HEADER TRANSFERASE 03-JAN-12 4ADU TITLE CRYSTAL STRUCTURE OF PLASMODIAL PLP SYNTHASE WITH BOUND R5P TITLE 2 INTERMEDIATE CAVEAT 4ADU R5P A 1084 HAS WRONG CHIRALITY AT ATOM C2 R5P A 1084 HAS CAVEAT 2 4ADU WRONG CHIRALITY AT ATOM C3 R5P A 1084 HAS WRONG CHIRALITY CAVEAT 3 4ADU AT ATOM C4 R5P B 1084 HAS WRONG CHIRALITY AT ATOM C3 R5P B CAVEAT 4 4ADU 1084 HAS WRONG CHIRALITY AT ATOM C4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXINE BIOSYNTHETIC ENZYME PDX1 HOMOLOGUE, PUTATIVE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM BERGHEI; SOURCE 3 ORGANISM_TAXID: 5821; SOURCE 4 STRAIN: NK65; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21-A KEYWDS TRANSFERASE, SYNTHASE, PYRIDOXAL 5-PHOSPHATE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR G.GUEDEZ,I.SINNING,I.TEWS REVDAT 4 06-NOV-24 4ADU 1 REMARK REVDAT 3 15-MAY-24 4ADU 1 CAVEAT REVDAT 2 20-DEC-23 4ADU 1 REMARK LINK REVDAT 1 25-JAN-12 4ADU 0 JRNL AUTH G.GUEDEZ,K.HIPP,V.WINDEISEN,B.DERRER,M.GENGENBACHER, JRNL AUTH 2 B.BOETTCHER,I.SINNING,B.KAPPES,I.TEWS JRNL TITL ASSEMBLY OF THE EUKARYOTIC PLP-SYNTHASE COMPLEX FROM JRNL TITL 2 PLASMODIUM AND ACTIVATION OF THE PDX1 ENZYME. JRNL REF STRUCTURE V. 20 172 2012 JRNL REFN ISSN 0969-2126 JRNL PMID 22244765 JRNL DOI 10.1016/J.STR.2011.11.015 REMARK 2 REMARK 2 RESOLUTION. 2.44 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) : 2.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 22508 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1212 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.44 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1612 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE SET COUNT : 90 REMARK 3 BIN FREE R VALUE : 0.3290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4213 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.54000 REMARK 3 B22 (A**2) : -1.54000 REMARK 3 B33 (A**2) : 2.31000 REMARK 3 B12 (A**2) : -0.77000 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): 0.459 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.275 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.164 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4306 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2964 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5784 ; 1.461 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7305 ; 1.118 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 550 ; 6.157 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 168 ;37.920 ;25.238 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 824 ;16.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;10.959 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 681 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4674 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 762 ; 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): 2730 ; 0.668 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1130 ; 0.095 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4395 ; 1.280 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1576 ; 1.936 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1389 ; 3.308 ; 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 : 2 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 6 A 301 REMARK 3 ORIGIN FOR THE GROUP (A): 25.5758 28.7414 22.2510 REMARK 3 T TENSOR REMARK 3 T11: 0.0545 T22: 0.0300 REMARK 3 T33: 0.0404 T12: -0.0140 REMARK 3 T13: -0.0146 T23: -0.0180 REMARK 3 L TENSOR REMARK 3 L11: 0.7456 L22: 0.8483 REMARK 3 L33: 0.3752 L12: -0.3440 REMARK 3 L13: 0.1578 L23: 0.0726 REMARK 3 S TENSOR REMARK 3 S11: 0.0528 S12: -0.0317 S13: 0.1026 REMARK 3 S21: 0.1280 S22: -0.0399 S23: -0.1144 REMARK 3 S31: 0.0306 S32: -0.0187 S33: -0.0128 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 