THE TLS PARAMETERS TO THE REMARK 3 ANISO RECORDS IN THE DEPOSITED FILE. REMARK 4 REMARK 4 2XBN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-APR-10. REMARK 100 THE DEPOSITION ID IS D_1290043640. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66128 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 34.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 45.05300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.05300 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 37.07050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.82550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.07050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.82550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 45.05300 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.07050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 53.82550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 45.05300 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.07050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 53.82550 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.7 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.05300 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 THR A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 4 REMARK 465 ALA A 5 REMARK 465 ALA A 6 REMARK 465 GLN A 7 REMARK 465 PRO A 8 REMARK 465 HIS A 9 REMARK 465 ALA A 10 REMARK 465 LEU A 11 REMARK 465 PRO A 12 REMARK 465 ALA A 13 REMARK 465 ASP A 14 REMARK 465 ALA A 15 REMARK 465 PRO A 16 REMARK 465 ASP A 17 REMARK 465 ILE A 18 REMARK 465 ALA A 19 REMARK 465 PRO A 20 REMARK 465 GLU A 21 REMARK 465 GLY A 420 REMARK 465 LEU A 421 REMARK 465 GLU A 422 REMARK 465 HIS A 423 REMARK 465 HIS A 424 REMARK 465 HIS A 425 REMARK 465 HIS A 426 REMARK 465 HIS A 427 REMARK 465 HIS A 428 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 LEU A 105 -107.17 -129.35 REMARK 500 LYS A 265 -107.18 -103.86 REMARK 500 LYS A 265 -107.26 -103.85 REMARK 500 THR A 269 -127.32 -135.48 REMARK 500 PHE A 293 43.41 -101.48 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 A1421 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2015 O REMARK 620 2 HOH A2016 O 95.9 REMARK 620 3 HOH A2034 O 104.2 88.3 REMARK 620 4 HOH A2061 O 167.6 90.3 86.7 REMARK 620 5 HOH A2063 O 90.6 172.9 87.5 83.8 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 MG A 1421 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PMP A 1420 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W8U RELATED DB: PDB REMARK 900 SPT WITH PLP, N100Y REMARK 900 RELATED ID: 2W8V RELATED DB: PDB REMARK 900 SPT WITH PLP, N100W REMARK 900 RELATED ID: 2JGT RELATED DB: PDB REMARK 900 HIGH RESOLUTION STRUCTURE OF SPT WITH PLP INTERNAL ALDIMINE REMARK 900 RELATED ID: 2W8T RELATED DB: PDB REMARK 900 SPT WITH PLP, N100C REMARK 900 RELATED