HEADER PHOSPHATASE 23-FEB-06 2CFT TITLE CRYSTAL STRUCTURE OF HUMAN PYRIDOXAL 5'-PHOSPHATE TITLE 2 PHOSPHATASE WITH ITS SUBSTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXAL PHOSPHATE PHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYRIDOXAL 5'-PHOSPHATE PHOSPHATASE, PLP COMPND 5 PHOSPHATASE; COMPND 6 EC: 3.1.3.74; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS PHOSPHATASE, CHRONOPHIN, HAD FAMILY, HYDROLASE, MAGNESIUM, KEYWDS 2 METAL-BINDING, PYRIDOXAL PHOSPHATE EXPDTA X-RAY DIFFRACTION AUTHOR B.S.KANG,H.J.CHO,K.J.KIM,O.S.KWON REVDAT 2 24-FEB-09 2CFT 1 VERSN REVDAT 1 27-FEB-07 2CFT 0 JRNL AUTH B.S.KANG,H.J.CHO,K.J.KIM,O.S.KWON JRNL TITL CRYSTAL STRUCTURE OF HUMAN PYRIDOXAL 5-PHOSPHATE JRNL TITL 2 PHOSPHATASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.8 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 27818 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1485 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1568 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 93 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2219 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 235 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.127 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.352 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2276 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3080 ; 1.526 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 290 ; 5.763 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;31.758 ;20.962 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 364 ;14.093 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;15.369 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 336 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1763 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1009 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1529 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 182 ; 0.140 ; 0.200 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): 43 ; 0.225 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 17 ; 0.132 ; 0.200 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): 1481 ; 1.002 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2280 ; 1.699 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 879 ; 2.627 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 800 ; 4.160 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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. REMARK 4 REMARK 4 2CFT COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-FEB-06. REMARK 100 THE PDBE ID CODE IS EBI-27909. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29341 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 50.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 105.09500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 27.15150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 27.15150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 157.64250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 27.15150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 27.15150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 52.54750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 27.15150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 27.15150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 157.64250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 27.15150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 27.15150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 52.54750 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 105.09500 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 GENERATING THE BIOMOLECULE 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 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 HOH A2055 LIES ON A SPECIAL POSITION. 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 GLY A -1 REMARK 465 ALA A 0 REMARK 465 ALA A 106 REMARK 465 PRO A 107 REMARK 465 ASP A 296 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 ARG A 3 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 105 C O CB CG OD1 OD2 REMARK 470 GLU A 295 CA C O CB CG CD OE1 OE2 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 CYS A 163 CA - CB - SG ANGL. DEV. = -6.9 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 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 CYS A 26 -70.01 -108.62 REMARK 500 VAL A 29 -61.80 -126.12 REMARK 500 THR A 242 -68.44 -120.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1297 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PLP A1296 O1P REMARK 620 2 ASP A 25 OD1 77.7 REMARK 620 3 ASP A 238 OD1 158.7 122.6 REMARK 620 4 HOH A2191 O 84.3 162.0 75.1 REMARK 620 5 ASP A 27 O 96.2 98.3 87.5 84.7 REMARK 620 6 HOH A2197 O 88.6 86.4 86.6 92.1 173.9 REMARK 620 7 ASP A 25 OD2 128.6 50.9 71.8 146.9 93.7 86.