HEADER BIOSYNTHETIC PROTEIN 28-JUN-02 1IXP TITLE ENZYME-PHOSPHATE COMPLEX OF PYRIDOXINE 5'-PHOSPHATE SYNTHASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXINE 5'-PHOSPHATE SYNTHASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: PYRIDOXAL PHOSPHATE BIOSYNTHETIC PROTEIN PDXJ; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: PDXJ; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: JM83; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PASK-IBA3 KEYWDS TIM BARREL, ENZYME-LIGAND COMPLEX, OPEN-CLOSED TRANSITION, KEYWDS 2 BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.GARRIDO-FRANCO,B.LABER,R.HUBER,T.CLAUSEN REVDAT 5 03-APR-24 1IXP 1 REMARK REVDAT 4 27-DEC-23 1IXP 1 REMARK REVDAT 3 13-JUL-11 1IXP 1 VERSN REVDAT 2 24-FEB-09 1IXP 1 VERSN REVDAT 1 11-FEB-03 1IXP 0 JRNL AUTH M.GARRIDO-FRANCO,B.LABER,R.HUBER,T.CLAUSEN JRNL TITL ENZYME-LIGAND COMPLEXES OF PYRIDOXINE 5'-PHOSPHATE SYNTHASE: JRNL TITL 2 IMPLICATIONS FOR SUBSTRATE BINDING AND CATALYSIS JRNL REF J.MOL.BIOL. V. 321 601 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12206776 JRNL DOI 10.1016/S0022-2836(02)00695-2 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.GARRIDO-FRANCO,R.HUBER,F.S.SCHMIDT,B.LABER,T.CLAUSEN REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY CRYSTALLOGRAPHIC REMARK 1 TITL 2 ANALYSIS OF PDXJ, THE PYRIDOXINE 5'-PHOSPHATE SYNTHESIZING REMARK 1 TITL 3 ENZYME REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 56 1045 2000 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444900007368 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.GARRIDO-FRANCO,B.LABER,R.HUBER,T.CLAUSEN REMARK 1 TITL STRUCTURAL BASIS FOR THE FUNCTION OF PYRIDOXINE 5'-PHOSPHATE REMARK 1 TITL 2 SYNTHASE REMARK 1 REF STRUCTURE V. 9 245 2001 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(01)00584-6 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 55905 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2729 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7298 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 544 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.440 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ANISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.840 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IXP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JUL-02. REMARK 100 THE DEPOSITION ID IS D_1000005380. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JAN-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : SI FILTER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 190793 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.12300 REMARK 200 R SYM (I) : 0.12300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.38100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NATIVE STRUCTURE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG6000, 2M NACL, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 65.20000 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 65.20000 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 66.