HEADER TRANSFERASE 28-JUL-10 3O6D TITLE PYRIDOXAL PHOSPHATE BIOSYNTHETIC PROTEIN PDXJ FROM CAMPYLOBACTER TITLE 2 JEJUNI IN COMPLEX WITH PYRIDOXINE-5'-PHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXINE 5'-PHOSPHATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PNP SYNTHASE; COMPND 5 EC: 2.6.99.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAMPYLOBACTER JEJUNI SUBSP. JEJUNI; SOURCE 3 ORGANISM_TAXID: 192222; SOURCE 4 STRAIN: NCTC 11168; SOURCE 5 GENE: CJ1238, PDXJ; 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; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS STRUCTURAL GENOMICS, IDP90671, CENTER FOR STRUCTURAL GENOMICS OF KEYWDS 2 INFECTIOUS DISEASES, CSGID, PYRIDOXINE SYNTHESIS, VITAMIN B6, KEYWDS 3 PYRIDOXAL PHOSPHATE, PDXJ, PYRIDOXINE-5'-PHOSPHATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,M.ZHOU,K.KWON,W.F.ANDERSON,A.JOACHIMIAK,CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 3 27-NOV-24 3O6D 1 REMARK SEQADV LINK REVDAT 2 08-NOV-17 3O6D 1 REMARK REVDAT 1 11-AUG-10 3O6D 0 JRNL AUTH J.OSIPIUK,M.ZHOU,K.KWON,W.F.ANDERSON,A.JOACHIMIAK JRNL TITL X-RAY CRYSTAL STRUCTURE OF PYRIDOXAL PHOSPHATE BIOSYNTHETIC JRNL TITL 2 PROTEIN PDXJ FROM CAMPYLOBACTER JEJUNI. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 23841 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1224 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1628 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 92 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2052 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.34000 REMARK 3 B22 (A**2) : 1.34000 REMARK 3 B33 (A**2) : -2.68000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.124 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.117 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 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): 2214 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1511 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3005 ; 1.594 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3748 ; 0.950 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 287 ; 5.656 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 109 ;37.303 ;25.780 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 444 ;15.146 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;15.215 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 345 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2443 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 391 ; 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): 1338 ; 0.915 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 538 ; 0.266 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2171 ; 1.670 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 876 ; 2.873 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 820 ; 4.617 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 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 -10 A 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 17.7432 40.5777 17.3212 REMARK 3 T TENSOR REMARK 3 T11: 0.0229 T22: 0.0665 REMARK 3 T33: 0.0586 T12: -0.0059 REMARK 3 T13: 0.0240 T23: 0.0332 REMARK 3 L TENSOR REMARK 3 L11: 0.6255 L22: 0.9579 REMARK 3 L33: 1.3192 L12: 0.0446 REMARK 3 L13: -0.4553 L23: -0.0102 REMARK 3 S TENSOR REMARK 3 S11: 0.0380 S12: -0.0696 S13: 0.0348 REMARK 3 S21: 0.1078 S22: -0.0124 S23: 0.0593 REMARK 3 S31: -0.0057 S32: -0.0266 S33: -0.0256 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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. U VALUES: RESIDUAL ONLY REMARK 4 REMARK 4 3O6D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060721. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 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) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23944 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 31.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.77400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.370 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, MLPHARE, DM, SOLVE, RESOLVE, HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.056 M SODIUM PHOSPHATE, 1.344 DI REMARK 280 -POTASSIUM PHOSPHATE, (10 MM PYRIDOXINE-5'-PHOSPHATE WAS USED REMARK 280 FOR CRYSTAL SOAKING), PH 8, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 45.11950 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 78.04050 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 45.11950 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 78.04050 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 45.11950 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 78.04050 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 45.11950 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 78.04050 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 45.11950 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 78.04050 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 45.11950 