15 B 301 REMARK 3 ORIGIN FOR THE GROUP (A): 36.8637 7.9103 -22.4800 REMARK 3 T TENSOR REMARK 3 T11: 0.0697 T22: 0.0236 REMARK 3 T33: 0.0978 T12: -0.0043 REMARK 3 T13: 0.0741 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 0.3613 L22: 0.9986 REMARK 3 L33: 0.3469 L12: -0.0529 REMARK 3 L13: 0.0496 L23: -0.3292 REMARK 3 S TENSOR REMARK 3 S11: 0.0033 S12: 0.0774 S13: -0.0105 REMARK 3 S21: -0.1196 S22: 0.0247 S23: -0.1945 REMARK 3 S31: -0.0048 S32: 0.0213 S33: -0.0280 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4ADU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1290049428. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUL-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL 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) : 0.88 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22508 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.440 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.44000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2NV1 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BICINE PH 8.5, 1.6 M LICL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 90.23550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 52.09749 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 34.01400 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 90.23550 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 52.09749 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 34.01400 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 90.23550 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 52.09749 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 34.01400 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 90.23550 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 52.09749 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 34.01400 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 90.23550 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 52.09749 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 34.01400 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 90.23550 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 52.09749 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 34.01400 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 104.19498 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 68.02800 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 104.19498 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 68.02800 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 104.19498 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 68.02800 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 104.19498 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 68.02800 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 104.19498 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 68.02800 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 104.19498 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 68.02800 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: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 57290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 111470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -81.