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 77.40000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 66.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 77.40000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.20000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 66.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 77.40000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.20000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 66.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 77.40000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS AN OCTAMER GENERATED FROM THE REMARK 300 TETRAMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: X,-Y,-Z 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 APPLY THE FOLLOWING TO CHAINS: C 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 0.00000 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 LYS A 97 CG CD CE NZ REMARK 470 ARG A 98 CG CD NE CZ NH1 NH2 REMARK 470 THR A 103 OG1 CG2 REMARK 470 LYS B 97 CG CD CE NZ REMARK 470 ARG B 98 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 99 CG CD OE1 NE2 REMARK 470 THR B 103 OG1 CG2 REMARK 470 LYS C 97 CG CD CE NZ REMARK 470 ARG C 98 CG CD NE CZ NH1 NH2 REMARK 470 THR C 103 OG1 CG2 REMARK 470 ARG D 98 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 177 CG CD CE NZ 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 52 -89.55 -131.35 REMARK 500 THR A 67 -99.59 -99.77 REMARK 500 ALA A 110 -9.77 -59.74 REMARK 500 MET A 224 -60.62 -92.92 REMARK 500 ALA B 19 2.96 -64.59 REMARK 500 ARG B 20 -14.47 -142.24 REMARK 500 ARG B 50 48.74 30.16 REMARK 500 HIS B 52 -90.84 -126.79 REMARK 500 THR B 67 -116.22 -103.99 REMARK 500 THR B 102 -164.74 -76.82 REMARK 500 GLN B 112 38.53 -153.22 REMARK 500 ALA B 191 -161.75 -166.69 REMARK 500 ARG C 20 -23.92 -140.60 REMARK 500 ARG C 50 43.02 32.39 REMARK 500 HIS C 52 -77.22 -125.18 REMARK 500 THR C 67 -110.48 -101.55 REMARK 500 THR C 102 -168.08 -116.38 REMARK 500 ALA C 162 119.01 -35.67 REMARK 500 ALA C 191 -168.04 -168.62 REMARK 500 HIS C 210 -62.31 -93.77 REMARK 500 ARG C 242 31.76 -98.51 REMARK 500 ARG D 20 -11.91 -155.12 REMARK 500 PRO D 27 -37.14 -39.97 REMARK 500 HIS D 52 -87.09 -117.39 REMARK 500 THR D 67 -98.95 -92.82 REMARK 500 ALA D 191 -164.22 -166.35 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 PO4 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 D 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 