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 78.04050 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 45.11950 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 78.04050 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 45.11950 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 45.11950 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 78.04050 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 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 90.23900 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 SER A -2 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 238 NE - CZ - NH2 ANGL. DEV. = 4.2 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 HIS A 48 -86.04 -131.52 REMARK 500 LEU A 71 31.20 -96.21 REMARK 500 LYS A 83 62.17 60.93 REMARK 500 HIS A 210 110.27 104.50 REMARK 500 HIS A 210 115.44 99.40 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 PXP A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 803 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3O6C RELATED DB: PDB REMARK 900 PYRIDOXAL PHOSPHATE BIOSYNTHETIC PROTEIN PDXJ FROM CAMPYLOBACTER REMARK 900 JEJUNI. REMARK 900 RELATED ID: IDP90671 RELATED DB: TARGETDB DBREF 3O6D A 1 257 UNP Q9PN59 PDXJ_CAMJE 1 257 SEQADV 3O6D SER A -2 UNP Q9PN59 EXPRESSION TAG SEQADV 3O6D ASN A -1 UNP Q9PN59 EXPRESSION TAG SEQADV 3O6D ALA A 0 UNP Q9PN59 EXPRESSION TAG SEQRES 1 A 260 SER ASN ALA MSE LEU LEU GLY VAL ASN ILE ASP HIS ILE SEQRES 2 A 260 ALA VAL LEU ARG GLN ALA ARG MSE VAL ASN ASP PRO ASP SEQRES 3 A 260 LEU LEU GLU ALA ALA PHE ILE VAL ALA ARG HIS GLY ASP SEQRES 4 A 260 GLN ILE THR LEU HIS VAL ARG GLU ASP ARG ARG HIS ALA SEQRES 5 A 260 GLN ASP PHE ASP LEU GLU ASN ILE ILE LYS PHE CYS LYS SEQRES 6 A 260 SER PRO VAL ASN LEU GLU CYS ALA LEU ASN ASP GLU ILE SEQRES 7 A 260 LEU ASN LEU ALA LEU LYS LEU LYS PRO HIS ARG VAL THR SEQRES 8 A 260 LEU VAL PRO GLU LYS ARG GLU GLU LEU THR THR GLU GLY SEQRES 9 A 260 GLY LEU CYS LEU ASN HIS ALA LYS LEU LYS GLN SER ILE SEQRES 10 A 260 GLU LYS LEU GLN ASN ALA ASN ILE GLU VAL SER LEU PHE SEQRES 11 A 260 ILE ASN PRO SER LEU GLU ASP ILE GLU LYS SER LYS ILE SEQRES 12 A 260 LEU LYS ALA GLN PHE ILE GLU LEU HIS THR GLY HIS TYR SEQRES 13 A 260 ALA ASN LEU HIS ASN ALA LEU PHE SER ASN ILE SER HIS SEQRES 14 A 260 THR ALA PHE ALA LEU LYS GLU LEU ASP GLN ASP LYS LYS SEQRES 15 A 260 THR LEU GLN ALA GLN PHE GLU LYS GLU LEU GLN ASN LEU SEQRES 16 A 260 GLU LEU CYS ALA LYS LYS GLY LEU GLU LEU GLY LEU LYS SEQRES 17 A 260 VAL ALA ALA GLY HIS GLY LEU ASN TYR LYS ASN VAL LYS SEQRES 18 A 260 PRO VAL VAL LYS ILE LYS GLU ILE CYS GLU LEU ASN ILE SEQRES 19 A 260 GLY GLN SER ILE VAL ALA ARG SER VAL PHE THR GLY LEU SEQRES 20 A 260 GLN ASN ALA ILE LEU GLU MSE LYS GLU LEU ILE LYS ARG MODRES 3O6D MSE A 1 MET SELENOMETHIONINE MODRES 3O6D MSE A 18 MET SELENOMETHIONINE MODRES 3O6D MSE A 251 MET SELENOMETHIONINE HET MSE A 1 13 HET MSE A 18 8 HET MSE A 251 8 HET PXP A 801 16 HET PO4 A 802 5 HET PO4 A 803 5 HETNAM MSE SELENOMETHIONINE HETNAM PXP PYRIDOXINE-5'-PHOSPHATE HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 2 PXP C8 H12 N O6 P FORMUL 3 PO4 2(O4 P 3-) FORMUL 5 HOH *113(H2 O) HELIX 1 1 ILE A 7 MSE A 18 1 12 HELIX 2 2 ASP A 23 GLY A 35 1 13 HELIX 3 3 GLN A 50 CYS A 61 1 12 HELIX 4 4 ASN A 72 LYS A 83 1 12 HELIX 5 5 LYS A 93 LEU A 97 5 5 HELIX 6 6 LYS A 109 ALA A 120 1 12 HELIX 7 7 SER A 131 LEU A 141 1 11 HELIX 8 8 THR A 150 SER A 162 1 13 HELIX 9 9 ASN A 163 THR A 167 5 5 HELIX 10 10 LEU A 171 ASP A 175 5 5 HELIX 11 11 ASP A 177 LEU A 202 1 26 HELIX 12 12 VAL A 217 LYS A 222 1 6 HELIX 13 13 GLY A 232 GLY A 243 1 12 HELIX 14 14 GLY A 243 ILE A 255 1 13 SHEET 1 A 9 LEU A 2 ASN A 6 0 SHEET 2 A 9 GLN A 37 HIS A 41 1 O THR A 39 N VAL A 5 SHEET 3 A 9 VAL A 65 CYS A 69 1 O ASN A 66 N ILE A 38 SHEET 4 A 9 ARG A 86 LEU A 89 1 O THR A 88 N LEU A 67 SHEET 5 A 9 GLU A 123 ILE A 128 1 O SER A 125 N VAL A 87 SHEET 6 A 9 PHE A 145 HIS A 149 1 O GLU A 147 N LEU A 126 SHEET 7 A 9 LYS A 205 GLY A 209 1 O ALA A 207 N ILE A 146 SHEET 8 A 9 GLU A 228 ILE A 231 1 O ASN A 230 N ALA A 208 SHEET 9 A 9 LEU A 2 ASN A 6 1 N GLY A 4 O LEU A 229 LINK C ALA A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N LEU A 2 1555 1555 1.33 LINK C ARG A 17 N MSE A 18 1555 1555 1.32 LINK C MSE A 18 N VAL A 19 1555 1555 1.34 LINK C GLU A 250 N MSE A 251 1555 1555 1.33 LINK C MSE A 251 N LYS A 252 1555 1555 1.32 CISPEP 1 ASP A 21 PRO A 22 0 -1.84 SITE 1 AC1 15 ASN A 6 ARG A 17 GLU A 68 PHE A 127 SITE 2 AC1 15 GLU A 147 HIS A 210 GLY A 211 ASN A 230 SITE 3 AC1 15 ILE A 231 GLY A 232 GLN A 233 HOH A 258 SITE 4 AC1 15 HOH A 263 HOH A 270 PO4 A 802 SITE 1 AC2 9 ASP A 8 HIS A 9 ARG A 17 HIS A 48 SITE 2 AC2 9 HOH A 258 HOH A 287 HOH A 320 HOH A 328 SITE 3 AC2 9 PXP A 801 SITE 1 AC3 1 ASN A 155 CRYST1 90.239 90.239 156.081 90.00 90.00 90.00 I 4 2 2 16 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 0.011082 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011082 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006407 0.00000