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 5 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 5 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 6 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 MET A 1 REMARK 465 ARG A 2 REMARK 465 ASP A 3 REMARK 465 TYR A 4 REMARK 465 ALA A 5 REMARK 465 ASP A 6 REMARK 465 SER A 285 REMARK 465 ASN A 286 REMARK 465 LYS A 287 REMARK 465 TRP A 288 REMARK 465 LYS A 289 REMARK 465 ASN A 290 REMARK 465 LYS A 291 REMARK 465 SER A 292 REMARK 465 GLU A 293 REMARK 465 GLU A 294 REMARK 465 ASP A 295 REMARK 465 ASN A 296 REMARK 465 SER A 297 REMARK 465 MET B 1 REMARK 465 ARG B 2 REMARK 465 ASP B 3 REMARK 465 TYR B 4 REMARK 465 ALA B 5 REMARK 465 ASP B 6 REMARK 465 ASN B 7 REMARK 465 ASP B 8 REMARK 465 SER B 9 REMARK 465 VAL B 284 REMARK 465 SER B 285 REMARK 465 ASN B 286 REMARK 465 LYS B 287 REMARK 465 TRP B 288 REMARK 465 LYS B 289 REMARK 465 ASN B 290 REMARK 465 LYS B 291 REMARK 465 SER B 292 REMARK 465 GLU B 293 REMARK 465 GLU B 294 REMARK 465 ASP B 295 REMARK 465 ASN B 296 REMARK 465 SER B 297 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 LYS A 100 103.21 59.87 REMARK 500 ILE A 241 -61.11 -92.85 REMARK 500 LYS B 100 97.86 66.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 RIBOSE 5-PHOSPHATE (R5P): LYS 84 FORMING SCHIFF BASE LINKAGE REMARK 600 WITH R5P REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE R5P A 1084 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE R5P B 1084 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ADT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMODIAL PLP SYNTHASE REMARK 900 RELATED ID: 4ADS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMODIAL PLP SYNTHASE COMPLEX DBREF 4ADU A 1 297 UNP Q4Z0E8 Q4Z0E8_PLABA 1 297 DBREF 4ADU B 1 297 UNP Q4Z0E8 Q4Z0E8_PLABA 1 297 SEQRES 1 A 297 MET ARG ASP TYR ALA ASP ASN ASP SER ILE LEU LEU LYS SEQRES 2 A 297 HIS GLY TRP CYS GLU MET LEU LYS GLY GLY VAL ILE MET SEQRES 3 A 297 ASP VAL LYS ASN VAL GLU GLN ALA LYS ILE ALA GLU LYS SEQRES 4 A 297 ALA GLY ALA ILE GLY VAL MET ILE LEU GLU ASN ILE PRO SEQRES 5 A 297 SER GLU LEU ARG ASN THR ASP GLY VAL ALA ARG SER VAL SEQRES 6 A 297 ASP PRO LEU LYS ILE GLU GLU ILE ARG LYS CYS ILE SER SEQRES 7 A 297 ILE ASN VAL LEU ALA LYS VAL ARG ILE GLY HIS PHE VAL SEQRES 8 A 297 GLU ALA GLN ILE LEU GLU GLU LEU LYS VAL ASP MET LEU SEQRES 9 A 297 ASP GLU SER GLU VAL LEU THR MET ALA ASP GLU TYR ASN SEQRES 10 A 297 HIS ILE ASN LYS HIS LYS PHE LYS THR PRO PHE VAL CYS SEQRES 11 A 297 GLY CYS THR ASN LEU GLY GLU ALA LEU ARG ARG ILE SER SEQRES 12 A 297 GLU GLY ALA SER MET ILE ARG THR LYS GLY GLU ALA GLY SEQRES 13 A 297 THR GLY ASN ILE ILE GLU ALA ILE LYS HIS ILE ARG THR SEQRES 14 A 297 VAL ASN ASN GLU ILE LYS TYR LEU CYS SER LEU ASP GLU SEQRES 15 A 297 SER GLU VAL TYR ASN PHE ALA LYS LYS LEU ARG ALA PRO SEQRES 16 A 297 ILE ASP LEU ILE LEU LEU THR ARG LYS LEU LYS ARG LEU SEQRES 17 A 297 PRO VAL VAL ASN PHE ALA ALA GLY GLY ILE ALA THR PRO SEQRES 18 A 297 ALA ASP ALA ALA MET CYS MET GLN LEU GLY MET ASP GLY SEQRES 19 A 297 VAL PHE VAL GLY SER GLY ILE PHE GLU SER GLU ASN PRO SEQRES 20 A 297 GLN LYS MET ALA SER SER ILE VAL MET ALA VAL SER ASN SEQRES 21 A 297 PHE ASN ASN PRO LYS ILE LEU LEU ASN VAL SER LEU GLY SEQRES 22 A 297 LEU GLY LYS ALA MET HIS GLY ASN THR LYS VAL SER ASN SEQRES 23 A 297 LYS TRP LYS ASN LYS SER GLU GLU ASP ASN SER SEQRES 1 B 297 MET ARG ASP TYR ALA ASP ASN ASP SER ILE LEU LEU LYS SEQRES 2 B 297 HIS GLY TRP CYS GLU MET LEU LYS GLY GLY VAL ILE MET SEQRES 3 B 297 ASP VAL LYS ASN VAL GLU GLN ALA LYS ILE ALA GLU LYS SEQRES 4 B 297 ALA GLY ALA ILE GLY VAL MET ILE LEU GLU ASN ILE PRO SEQRES 5 B 297 SER GLU LEU ARG ASN THR ASP GLY VAL ALA ARG SER VAL SEQRES 6 B 297 ASP PRO LEU LYS ILE GLU GLU ILE ARG LYS CYS ILE SER SEQRES 7 B 297 ILE ASN VAL LEU ALA LYS VAL ARG ILE GLY HIS PHE VAL SEQRES 8 B 297 GLU ALA GLN ILE LEU GLU GLU LEU LYS VAL ASP MET LEU SEQRES 9 B 297 ASP GLU SER GLU VAL LEU THR MET ALA ASP GLU TYR ASN SEQRES 10 B 297 HIS ILE ASN LYS HIS LYS PHE LYS THR PRO PHE VAL CYS SEQRES 11 B 297 GLY CYS THR ASN LEU GLY GLU ALA LEU ARG ARG ILE SER SEQRES 12 B 297 GLU GLY ALA SER MET ILE ARG THR LYS GLY GLU ALA GLY SEQRES 13 B 297 THR GLY ASN ILE ILE GLU ALA ILE LYS HIS ILE ARG THR SEQRES 14 B 297 VAL ASN ASN