HEADER TRANSFERASE 19-JAN-09 2W8T TITLE SPT WITH PLP, N100C COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE PALMITOYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 2-420; COMPND 5 SYNONYM: SPT; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: 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 EXPDTA X-RAY DIFFRACTION AUTHOR M.C.C.RAMAN,K.A.JOHNSON,D.J.CAMPOPIANO,J.H.NAISMITH REVDAT 4 18-NOV-15 2W8T 1 JRNL REMARK VERSN SEQRES REVDAT 4 2 HET HETNAM HETSYN FORMUL REVDAT 4 3 MODRES LINK SITE ATOM REVDAT 4 4 ANISOU TER HETATM CONECT REVDAT 4 5 MASTER REVDAT 3 23-JUN-09 2W8T 1 JRNL REVDAT 2 05-MAY-09 2W8T 1 JRNL REMARK SITE REVDAT 1 27-JAN-09 2W8T 0 JRNL AUTH M.C.C.RAMAN,K.A.JOHNSON,B.A.YARD,J.LOWTHER,L.G.CARTER, JRNL AUTH 2 J.H.NAISMITH,D.J.CAMPOPIANO JRNL TITL THE EXTERNAL-ALDIMINE FORM OF SERINE PALMITOYLTRANSERASE; JRNL TITL 2 STRUCTURAL, KINETIC AND SPECTROSCOPIC ANALYSIS OF THE JRNL TITL 3 WILD-TYPE ENZYME AND HSAN1 MUTANT MIMICS. JRNL REF J.BIOL.CHEM. V. 284 17328 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19376777 JRNL DOI 10.1074/JBC.M109.008680 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0070 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 94021 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) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.165 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4935 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6871 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 353 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3047 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 479 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 3.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.06000 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): 0.045 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.041 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.026 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.290 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3113 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2083 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4227 ; 1.185 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5100 ; 0.827 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 414 ; 5.320 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 124 ;35.049 ;23.710 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 529 ;10.539 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;14.882 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 482 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3505 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 626 ; 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): 1985 ; 0.504 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3186 ; 0.884 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1128 ; 1.542 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1032 ; 2.463 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 5196 ; 0.625 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 479 ; 2.158 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 5130 ; 0.817 ; 3.000 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 : 5 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 23 A 43 REMARK 3 ORIGIN FOR THE GROUP (A): -13.4580 7.5770 43.5790 REMARK 3 T TENSOR REMARK 3 T11: 0.2195 T22: 0.1792 REMARK 3 T33: 0.1074 T12: 0.0196 REMARK 3 T13: -0.0017 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 0.7847 L22: 8.2831 REMARK 3 L33: 9.3000 L12: 2.4814 REMARK 3 L13: 2.5749 L23: 8.7461 REMARK 3 S TENSOR REMARK 3 S11: -0.0301 S12: 0.0042 S13: 0.0137 REMARK 3 S21: 0.1921 S22: 0.1659 S23: -0.0501 REMARK 3 S31: 0.2538 S32: 0.2486 S33: -0.1359 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 44 A 115 REMARK 3 ORIGIN FOR THE GROUP (A): 2.8090 29.5110 28.5900 REMARK 3 T TENSOR REMARK 3 T11: 0.0395 T22: 0.0372 REMARK 3 T33: 0.0560 T12: 0.0015 REMARK 3 T13: -0.0062 T23: -0.0054 REMARK 3 L TENSOR REMARK 3 L11: 0.3825 L22: 0.2695 REMARK 3 L33: 1.0722 L12: 0.0023 REMARK 3 L13: 0.0954 L23: 0.0556 REMARK 3 S TENSOR REMARK 3 S11: -0.0144 S12: -0.0467 S13: 0.0530 REMARK 3 S21: 0.0363 S22: -0.0053 S23: 0.0087 REMARK 3 S31: -0.0902 S32: -0.0078 S33: 0.0196 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 116 A 281 REMARK 3 RESIDUE RANGE : A 1265 A 1265 REMARK 3 ORIGIN FOR THE GROUP (A): 16.7640 8.3370 25.7370 REMARK 3 T TENSOR REMARK 3 T11: 0.0640 T22: 0.0613 REMARK 3 T33: 0.0576 T12: 0.0125 REMARK 3 T13: 0.0046 T23: 0.0024 REMARK 3 L TENSOR REMARK 3 L11: 0.3619 L22: 0.8918 REMARK 3 L33: 0.3797 L12: -0.1717 REMARK 3 L13: 0.1443 L23: -0.0975 REMARK 3 S TENSOR REMARK 3 S11: 0.0092 S12: -0.0230 S13: -0.0724 REMARK 3 S21: 0.0488 S22: -0.0131 S23: -0.0481 REMARK 3 S31: 0.1066 S32: 0.0669 S33: 0.0038 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 282 A 340 REMARK 3 ORIGIN FOR THE GROUP (A): 13.3190 22.9120 30.1200 REMARK 3 T TENSOR REMARK 3 T11: 0.0351 T22: 0.0555 REMARK 3 T33: 0.0601 T12: 0.0165 REMARK 3 T13: 0.0023 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.4316 L22: 0.1256 REMARK 3 L33: 1.5908 L12: 0.1478 REMARK 3 L13: 0.3543 L23: -0.0451 REMARK 3 S TENSOR REMARK 3 S11: 0.0045 S12: 0.0388 