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1298 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 263 NE REMARK 620 2 HOH A2078 O 62.3 REMARK 620 3 LEU A 264 N 92.4 149.3 REMARK 620 4 HOH A2214 O 94.2 102.7 59.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A1296 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CFR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PYRIDOXAL 5'- REMARK 900 PHOSPHATE PHOSPHATASE REMARK 900 RELATED ID: 2CFS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PYRIDOXAL 5'- REMARK 900 PHOSPHATE PHOSPHATASE REMARK 999 REMARK 999 SEQUENCE REMARK 999 TWO RESIDUES, GLY-ALA AT N-TERMINUS ARE ARTIFACTS FROM REMARK 999 CLONING VECTOR. DBREF 2CFT A -1 0 PDB 2CFT 2CFT -1 0 DBREF 2CFT A 1 296 UNP Q96GD0 PLPP_HUMAN 1 296 SEQRES 1 A 298 GLY ALA MET ALA ARG CYS GLU ARG LEU ARG GLY ALA ALA SEQRES 2 A 298 LEU ARG ASP VAL LEU GLY ARG ALA GLN GLY VAL LEU PHE SEQRES 3 A 298 ASP CYS ASP GLY VAL LEU TRP ASN GLY GLU ARG ALA VAL SEQRES 4 A 298 PRO GLY ALA PRO GLU LEU LEU GLU ARG LEU ALA ARG ALA SEQRES 5 A 298 GLY LYS ALA ALA LEU PHE VAL SER ASN ASN SER ARG ARG SEQRES 6 A 298 ALA ARG PRO GLU LEU ALA LEU ARG PHE ALA ARG LEU GLY SEQRES 7 A 298 PHE GLY GLY LEU ARG ALA GLU GLN LEU PHE SER SER ALA SEQRES 8 A 298 LEU CYS ALA ALA ARG LEU LEU ARG GLN ARG LEU PRO GLY SEQRES 9 A 298 PRO PRO ASP ALA PRO GLY ALA VAL PHE VAL LEU GLY GLY SEQRES 10 A 298 GLU GLY LEU ARG ALA GLU LEU ARG ALA ALA GLY LEU ARG SEQRES 11 A 298 LEU ALA GLY ASP PRO SER ALA GLY ASP GLY ALA ALA PRO SEQRES 12 A 298 ARG VAL ARG ALA VAL LEU VAL GLY TYR ASP GLU HIS PHE SEQRES 13 A 298 SER PHE ALA LYS LEU ARG GLU ALA CYS ALA HIS LEU ARG SEQRES 14 A 298 ASP PRO GLU CYS LEU LEU VAL ALA THR ASP ARG ASP PRO SEQRES 15 A 298 TRP HIS PRO LEU SER ASP GLY SER ARG THR PRO GLY THR SEQRES 16 A 298 GLY SER LEU ALA ALA ALA VAL GLU THR ALA SER GLY ARG SEQRES 17 A 298 GLN ALA LEU VAL VAL GLY LYS PRO SER PRO TYR MET PHE SEQRES 18 A 298 GLU CYS ILE THR GLU ASN PHE SER ILE ASP PRO ALA ARG SEQRES 19 A 298 THR LEU MET VAL GLY ASP ARG LEU GLU THR ASP ILE LEU SEQRES 20 A 298 PHE GLY HIS ARG CYS GLY MET THR THR VAL LEU THR LEU SEQRES 21 A 298 THR GLY VAL SER ARG LEU GLU GLU ALA GLN ALA TYR LEU SEQRES 22 A 298 ALA ALA GLY GLN HIS ASP LEU VAL PRO HIS TYR TYR VAL SEQRES 23 A 298 GLU SER ILE ALA ASP LEU THR GLU GLY LEU GLU ASP HET CA A1297 1 HET CA A1298 1 HET PLP A1296 16 HETNAM CA CALCIUM ION HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 COMPLEX FORMUL 2 CA 2(CA 2+) FORMUL 4 PLP C8 H10 N O6 P FORMUL 5 HOH *235(H2 O1) HELIX 1 1 ARG A 8 ALA A 19 1 12 HELIX 2 2 GLY A 39 ALA A 50 1 12 HELIX 3 3 ALA A 64 LEU A 75 1 12 HELIX 4 4 ARG A 81 GLU A 83 5 3 HELIX 5 5 SER A 88 LEU A 100 1 13 HELIX 6 6 GLY A 115 ALA A 125 1 11 HELIX 7 7 SER A 155 ARG A 167 1 13 HELIX 8 8 GLY A 192 GLY A 205 1 14 HELIX 9 9 SER A 215 GLU A 224 1 10 HELIX 10 10 ASP A 229 ALA A 231 5 3 HELIX 11 11 THR A 242 GLY A 251 1 10 HELIX 12 12 ARG A 263 ALA A 273 1 11 HELIX 13 13 GLN A 275 VAL A 279 5 5 HELIX 14 14 SER A 286 LEU A 294 5 9 SHEET 1 AA 7 GLU A 5 ARG A 6 0 SHEET 2 AA 7 TYR A 282 VAL A 284 1 N TYR A 283 O GLU A 5 SHEET 3 AA 7 THR A 253 THR A 257 1 O THR A 254 N TYR A 282 SHEET 4 AA 7 THR A 233 GLY A 237 1 O THR A 233 N THR A 253 SHEET 5 AA 7 GLY A 21 PHE A 24 1 O GLY A 21 N LEU A 234 SHEET 6 AA 7 ALA A 53 SER A 58 1 O ALA A 53 N VAL A 22 SHEET 7 AA 7 LEU A 85 SER A 87 1 O PHE A 86 N SER A 58 SHEET 1 AB 2 TRP A 31 ASN A 32 0 SHEET 2 AB 2 ARG A 35 ALA A 36 -1 O ARG A 35 N ASN A 32 SHEET 1 AC 4 ALA A 109 LEU A 113 0 SHEET 2 AC 4 VAL A 143 VAL A 148 1 N ARG A 144 O ALA A 109 SHEET 3 AC 4 LEU A 172 ALA A 175 1 O LEU A 172 N VAL A 146 SHEET 4 AC 4 LEU A 209 VAL A 210 1 O LEU A 209 N ALA A 175 SHEET 1 AD 2 TRP A 181 PRO A 183 0 SHEET 2 AD 2 ARG A 189 PRO A 191 -1 O THR A 190 N HIS A 182 SSBOND 1 CYS A 91 CYS A 221 1555 1555 2.06 LINK CA CA A1297 O1P PLP A1296 1555 1555 2.26 LINK CA CA A1297 OD1 ASP A 25 1555 1555 2.66 LINK CA CA A1297 OD1 ASP A 238 1555 1555 2.36 LINK CA CA A1297 O HOH A2191 1555 1555 2.42 LINK CA CA A1297 O ASP A 27 1555 1555 2.38 LINK CA CA A1297 O HOH A2197 1555 1555 2.38 LINK CA CA A1297 OD2 ASP A 25 1555 1555 2.50 LINK CA CA A1298 O HOH A2078 1555 6555 3.14 LINK CA CA A1298 N LEU A 264 1555 1555 3.35 LINK CA CA A1298 O HOH A2214 1555 1555 3.29 LINK CA CA A1298 NE ARG A 263 1555 1555 3.16 CISPEP 1 LYS A 213 PRO A 214 0 3.15 SITE 1 AC1 6 ASP A 25 ASP A 27 ASP A 238 PLP A1296 SITE 2 AC1 6 HOH A2191 HOH A2197 SITE 1 AC2 2 ARG A 263 LEU A 264 SITE 1 AC3 15 ASP A 25 CYS A 26 ASP A 27 SER A 58 SITE 2 AC3 15 ASN A 59 ASN A 60 ARG A 62 TYR A 150 SITE 3 AC3 15 HIS A 182 LYS A 213 CA A1297 HOH A2159 SITE 4 AC3 15 HOH A2193 HOH A2234 HOH A2235 CRYST1 54.303 54.303 210.190 90.00 90.00 90.00 P 43 21 2 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 0.018415 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018415 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004758 0.00000