GLU ILE LYS TYR LEU CYS SER LEU ASP GLU SEQRES 15 B 297 SER GLU VAL TYR ASN PHE ALA LYS LYS LEU ARG ALA PRO SEQRES 16 B 297 ILE ASP LEU ILE LEU LEU THR ARG LYS LEU LYS ARG LEU SEQRES 17 B 297 PRO VAL VAL ASN PHE ALA ALA GLY GLY ILE ALA THR PRO SEQRES 18 B 297 ALA ASP ALA ALA MET CYS MET GLN LEU GLY MET ASP GLY SEQRES 19 B 297 VAL PHE VAL GLY SER GLY ILE PHE GLU SER GLU ASN PRO SEQRES 20 B 297 GLN LYS MET ALA SER SER ILE VAL MET ALA VAL SER ASN SEQRES 21 B 297 PHE ASN ASN PRO LYS ILE LEU LEU ASN VAL SER LEU GLY SEQRES 22 B 297 LEU GLY LYS ALA MET HIS GLY ASN THR LYS VAL SER ASN SEQRES 23 B 297 LYS TRP LYS ASN LYS SER GLU GLU ASP ASN SER HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET R5P A1084 13 HET R5P B1084 13 HETNAM EDO 1,2-ETHANEDIOL HETNAM R5P RIBOSE-5-PHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 5(C2 H6 O2) FORMUL 8 R5P 2(C5 H11 O8 P) FORMUL 10 HOH *153(H2 O) HELIX 1 1 ASN A 7 MET A 19 1 13 HELIX 2 2 ASN A 30 GLY A 41 1 12 HELIX 3 3 ILE A 51 ARG A 56 1 6 HELIX 4 4 ASP A 66 LYS A 75 1 10 HELIX 5 5 HIS A 89 LYS A 100 1 12 HELIX 6 6 ASN A 120 PHE A 124 5 5 HELIX 7 7 ASN A 134 GLU A 144 1 11 HELIX 8 8 ILE A 160 LEU A 180 1 21 HELIX 9 9 ASP A 181 SER A 183 5 3 HELIX 10 10 GLU A 184 ARG A 193 1 10 HELIX 11 11 PRO A 195 LYS A 206 1 12 HELIX 12 12 THR A 220 LEU A 230 1 11 HELIX 13 13 GLY A 238 GLU A 243 1 6 HELIX 14 14 ASN A 246 ASN A 260 1 15 HELIX 15 15 ASN A 263 LEU A 272 1 10 HELIX 16 16 LEU B 11 MET B 19 1 9 HELIX 17 17 ASN B 30 GLY B 41 1 12 HELIX 18 18 ASP B 66 CYS B 76 1 11 HELIX 19 19 HIS B 89 LYS B 100 1 12 HELIX 20 20 ASN B 120 PHE B 124 5 5 HELIX 21 21 ASN B 134 GLU B 144 1 11 HELIX 22 22 ILE B 160 SER B 179 1 20 HELIX 23 23 GLU B 184 ARG B 193 1 10 HELIX 24 24 PRO B 195 LYS B 206 1 12 HELIX 25 25 THR B 220 LEU B 230 1 11 HELIX 26 26 GLY B 238 GLU B 243 1 6 HELIX 27 27 ASN B 246 ASN B 260 1 15 HELIX 28 28 ASN B 263 LEU B 272 1 10 SHEET 1 AA 9 GLY A 23 VAL A 28 0 SHEET 2 AA 9 GLY A 234 VAL A 237 1 O VAL A 235 N ILE A 25 SHEET 3 AA 9 VAL A 211 ALA A 215 1 O ALA A 214 N PHE A 236 SHEET 4 AA 9 MET A 148 THR A 151 1 O ILE A 149 N PHE A 213 SHEET 5 AA 9 PHE A 128 CYS A 132 1 O CYS A 130 N ARG A 150 SHEET 6 AA 9 MET A 103 SER A 107 1 O LEU A 104 N VAL A 129 SHEET 7 AA 9 ASN A 80 ARG A 86 1 O ALA A 83 N ASP A 105 SHEET 8 AA 9 GLY A 44 ILE A 47 1 O VAL A 45 N LEU A 82 SHEET 9 AA 9 GLY A 23 VAL A 28 1 O MET A 26 N MET A 46 SHEET 1 BA 8 VAL B 211 PHE B 213 0 SHEET 2 BA 8 MET B 148 THR B 151 1 O ILE B 149 N PHE B 213 SHEET 3 BA 8 PHE B 128 CYS B 132 1 O CYS B 130 N ARG B 150 SHEET 4 BA 8 MET B 103 GLU B 106 1 O LEU B 104 N VAL B 129 SHEET 5 BA 8 ASN B 80 VAL B 85 1 O ALA B 83 N ASP B 105 SHEET 6 BA 8 GLY B 44 ILE B 47 1 O VAL B 45 N LEU B 82 SHEET 7 BA 8 GLY B 23 VAL B 28 1 O MET B 26 N MET B 46 SHEET 8 BA 8 GLY B 234 VAL B 237 1 O VAL B 235 N ILE B 25 LINK NZ LYS A 84 C1 R5P A1084 1555 1555 1.46 LINK NZ LYS B 84 C1 R5P B1084 1555 1555 1.45 SITE 1 AC1 1 EDO A 303 SITE 1 AC2 2 EDO A 302 EDO A 305 SITE 1 AC3 4 EDO A 305 EDO A 306 HOH A2087 TYR B 176 SITE 1 AC4 3 EDO A 303 EDO A 304 EDO A 306 SITE 1 AC5 3 EDO A 304 EDO A 305 TYR B 176 SITE 1 AC6 13 ASP A 27 PRO A 52 LYS A 84 ASP A 105 SITE 2 AC6 13 ALA A 155 GLY A 156 GLY A 216 GLY A 217 SITE 3 AC6 13 PHE A 236 VAL A 237 GLY A 238 SER A 239 SITE 4 AC6 13 HOH A2075 SITE 1 AC7 15 ASP B 27 PRO B 52 LYS B 84 ASP B 105 SITE 2 AC7 15 SER B 107 VAL B 109 ALA B 155 GLY B 156 SITE 3 AC7 15 GLY B 216 GLY B 217 GLY B 238 SER B 239 SITE 4 AC7 15 HOH B2039 HOH B2050 HOH B2051 CRYST1 180.471 180.471 102.042 90.00 90.00 120.00 H 3 2 36 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 0.005541 0.003199 0.000000 0.00000 SCALE2 0.000000 0.006398 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009800 0.00000