S13: 0.0018 REMARK 3 S21: 0.0299 S22: 0.0132 S23: -0.0258 REMARK 3 S31: 0.0207 S32: 0.2080 S33: -0.0177 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 341 A 419 REMARK 3 ORIGIN FOR THE GROUP (A): 7.2510 19.3320 50.5520 REMARK 3 T TENSOR REMARK 3 T11: 0.0688 T22: 0.0765 REMARK 3 T33: 0.0690 T12: 0.0008 REMARK 3 T13: -0.0137 T23: -0.0039 REMARK 3 L TENSOR REMARK 3 L11: 1.0508 L22: 0.7834 REMARK 3 L33: 1.1865 L12: -0.0834 REMARK 3 L13: 0.2401 L23: 0.0716 REMARK 3 S TENSOR REMARK 3 S11: 0.0317 S12: -0.1264 S13: -0.0956 REMARK 3 S21: 0.0415 S22: -0.0214 S23: 0.0645 REMARK 3 S31: 0.1257 S32: -0.0259 S33: -0.0104 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 REMARK 3 RIDING POSITIONS. U VALUES RESIDUAL ONLY. THE C-TERMINUS IS REMARK 3 DISORDERED, BUT OXT IS USED TO MODEL LAST ORDERED ATOM REMARK 4 REMARK 4 2W8T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-JAN-09. REMARK 100 THE PDBE ID CODE IS EBI-38588. 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 : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 94021 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.25 REMARK 200 RESOLUTION RANGE LOW (A) : 29.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4 REMARK 200 R MERGE (I) : 0.06 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.60 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.9 REMARK 200 R MERGE FOR SHELL (I) : 0.52 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.80 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 (%): 31.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.82 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 44.41250 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 44.41250 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 37.59000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.72700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.59000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.72700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.41250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.59000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 53.72700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 44.41250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.59000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 53.72700 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 8870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.5 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 44.41250 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 A2023 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASN 100 TO CYS 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 ARG A 22 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 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 GLY A 420 CA C O 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 2158 O HOH A 2158 3555 0.92 REMARK 500 O HOH A 2440 O HOH A 2440 4556 0.53 REMARK 500 O HOH A 2472 O HOH A 2472 3556 0.87 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 187 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 187 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LEU A 105 -109.59 -126.95 REMARK 500 LYS A 265 -108.84 -110.43 REMARK 500 THR A 269 -132.20 -142.17 REMARK 500 PHE A 293 44.96 -100.26 REMARK 500 THR A 314 29.16 -140.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A1265 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W8J RELATED DB: PDB REMARK 900 SPT WITH PLP-SER 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: 2W8W RELATED DB: PDB REMARK 900 N100Y SPT WITH PLP-SER REMARK 999 REMARK 999 SEQUENCE REMARK 999 C-TER HIS TAG. ENGINEERED MUTATION AT N100C DBREF 2W8T A 2 420 UNP Q93UV0 Q93UV0_PSEPA 2 420 DBREF 2W8T A 421 428 PDB 2W8T 2W8T 421 428 SEQADV 2W8T CYS A 100 UNP Q93UV0 ASN 100 ENGINEERED MUTATION 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 CYS 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 PLP A1265 15 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 HOH *479(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 GLY A 77 PHE A 80 5 4 HELIX 4 4 ASP A 81 GLY A 96 1 16 HELIX 5 5 PHE A 109 GLY A 124 1 16 HELIX 6 6 THR A 133 ALA A 146 1 14 HELIX 7 7 HIS A 159 GLY A 169 1 11 HELIX 8 8 SER A 180 ARG A 190 1 11 HELIX 9 9 PRO A 213 HIS A 224 1 12 HELIX 10 10 GLY A 245 GLN A 250 1 6 HELIX 11 11 LYS A 280 ALA A 287 5 8 HELIX 12 12 CYS A 288 PHE A 293 1 6 HELIX 13 13 PRO A 298 MET A 313 1 16 HELIX 14 14 ALA A 315 GLY A 337 1 23 HELIX 15 15 ASP A 356 GLY A 370 1 15 HELIX 16 16 THR A 398 GLY A 417 1 20 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 SER A 56 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 NZ LYS A 265 C4A PLP A1265 1555 1555 1.34 CISPEP 1 PRO A 379 PRO A 380 0 6.33 SITE 1 AC1 19 GLY A 134 TYR A 135 ASN A 138 HIS A 159 SITE 2 AC1 19 SER A 161 GLU A 202 ASP A 231 ALA A 233 SITE 3 AC1 19 HIS A 234 THR A 262 SER A 264 LYS A 265 SITE 4 AC1 19 GLY A 271 THR A 294 ALA A 295 HOH A2283 SITE 5 AC1 19 HOH A2477 HOH A2478 HOH A2479 CRYST1 75.180 107.454 88.825 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 0.013301 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009306 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011258 0.00000