ID: 2JG2 RELATED DB: PDB REMARK 900 HIGH RESOLUTION STRUCTURE OF SPT WITH PLP INTERNAL ALDIMINE REMARK 900 RELATED ID: 2W8J RELATED DB: PDB REMARK 900 SPT WITH PLP-SER REMARK 900 RELATED ID: 2W8W RELATED DB: PDB REMARK 900 N100Y SPT WITH PLP-SER REMARK 999 REMARK 999 SEQUENCE REMARK 999 HIS TAG AT C-TERMINUS, M1 NOT PRESENT DBREF 2XBN A 2 420 UNP Q93UV0 Q93UV0_PSEPA 2 420 SEQADV 2XBN LEU A 421 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN GLU A 422 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN HIS A 423 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN HIS A 424 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN HIS A 425 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN HIS A 426 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN HIS A 427 UNP Q93UV0 EXPRESSION TAG SEQADV 2XBN HIS A 428 UNP Q93UV0 EXPRESSION TAG SEQRES 1 A 427 THR GLU ALA ALA ALA GLN PRO HIS ALA LEU PRO ALA ASP SEQRES 2 A 427 ALA PRO ASP ILE ALA PRO GLU ARG ASP LEU LEU SER LYS SEQRES 3 A 427 PHE ASP GLY LEU ILE ALA GLU ARG GLN LYS LEU LEU ASP SEQRES 4 A 427 SER GLY VAL THR ASP PRO PHE ALA ILE VAL MET GLU GLN SEQRES 5 A 427 VAL LYS SER PRO THR GLU ALA VAL ILE ARG GLY LYS ASP SEQRES 6 A 427 THR ILE LEU LEU GLY THR TYR ASN TYR MET GLY MET THR SEQRES 7 A 427 PHE ASP PRO ASP VAL ILE ALA ALA GLY LYS GLU ALA LEU SEQRES 8 A 427 GLU LYS PHE GLY SER GLY THR ASN GLY SER ARG MET LEU SEQRES 9 A 427 ASN GLY THR PHE HIS ASP HIS MET GLU VAL GLU GLN ALA SEQRES 10 A 427 LEU ARG ASP PHE TYR GLY THR THR GLY ALA ILE VAL PHE SEQRES 11 A 427 SER THR GLY TYR MET ALA ASN LEU GLY ILE ILE SER THR SEQRES 12 A 427 LEU ALA GLY LYS GLY GLU TYR VAL ILE LEU ASP ALA ASP SEQRES 13 A 427 SER HIS ALA SER ILE TYR ASP GLY CYS GLN GLN GLY ASN SEQRES 14 A 427 ALA GLU ILE VAL ARG PHE ARG HIS ASN SER VAL GLU ASP SEQRES 15 A 427 LEU ASP LYS ARG LEU GLY ARG LEU PRO LYS GLU PRO ALA SEQRES 16 A 427 LYS LEU VAL VAL LEU GLU GLY VAL TYR SER MET LEU GLY SEQRES 17 A 427 ASP ILE ALA PRO LEU LYS GLU MET VAL ALA VAL ALA LYS SEQRES 18 A 427 LYS HIS GLY ALA MET VAL LEU VAL ASP GLU ALA HIS SER SEQRES 19 A 427 MET GLY PHE PHE GLY PRO ASN GLY ARG GLY VAL TYR GLU SEQRES 20 A 427 ALA GLN GLY LEU GLU GLY GLN ILE ASP PHE VAL VAL GLY SEQRES 21 A 427 THR PHE SER LYS SER VAL GLY THR VAL GLY GLY PHE VAL SEQRES 22 A 427 VAL SER ASN HIS PRO LYS PHE GLU ALA VAL ARG LEU ALA SEQRES 23 A 427 CYS ARG PRO TYR ILE PHE THR ALA SER LEU PRO PRO SER SEQRES 24 A 427 VAL VAL ALA THR ALA THR THR SER ILE ARG LYS LEU MET SEQRES 25 A 427 THR ALA HIS GLU LYS ARG GLU ARG LEU TRP SER ASN ALA SEQRES 26 A 427 ARG ALA LEU HIS GLY GLY LEU LYS ALA MET GLY PHE ARG SEQRES 27 A 427 LEU GLY THR GLU THR CYS ASP SER ALA ILE VAL ALA VAL SEQRES 28 A 427 MET LEU GLU ASP GLN GLU GLN ALA ALA MET MET TRP GLN SEQRES 29 A 427 ALA LEU LEU ASP GLY GLY LEU TYR VAL ASN