D 1008 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HO1 RELATED DB: PDB REMARK 900 1HO1 CONTAINS PYRIDOXINE 5'-PHOSPHATE SYNTHASE REMARK 900 RELATED ID: 1HO4 RELATED DB: PDB REMARK 900 1HO4 CONTAINS PYRIDOXINE 5'-PHOSPHATE SYNTHASE COMPLEXED WITH REMARK 900 INORGANIC PHOSPHATE REMARK 900 RELATED ID: 1IXN RELATED DB: PDB REMARK 900 1IXN CONTAINS ENZYME-SUBSTRATE COMPLEX OF PYRIDOXINE 5'-PHOSPHATE REMARK 900 SYNTHASE REMARK 900 RELATED ID: 1IXO RELATED DB: PDB REMARK 900 1IXO IS ENZYME-ANALOGUE SUBSTRATE COMPLEX OF PYRIDOXINE 5'- REMARK 900 PHOSPHATE SYNTHASE REMARK 900 RELATED ID: 1IXQ RELATED DB: PDB REMARK 900 1IXQ CONTAINS ENZYME-PHOSPHATE2 COMPLEX OF PYRIDOXINE 5'-PHOSPHATE REMARK 900 SYNTHASE DBREF 1IXP A 2 243 UNP P0A794 PDXJ_ECOLI 1 242 DBREF 1IXP B 2 243 UNP P0A794 PDXJ_ECOLI 1 242 DBREF 1IXP C 2 243 UNP P0A794 PDXJ_ECOLI 1 242 DBREF 1IXP D 2 243 UNP P0A794 PDXJ_ECOLI 1 242 SEQRES 1 A 242 ALA GLU LEU LEU LEU GLY VAL ASN ILE ASP HIS ILE ALA SEQRES 2 A 242 THR LEU ARG ASN ALA ARG GLY THR ALA TYR PRO ASP PRO SEQRES 3 A 242 VAL GLN ALA ALA PHE ILE ALA GLU GLN ALA GLY ALA ASP SEQRES 4 A 242 GLY ILE THR VAL HIS LEU ARG GLU ASP ARG ARG HIS ILE SEQRES 5 A 242 THR ASP ARG ASP VAL ARG ILE LEU ARG GLN THR LEU ASP SEQRES 6 A 242 THR ARG MET ASN LEU GLU MET ALA VAL THR GLU GLU MET SEQRES 7 A 242 LEU ALA ILE ALA VAL GLU THR LYS PRO HIS PHE CYS CYS SEQRES 8 A 242 LEU VAL PRO GLU LYS ARG GLN GLU VAL THR THR GLU GLY SEQRES 9 A 242 GLY LEU ASP VAL ALA GLY GLN ARG ASP LYS MET ARG ASP SEQRES 10 A 242 ALA CYS LYS ARG LEU ALA ASP ALA GLY ILE GLN VAL SER SEQRES 11 A 242 LEU PHE ILE ASP ALA ASP GLU GLU GLN ILE LYS ALA ALA SEQRES 12 A 242 ALA GLU VAL GLY ALA PRO PHE ILE GLU ILE HIS THR GLY SEQRES 13 A 242 CYS TYR ALA ASP ALA LYS THR ASP ALA GLU GLN ALA GLN SEQRES 14 A 242 GLU LEU ALA ARG ILE ALA LYS ALA ALA THR PHE ALA ALA SEQRES 15 A 242 SER LEU GLY LEU LYS VAL ASN ALA GLY HIS GLY LEU THR SEQRES 16 A 242 TYR HIS ASN VAL LYS ALA ILE ALA ALA ILE PRO GLU MET SEQRES 17 A 242 HIS GLU LEU ASN ILE GLY HIS ALA ILE ILE GLY ARG ALA SEQRES 18 A 242 VAL MET THR GLY LEU LYS ASP ALA VAL ALA GLU MET LYS SEQRES 19 A 242 ARG LEU MET LEU GLU ALA ARG GLY SEQRES 1 B 242 ALA GLU LEU LEU LEU GLY VAL ASN ILE ASP HIS ILE ALA SEQRES 2 B 242 THR LEU ARG ASN ALA ARG GLY THR ALA TYR PRO ASP PRO SEQRES 3 B 242 VAL GLN ALA ALA PHE ILE ALA GLU GLN ALA GLY ALA ASP SEQRES 4 B 242 GLY ILE THR VAL HIS LEU ARG GLU ASP ARG ARG HIS ILE SEQRES 5 B 242 THR ASP ARG ASP VAL ARG ILE LEU ARG GLN THR LEU ASP SEQRES 6 B 242 THR ARG MET ASN LEU GLU MET ALA VAL THR GLU GLU MET SEQRES 7 B 242 LEU ALA ILE ALA VAL GLU THR LYS PRO HIS PHE CYS CYS SEQRES 8 B 242 LEU VAL PRO GLU LYS ARG GLN GLU VAL THR THR GLU GLY SEQRES 9 B 242 GLY LEU ASP VAL ALA GLY