HEADER OXIDOREDUCTASE 26-OCT-23 8QYT TITLE HUMAN PYRIDOXINE-5'-PHOSPHATE OXIDASE IN COMPLEX WITH PLP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXINE-5'-PHOSPHATE OXIDASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: WE HAVE REPORTED THE COMPLETE SEQUENCE BUT THE COMPND 6 DISCREPANCIES ARE DUE TO THE FACT THAT THE N-TERMINAL PORTION (1-45 COMPND 7 RESIDUES) AND THE LOOP (RESIDUES 236 TO 242) ARE HIGHLY MOBILE AND COMPND 8 THEREFORE WE WERE NOT ABLE TO RECONSTRUCT THESE SEGMENTS. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PNPO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE, PYRIDOXINE BIOSYNTHESIS, FLAVOPROTEIN, PYRIDOXAL KEYWDS 2 PHOSPHATE EXPDTA X-RAY DIFFRACTION AUTHOR L.ANTONELLI,A.ILARI,A.FIORILLO REVDAT 1 07-FEB-24 8QYT 0 JRNL AUTH A.BARILE,C.GRAZIANI,L.ANTONELLI,A.PARRONI,A.FIORILLO, JRNL AUTH 2 M.L.DI SALVO,A.ILARI,A.GIORGI,S.ROSIGNOLI,A.PAIARDINI, JRNL AUTH 3 R.CONTESTABILE,A.TRAMONTI JRNL TITL IDENTIFICATION OF THE PYRIDOXAL 5'-PHOSPHATE ALLOSTERIC SITE JRNL TITL 2 IN HUMAN PYRIDOX(AM)INE 5'-PHOSPHATE OXIDASE. JRNL REF PROTEIN SCI. V. 33 E4900 2024 JRNL REFN ESSN 1469-896X JRNL PMID 38284493 JRNL DOI 10.1002/PRO.4900 REMARK 2 REMARK 2 RESOLUTION. 1.69 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.69 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 24998 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1326 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) : 1.69 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1831 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 96 REMARK 3 BIN FREE R VALUE : 0.2640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1714 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 138 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.31000 REMARK 3 B22 (A**2) : -0.31000 REMARK 3 B33 (A**2) : 1.01000 REMARK 3 B12 (A**2) : -0.16000 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): 0.102 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.074 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.226 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1916 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1745 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2604 ; 1.664 ; 1.659 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4035 ; 1.375 ; 1.583 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 230 ; 7.049 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 120 ;31.793 ;21.417 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 325 ;14.962 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;16.781 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 224 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2195 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 478 ; 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): 875 ; 2.816 ; 3.292 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 874 ; 2.803 ; 3.292 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1096 ; 3.687 ; 4.916 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1097 ; 3.690 ; 4.916 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1041 ; 4.039 ; 3.707 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1038 ; 4.044 ; 3.708 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1501 ; 5.858 ; 5.402 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2138 ; 7.212 ;37.610 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2112 ; 7.227 ;37.289 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 8QYT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-OCT-23. REMARK 100 THE DEPOSITION ID IS D_1292134068. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 11.2C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26324 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.690 REMARK 200 RESOLUTION RANGE LOW (A) : 45.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 18.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 18.80 REMARK 200 R MERGE FOR SHELL (I) : 1.44300 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% VV PEG 6000, 0.1M SODIUM CITRATE, REMARK 280 0.1M LITHIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 19.73000 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 39.46000 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 39.46000 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 19.73000 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: 8960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 -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 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 -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 CYS A 3 REMARK 465 TRP A 4 REMARK 465 LEU A 5 REMARK 465 ARG A 6 REMARK 465 GLY A 7 REMARK 465 VAL A 8 REMARK 465 THR A 9 