MET ALA ARG SEQRES 30 A 427 PRO PRO ALA THR PRO ALA GLY THR PHE LEU LEU ARG CYS SEQRES 31 A 427 SER ILE CYS ALA GLU HIS THR PRO ALA GLN ILE GLN THR SEQRES 32 A 427 VAL LEU GLY MET PHE GLN ALA ALA GLY ARG ALA VAL GLY SEQRES 33 A 427 VAL ILE GLY LEU GLU HIS HIS HIS HIS HIS HIS HET PMP A1420 16 HET MG A1421 1 HETNAM PMP 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE HETNAM MG MAGNESIUM ION HETSYN PMP PYRIDOXAMINE-5'-PHOSPHATE FORMUL 2 PMP C8 H13 N2 O5 P FORMUL 3 MG MG 2+ FORMUL 4 HOH *298(H2 O) HELIX 1 1 LEU A 25 LYS A 27 5 3 HELIX 2 2 PHE A 28 SER A 41 1 14 HELIX 3 3 ASP A 45 ILE A 49 5 5 HELIX 4 4 GLY A 77 PHE A 80 5 4 HELIX 5 5 ASP A 81 GLY A 96 1 16 HELIX 6 6 PHE A 109 GLY A 124 1 16 HELIX 7 7 THR A 133 ALA A 146 1 14 HELIX 8 8 HIS A 159 GLY A 169 1 11 HELIX 9 9 SER A 180 ARG A 190 1 11 HELIX 10 10 PRO A 213 HIS A 224 1 12 HELIX 11 11 GLY A 245 GLN A 250 1 6 HELIX 12 12 LYS A 280 GLU A 282 5 3 HELIX 13 13 ALA A 283 CYS A 288 1 6 HELIX 14 14 CYS A 288 PHE A 293 1 6 HELIX 15 15 PRO A 298 MET A 313 1 16 HELIX 16 16 ALA A 315 MET A 336 1 22 HELIX 17 17 ASP A 356 GLY A 370 1 15 HELIX 18 18 THR A 398 VAL A 416 1 19 SHEET 1 AA 4 GLN A 53 SER A 56 0 SHEET 2 AA 4 GLU A 59 ILE A 62 -1 O GLU A 59 N LYS A 55 SHEET 3 AA 4 LYS A 65 LEU A 69 -1 O LYS A 65 N ILE A 62 SHEET 4 AA 4 LEU A 372 TYR A 373 1 N TYR A 373 O ILE A 68 SHEET 1 AB 7 GLY A 127 PHE A 131 0 SHEET 2 AB 7 GLY A 272 SER A 276 -1 O GLY A 272 N PHE A 131 SHEET 3 AB 7 PHE A 258 THR A 262 -1 O VAL A 259 N VAL A 275 SHEET 4 AB 7 MET A 227 ASP A 231 1 O VAL A 228 N PHE A 258 SHEET 5 AB 7 LYS A 197 GLU A 202 1 O LYS A 197 N MET A 227 SHEET 6 AB 7 TYR A 151 ASP A 155 1 O TYR A 151 N LEU A 198 SHEET 7 AB 7 GLU A 172 PHE A 176 1 O GLU A 172 N VAL A 152 SHEET 1 AC 2 VAL A 204 TYR A 205 0 SHEET 2 AC 2 ASP A 210 ILE A 211 -1 O ASP A 210 N TYR A 205 SHEET 1 AD 4 ARG A 339 LEU A 340 0 SHEET 2 AD 4 ILE A 349 LEU A 354 -1 O MET A 353 N ARG A 339 SHEET 3 AD 4 PHE A 387 SER A 392 -1 O PHE A 387 N LEU A 354 SHEET 4 AD 4 ASN A 375 ALA A 377 -1 O ASN A 375 N ARG A 390 LINK MG MG A1421 O HOH A2015 1555 1555 2.01 LINK MG MG A1421 O HOH A2016 1555 1555 2.11 LINK MG MG A1421 O HOH A2034 1555 1555 1.98 LINK MG MG A1421 O HOH A2061 1555 3555 2.07 LINK MG MG A1421 O HOH A2063 1555 3555 1.96 CISPEP 1 PRO A 379 PRO A 380 0 4.47 SITE 1 AC1 5 HOH A2015 HOH A2016 HOH A2034 HOH A2061 SITE 2 AC1 5 HOH A2063 SITE 1 AC2 14 GLY A 134 TYR A 135 ASN A 138 HIS A 159 SITE 2 AC2 14 GLU A 202 ASP A 231 HIS A 234 THR A 262 SITE 3 AC2 14 SER A 264 LYS A 265 GLY A 271 THR A 294 SITE 4 AC2 14 ALA A 295 HOH A2298 CRYST1 74.141 107.651 90.106 90.00 90.00 90.00 C 2 2 21 8 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 0.013488 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009289 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011098 0.00000