GLN ARG ASP LYS MET ARG ASP SEQRES 10 B 242 ALA CYS LYS ARG LEU ALA ASP ALA GLY ILE GLN VAL SER SEQRES 11 B 242 LEU PHE ILE ASP ALA ASP GLU GLU GLN ILE LYS ALA ALA SEQRES 12 B 242 ALA GLU VAL GLY ALA PRO PHE ILE GLU ILE HIS THR GLY SEQRES 13 B 242 CYS TYR ALA ASP ALA LYS THR ASP ALA GLU GLN ALA GLN SEQRES 14 B 242 GLU LEU ALA ARG ILE ALA LYS ALA ALA THR PHE ALA ALA SEQRES 15 B 242 SER LEU GLY LEU LYS VAL ASN ALA GLY HIS GLY LEU THR SEQRES 16 B 242 TYR HIS ASN VAL LYS ALA ILE ALA ALA ILE PRO GLU MET SEQRES 17 B 242 HIS GLU LEU ASN ILE GLY HIS ALA ILE ILE GLY ARG ALA SEQRES 18 B 242 VAL MET THR GLY LEU LYS ASP ALA VAL ALA GLU MET LYS SEQRES 19 B 242 ARG LEU MET LEU GLU ALA ARG GLY SEQRES 1 C 242 ALA GLU LEU LEU LEU GLY VAL ASN ILE ASP HIS ILE ALA SEQRES 2 C 242 THR LEU ARG ASN ALA ARG GLY THR ALA TYR PRO ASP PRO SEQRES 3 C 242 VAL GLN ALA ALA PHE ILE ALA GLU GLN ALA GLY ALA ASP SEQRES 4 C 242 GLY ILE THR VAL HIS LEU ARG GLU ASP ARG ARG HIS ILE SEQRES 5 C 242 THR ASP ARG ASP VAL ARG ILE LEU ARG GLN THR LEU ASP SEQRES 6 C 242 THR ARG MET ASN LEU GLU MET ALA VAL THR GLU GLU MET SEQRES 7 C 242 LEU ALA ILE ALA VAL GLU THR LYS PRO HIS PHE CYS CYS SEQRES 8 C 242 LEU VAL PRO GLU LYS ARG GLN GLU VAL THR THR GLU GLY SEQRES 9 C 242 GLY LEU ASP VAL ALA GLY GLN ARG ASP LYS MET ARG ASP SEQRES 10 C 242 ALA CYS LYS ARG LEU ALA ASP ALA GLY ILE GLN VAL SER SEQRES 11 C 242 LEU PHE ILE ASP ALA ASP GLU GLU GLN ILE LYS ALA ALA SEQRES 12 C 242 ALA GLU VAL GLY ALA PRO PHE ILE GLU ILE HIS THR GLY SEQRES 13 C 242 CYS TYR ALA ASP ALA LYS THR ASP ALA GLU GLN ALA GLN SEQRES 14 C 242 GLU LEU ALA ARG ILE ALA LYS ALA ALA THR PHE ALA ALA SEQRES 15 C 242 SER LEU GLY LEU LYS VAL ASN ALA GLY HIS GLY LEU THR SEQRES 16 C 242 TYR HIS ASN VAL LYS ALA ILE ALA ALA ILE PRO GLU MET SEQRES 17 C 242 HIS GLU LEU ASN ILE GLY HIS ALA ILE ILE GLY ARG ALA SEQRES 18 C 242 VAL MET THR GLY LEU LYS ASP ALA VAL ALA GLU MET LYS SEQRES 19 C 242 ARG LEU MET LEU GLU ALA ARG GLY SEQRES 1 D 242 ALA GLU LEU LEU LEU GLY VAL ASN ILE ASP HIS ILE ALA SEQRES 2 D 242 THR LEU ARG ASN ALA ARG GLY THR ALA TYR PRO ASP PRO SEQRES 3 D 242 VAL GLN ALA ALA PHE ILE ALA GLU GLN ALA GLY ALA ASP SEQRES 4 D 242 GLY ILE THR VAL HIS LEU ARG GLU ASP ARG ARG HIS ILE SEQRES 5 D 242 THR ASP ARG ASP VAL ARG ILE LEU ARG GLN THR LEU ASP SEQRES 6 D 242 THR ARG MET ASN LEU GLU MET ALA VAL THR GLU GLU MET SEQRES 7 D 242 LEU ALA ILE ALA VAL GLU THR LYS PRO HIS PHE CYS CYS SEQRES 8 D 242 LEU VAL PRO GLU LYS ARG GLN GLU VAL THR THR GLU GLY SEQRES 9 D 242 GLY LEU ASP VAL ALA GLY GLN ARG ASP LYS MET ARG ASP SEQRES 10 D 242 ALA CYS LYS ARG LEU ALA ASP ALA GLY ILE GLN VAL SER SEQRES 11 D 242 LEU PHE ILE ASP ALA ASP GLU GLU GLN ILE LYS ALA ALA SEQRES 12 D 242 ALA GLU VAL GLY ALA PRO PHE ILE GLU ILE