REMARK 465 ALA A 10 REMARK 465 THR A 11 REMARK 465 PHE A 12 REMARK 465 GLY A 13 REMARK 465 ARG A 14 REMARK 465 PRO A 15 REMARK 465 ALA A 16 REMARK 465 GLU A 17 REMARK 465 TRP A 18 REMARK 465 PRO A 19 REMARK 465 GLY A 20 REMARK 465 TYR A 21 REMARK 465 LEU A 22 REMARK 465 SER A 23 REMARK 465 HIS A 24 REMARK 465 LEU A 25 REMARK 465 CYS A 26 REMARK 465 GLY A 27 REMARK 465 ARG A 28 REMARK 465 SER A 29 REMARK 465 ALA A 30 REMARK 465 ALA A 31 REMARK 465 MET A 32 REMARK 465 ASP A 33 REMARK 465 LEU A 34 REMARK 465 GLY A 35 REMARK 465 PRO A 36 REMARK 465 MET A 37 REMARK 465 ARG A 38 REMARK 465 LYS A 39 REMARK 465 SER A 40 REMARK 465 TYR A 41 REMARK 465 ARG A 42 REMARK 465 GLY A 43 REMARK 465 ASP A 44 REMARK 465 ARG A 45 REMARK 465 LEU A 236 REMARK 465 PRO A 237 REMARK 465 THR A 238 REMARK 465 GLY A 239 REMARK 465 ASP A 240 REMARK 465 SER A 241 REMARK 465 PRO A 242 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 485 O HOH A 520 2.15 REMARK 500 O HOH A 497 O HOH A 521 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 532 O HOH A 532 4555 1.56 REMARK 500 O HOH A 528 O HOH A 528 4555 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 95 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 124 82.54 -151.23 REMARK 500 SER A 175 -2.17 83.15 REMARK 500 LEU A 226 69.97 -102.78 REMARK 500 GLU A 252 -131.88 58.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8QYT RELATED DB: PDB DBREF 8QYT A 1 261 UNP Q9NVS9 PNPO_HUMAN 1 261 SEQADV 8QYT GLY A -2 UNP Q9NVS9 EXPRESSION TAG SEQADV 8QYT SER A -1 UNP Q9NVS9 EXPRESSION TAG SEQADV 8QYT HIS A 0 UNP Q9NVS9 EXPRESSION TAG SEQRES 1 A 264 GLY SER HIS MET THR CYS TRP LEU ARG GLY VAL THR ALA SEQRES 2 A 264 THR PHE GLY ARG PRO ALA GLU TRP PRO GLY TYR LEU SER SEQRES 3 A 264 HIS LEU CYS GLY ARG SER ALA ALA MET ASP LEU GLY PRO SEQRES 4 A 264 MET ARG LYS SER TYR ARG GLY ASP ARG GLU ALA PHE GLU SEQRES 5 A 264 GLU THR HIS LEU THR SER LEU ASP PRO VAL LYS GLN PHE SEQRES 6 A 264 ALA ALA TRP PHE GLU GLU ALA VAL GLN CYS PRO ASP ILE SEQRES 7 A 264 GLY GLU ALA ASN ALA MET CYS LEU ALA THR CYS THR ARG SEQRES 8 A 264 ASP GLY LYS PRO SER ALA ARG MET LEU LEU LEU LYS GLY SEQRES 9 A 264 PHE GLY LYS ASP GLY PHE ARG PHE PHE THR ASN PHE GLU SEQRES 10 A 264 SER ARG LYS GLY LYS GLU LEU ASP SER ASN PRO PHE ALA SEQRES 11 A 264 SER LEU VAL PHE TYR TRP GLU PRO LEU ASN ARG GLN VAL SEQRES 12 A 264 ARG VAL GLU GLY PRO VAL LYS LYS LEU PRO GLU GLU GLU SEQRES 13 A 264 ALA GLU CYS TYR PHE HIS SER ARG PRO LYS SER SER GLN SEQRES 14 A 264 ILE GLY ALA VAL VAL SER HIS GLN SER SER VAL ILE PRO SEQRES 15 A 264 ASP ARG GLU TYR LEU ARG LYS LYS ASN GLU GLU LEU GLU SEQRES 16 A 264 GLN LEU TYR GLN ASP GLN GLU VAL PRO LYS PRO LYS SER SEQRES 17 A 264 TRP GLY GLY TYR VAL LEU TYR PRO GLN VAL MET GLU PHE SEQRES 18 A 264 TRP GLN GLY GLN THR ASN ARG LEU HIS ASP ARG ILE VAL SEQRES 19 A 264 PHE ARG ARG GLY LEU PRO THR GLY ASP SER PRO LEU GLY SEQRES 20 A 264 PRO MET THR HIS ARG GLY GLU GLU ASP TRP LEU TYR GLU SEQRES 21 A 264 ARG LEU ALA PRO HET BME A 301 4 HET FMN A 302 31 HET PLP A 303 16 HET NA A 304 1 HETNAM BME BETA-MERCAPTOETHANOL HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM NA SODIUM ION HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 BME C2 H6 O S FORMUL 3 FMN C17 H21 N4 O9 P FORMUL 4 PLP C8 H10 N O6 P FORMUL 5 NA NA 1+ FORMUL 6 HOH *138(H2 O) HELIX 1 AA1 GLU A 49 LEU A 53 5 5 HELIX 2 AA2 ASP A 57 GLN A 71 1 15 HELIX 3 AA3 SER A 115 ASN A 124 1 10 HELIX 4 AA4 GLU A 134 LEU A 136 5 3 HELIX 5 AA5 PRO A 150 ARG A 161 1 12 HELIX 6 AA6 PRO A 162 SER A 172 1 11 HELIX 7 AA7 ASP A 180 TYR A 195 1 16 HELIX 8 AA8 GLN A 222 LEU A 226 5 5 SHEET 1 AA1 7 PRO A 92 LEU A 98 0 SHEET 2 AA1 7 ALA A 80 CYS A 86 -1 N MET A 81 O LEU A 97 SHEET 3 AA1 7 PHE A 126 TRP A 133 -1 O SER A 128 N ALA A 84 SHEET 4 AA1 7 ARG A 138 LYS A 148 -1 O ARG A 138 N TRP A 133 SHEET 5 AA1 7 TRP A 206 LEU A 211 -1 O VAL A 210 N LYS A 147 SHEET 6 AA1 7 GLY A 106 ASN A 112 -1 N PHE A 109 O TYR A 209 SHEET 7 AA1 7 PHE A 102 GLY A 103 -1 N GLY A 103 O GLY A 106 SHEET 1 AA2 8 PRO A 92 LEU A 98 0 SHEET 2 AA2 8 ALA A 80 CYS A 86 -1 N MET A 81 O LEU A 97 SHEET 3 AA2 8 PHE A 126 TRP A 133 -1 O SER A 128 N ALA A 84 SHEET 4 AA2 8 ARG A 138 LYS A 148 -1 O ARG A 138 N TRP A 133 SHEET 5 AA2 8 VAL A 215 GLN A 220 -1 O TRP A 219 N GLN A 139 SHEET 6 AA2 8 ASP A 228 ARG A 234 -1 O ILE A 230 N PHE A 218 SHEET 7 AA2 8 TRP A 254 ARG A 258 -1 O LEU A 255 N ARG A 233 SHEET 8 AA2 8 HIS A 248 ARG A 249 -1 N HIS A 248 O TYR A 256 LINK SG CYS A 72 S2 BME A 301 1555 1555 2.05 CRYST1 82.480 82.480 59.190 90.00 90.00 120.00 P 31 2 1 6 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 0.012124 0.007000 0.000000 0.00000 SCALE2 0.000000 0.014000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016895 0.00000