HIS THR GLY SEQRES 13 D 242 CYS TYR ALA ASP ALA LYS THR ASP ALA GLU GLN ALA GLN SEQRES 14 D 242 GLU LEU ALA ARG ILE ALA LYS ALA ALA THR PHE ALA ALA SEQRES 15 D 242 SER LEU GLY LEU LYS VAL ASN ALA GLY HIS GLY LEU THR SEQRES 16 D 242 TYR HIS ASN VAL LYS ALA ILE ALA ALA ILE PRO GLU MET SEQRES 17 D 242 HIS GLU LEU ASN ILE GLY HIS ALA ILE ILE GLY ARG ALA SEQRES 18 D 242 VAL MET THR GLY LEU LYS ASP ALA VAL ALA GLU MET LYS SEQRES 19 D 242 ARG LEU MET LEU GLU ALA ARG GLY HET PO4 A1001 5 HET PO4 A1002 5 HET PO4 B1005 5 HET PO4 B1006 5 HET PO4 C1003 5 HET PO4 C1004 5 HET PO4 D1007 5 HET PO4 D1008 5 HETNAM PO4 PHOSPHATE ION FORMUL 5 PO4 8(O4 P 3-) FORMUL 13 HOH *544(H2 O) HELIX 1 1 ILE A 10 ALA A 19 1 10 HELIX 2 2 ASP A 26 GLN A 36 1 11 HELIX 3 3 THR A 54 LEU A 65 1 12 HELIX 4 4 THR A 76 LYS A 87 1 12 HELIX 5 5 GLN A 112 ALA A 126 1 15 HELIX 6 6 ASP A 137 VAL A 147 1 11 HELIX 7 7 THR A 156 ASP A 161 1 6 HELIX 8 8 THR A 164 SER A 184 1 21 HELIX 9 9 ASN A 199 ALA A 205 1 7 HELIX 10 10 GLY A 215 GLY A 226 1 12 HELIX 11 11 GLY A 226 ARG A 242 1 17 HELIX 12 12 ILE B 10 ALA B 19 1 10 HELIX 13 13 ASP B 26 GLN B 36 1 11 HELIX 14 14 THR B 54 LEU B 65 1 12 HELIX 15 15 THR B 76 LYS B 87 1 12 HELIX 16 16 LYS B 97 VAL B 101 5 5 HELIX 17 17 GLN B 112 ALA B 126 1 15 HELIX 18 18 ASP B 137 GLY B 148 1 12 HELIX 19 19 THR B 156 ALA B 162 1 7 HELIX 20 20 THR B 164 LEU B 185 1 22 HELIX 21 21 ASN B 199 ILE B 206 1 8 HELIX 22 22 GLY B 215 GLY B 226 1 12 HELIX 23 23 GLY B 226 GLY B 243 1 18 HELIX 24 24 ILE C 10 ALA C 19 1 10 HELIX 25 25 ASP C 26 GLN C 36 1 11 HELIX 26 26 THR C 54 LEU C 65 1 12 HELIX 27 27 THR C 76 LYS C 87 1 12 HELIX 28 28 GLN C 112 ALA C 126 1 15 HELIX 29 29 ASP C 137 VAL C 147 1 11 HELIX 30 30 THR C 156 ALA C 162 1 7 HELIX 31 31 THR C 164 LEU C 185 1 22 HELIX 32 32 ASN C 199 ALA C 205 1 7 HELIX 33 33 GLY C 215 GLY C 226 1 12 HELIX 34 34 GLY C 226 ARG C 242 1 17 HELIX 35 35 ILE D 10 ALA D 19 1 10 HELIX 36 36 ASP D 26 GLN D 36 1 11 HELIX 37 37 THR D 54 LEU D 65 1 12 HELIX 38 38 THR D 76 LYS D 87 1 12 HELIX 39 39 LYS D 97 VAL D 101 5 5 HELIX 40 40 VAL D 109 GLY D 111 5 3 HELIX 41 41 GLN D 112 ALA D 126 1 15 HELIX 42 42 ASP D 137 GLY D 148 1 12 HELIX 43 43 THR D 156 ASP D 161 1 6 HELIX 44 44 THR D 164 SER D 184 1 21 HELIX 45 45 ASN D 199 ALA D 205 1 7 HELIX 46 46 GLY D 215 GLY D 226 1 12 HELIX 47 47 GLY D 226 ARG D 242 1 17 SHEET 1 A 9 LEU A 5 ASN A 9 0 SHEET 2 A 9 GLY A 41 HIS A 45 1 O GLY A 41 N VAL A 8 SHEET 3 A 9 MET A 69 MET A 73 1 O GLU A 72 N VAL A 44 SHEET 4 A 9 PHE A 90 LEU A 93 1 O CYS A 92 N LEU A 71 SHEET 5 A 9 GLN A 129 ILE A 134 1 O SER A 131 N CYS A 91 SHEET 6 A 9 PHE A 151 ILE A 154 1 O GLU A 153 N ILE A 134 SHEET 7 A 9 LYS A 188 ALA A 191 1 O ASN A 190 N ILE A 152 SHEET 8 A 9 MET A 209 ILE A 214 1 O ASN A 213 N ALA A 191 SHEET 9 A 9 LEU A 5 ASN A 9 1 N GLY A 7 O LEU A 212 SHEET 1 B 9 LEU B 5 ASN B 9 0 SHEET 2 B 9 GLY B 41 HIS B 45 1 O THR B 43 N VAL B 8 SHEET 3 B 9 MET B 69 MET B 73 1 O GLU B 72 N VAL B 44 SHEET 4 B 9 PHE B 90 LEU B 93 1 O CYS B 92 N LEU B 71 SHEET 5 B 9 GLN B 129 ILE B 134 1 O SER B 131 N LEU B 93 SHEET 6 B 9 PHE B 151 ILE B 154 1 O GLU B 153 N LEU B 132 SHEET 7 B 9 LYS B 188 ALA B 191 1 O ASN B 190 N ILE B 152 SHEET 8 B 9 MET B 209 ILE B 214 1 O ASN B 213 N ALA B 191 SHEET 9 B 9 LEU B 5 ASN B 9 1 N GLY B 7 O LEU B 212 SHEET 1 C 9 LEU C 5 ASN C 9 0 SHEET 2 C 9 GLY C 41 HIS C 45 1 O THR C 43 N VAL C 8 SHEET 3 C 9 MET C 69 MET C 73 1 O GLU C 72 N VAL C 44 SHEET 4 C 9 PHE C 90 LEU C 93 1 O PHE C 90 N LEU C 71 SHEET 5 C 9 GLN C 129 ILE C 134 1 O SER C 131 N CYS C 91 SHEET 6 C 9 PHE C 151 ILE C 154 1 O GLU C 153 N LEU C 132 SHEET 7 C 9 LYS C 188 ALA C 191 1 O ASN C 190 N ILE C 152 SHEET 8 C 9 MET C 209 ILE C 214 1 O HIS C 210 N VAL C 189 SHEET 9 C 9 LEU C 5 ASN C 9 1 N GLY C 7 O LEU C 212 SHEET 1 D 9 LEU D 5 ASN D 9 0 SHEET 2 D 9 GLY D 41 HIS D 45 1 O THR D 43 N VAL D 8 SHEET 3 D 9 MET D 69 MET D 73 1 O GLU D 72 N VAL D 44 SHEET 4 D 9 PHE D 90 LEU D 93 1 O PHE D 90 N LEU D 71 SHEET 5 D 9 GLN D 129 ILE D 134 1 O SER D 131 N CYS D 91 SHEET 6 D 9 PHE D 151 ILE D 154 1 O GLU D 153 N LEU D 132 SHEET 7 D 9 LYS D 188 ALA D 191 1 O ASN D 190 N ILE D 152 SHEET 8 D 9 MET D 209 ILE D 214 1 O ASN D 213 N ALA D 191 SHEET 9 D 9 LEU D 5 ASN D 9 1 N GLY D 7 O LEU D 212 CISPEP 1 TYR A 24 PRO A 25 0 -0.54 CISPEP 2 TYR B 24 PRO B 25 0 -0.35 CISPEP 3 TYR C 24 PRO C 25 0 -0.32 CISPEP 4 TYR D 24 PRO D 25 0 -0.31 SITE 1 AC1 6 ASP A 11 HIS A 12 ARG A 20 HIS A 52 SITE 2 AC1 6 HOH A1087 HOH A1089 SITE 1 AC2 9 ARG A 20 GLY A 192 HIS A 193 GLY A 194 SITE 2 AC2 9 ILE A 214 GLY A 215 HIS A 216 HOH A1034 SITE 3 AC2 9 HOH A1087 SITE 1 AC3 10 ARG B 20 GLY C 192 HIS C 193 GLY C 194 SITE 2 AC3 10 ASN C 213 ILE C 214 GLY C 215 HIS C 216 SITE 3 AC3 10 ALA C 217 HOH C1100 SITE 1 AC4 6 ARG B 20 ASP C 11 HIS C 12 HIS C 45 SITE 2 AC4 6 HIS C 52 HOH C1100 SITE 1 AC5 8 GLY B 192 HIS B 193 GLY B 194 ILE B 214 SITE 2 AC5 8 GLY B 215 HIS B 216 HOH B1091 ARG C 20 SITE 1 AC6 6 ASP B 11 HIS B 12 HIS B 45 HIS B 52 SITE 2 AC6 6 ARG C 20 HOH C1065 SITE 1 AC7 7 ASP D 11 HIS D 12 ARG D 20 HIS D 45 SITE 2 AC7 7 HIS D 52 HOH D1012 HOH D1123 SITE 1 AC8 11 ARG D 20 GLY D 192 HIS D 193 GLY D 194 SITE 2 AC8 11 ASN D 213 ILE D 214 GLY D 215 HIS D 216 SITE 3 AC8 11 ALA D 217 HOH D1012 HOH D1114 CRYST1 132.000 154.800 130.400 90.00 90.00 90.00 C 2 2 21 32 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 0.007576 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006460 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007669 0.00000