PDB Short entry for 2I3Y HEADER OXIDOREDUCTASE 21-AUG-06 2I3Y TITLE CRYSTAL STRUCTURE OF HUMAN GLUTATHIONE PEROXIDASE 5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: EPIDIDYMAL SECRETORY GLUTATHIONE PEROXIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EPIDIDYMIS-SPECIFIC GLUTATHIONE PEROXIDASE-LIKE PROTEIN, COMPND 5 EGLP, GLUTATHIONE PEROXIDASE 5; COMPND 6 EC: 1.11.1.9; 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 GENE: GPX5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PNIC-BSA4 (PET DERIVATIVE) KEYWDS THIOREDOXIN FOLD, EPIDIDYMAL ANDROGEN RELATED PROTEIN, STRUCTURAL KEYWDS 2 GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR K.L.KAVANAGH,C.JOHANSSON,A.ROJKOVA,C.UMEANO,G.BUNKOCZI,O.GILEADI, AUTHOR 2 F.VON DELFT,J.WEIGELT,C.ARROWSMITH,M.SUNDSTROM,A.EDWARDS, AUTHOR 3 U.OPPERMANN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 6 30-AUG-23 2I3Y 1 REMARK SEQADV REVDAT 5 31-JAN-18 2I3Y 1 AUTHOR REVDAT 4 18-OCT-17 2I3Y 1 REMARK REVDAT 3 13-JUL-11 2I3Y 1 VERSN REVDAT 2 24-FEB-09 2I3Y 1 VERSN REVDAT 1 12-SEP-06 2I3Y 0 JRNL AUTH K.L.KAVANAGH,U.OPPERMANN JRNL TITL CRYSTAL STRUCTURE OF HUMAN GLUTATHIONE PEROXIDASE 5 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 15269 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 822 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1107 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.3240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1474 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 99 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 27.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.70000 REMARK 3 B22 (A**2) : -2.70000 REMARK 3 B33 (A**2) : 4.05000 REMARK 3 B12 (A**2) : -1.35000 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): 0.149 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.117 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.868 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1525 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1029 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2072 ; 1.458 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2513 ; 0.923 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 189 ; 7.087 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 69 ;37.763 ;24.493 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 237 ;14.499 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ; 8.149 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 220 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1709 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 316 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 281 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1043 ; 0.197 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 727 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 739 ; 0.090 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 79 ; 0.162 ; 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): 8 ; 0.157 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 40 ; 0.319 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.161 ; 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): 1034 ; 2.832 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 380 ; 0.786 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1513 ; 3.558 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 656 ; 5.325 ; 7.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 558 ; 6.610 ;11.000 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 38 A 218 REMARK 3 ORIGIN FOR THE GROUP (A): 71.6569 18.2926 3.0418 REMARK 3 T TENSOR REMARK 3 T11: -0.0909 T22: -0.1904 REMARK 3 T33: -0.0219 T12: -0.0893 REMARK 3 T13: -0.1371 T23: 0.0998 REMARK 3 L TENSOR REMARK 3 L11: 1.9860 L22: 3.6884 REMARK 3 L33: 1.9938 L12: -0.3005 REMARK 3 L13: -0.1342 L23: -0.0414 REMARK 3 S TENSOR REMARK 3 S11: -0.0998 S12: -0.1668 S13: 0.2131 REMARK 3 S21: 0.2183 S22: -0.1056 S23: -0.5928 REMARK 3 S31: -0.3478 S32: 0.2760 S33: 0.2054 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 2I3Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000039106. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-06 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8983 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16114 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.60 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.70 REMARK 200 R MERGE FOR SHELL (I) : 0.41700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2F8A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2 M SODIUM FORMATE, 5% REMARK 280 ETHYLENE GLYCOL, PH 8, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 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 47.77533 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 23.88767 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 47.77533 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 23.88767 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.77533 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 23.88767 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 47.77533 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 23.88767 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER GENERATED BY: REMARK 300 1 1 1 REMARK 300 X,-Y, -Z REMARK 300 -X+1, -Y, Z REMARK 300 -X+1, 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: TETRAMERIC 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 104.54400 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 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 104.54400 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 261 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 MET A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 SER A 13 REMARK 465 SER A 14 REMARK 465 GLY A 15 REMARK 465 VAL A 16 REMARK 465 ASP A 17 REMARK 465 LEU A 18 REMARK 465 GLY A 19 REMARK 465 THR A 20 REMARK 465 GLU A 21 REMARK 465 ASN A 22 REMARK 465 LEU A 23 REMARK 465 TYR A 24 REMARK 465 PHE A 25 REMARK 465 GLN A 26 REMARK 465 SER A 27 REMARK 465 MET A 28 REMARK 465 LYS A 29 REMARK 465 MET A 30 REMARK 465 LYS A 219 REMARK 465 THR A 220 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 34 CG CD CE NZ REMARK 470 GLU A 36 CG CD OE1 OE2 REMARK 470 LYS A 37 CG CD CE NZ REMARK 470 LYS A 50 CG CD CE NZ REMARK 470 ASN A 51 CG OD1 ND2 REMARK 470 GLU A 52 CG CD OE1 OE2 REMARK 470 TYR A 53 CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 57 NZ REMARK 470 LYS A 90 NZ REMARK 470 LYS A 113 NZ REMARK 470 LYS A 144 CE NZ REMARK 470 LYS A 147 CE NZ REMARK 470 LYS A 208 NZ REMARK 470 LYS A 216 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 VAL A 122 -72.04 -120.00 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 EDO A 221 DBREF 2I3Y A 28 220 UNP O75715 GPX5_HUMAN 28 220 SEQADV 2I3Y MET A 6 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y HIS A 7 UNP O75715 EXPRESSION TAG SEQADV 2I3Y HIS A 8 UNP O75715 EXPRESSION TAG SEQADV 2I3Y HIS A 9 UNP O75715 EXPRESSION TAG SEQADV 2I3Y HIS A 10 UNP O75715 EXPRESSION TAG SEQADV 2I3Y HIS A 11 UNP O75715 EXPRESSION TAG SEQADV 2I3Y HIS A 12 UNP O75715 EXPRESSION TAG SEQADV 2I3Y SER A 13 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y SER A 14 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y GLY A 15 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y VAL A 16 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y ASP A 17 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y LEU A 18 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y GLY A 19 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y THR A 20 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y GLU A 21 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y ASN A 22 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y LEU A 23 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y TYR A 24 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y PHE A 25 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y GLN A 26 UNP O75715 CLONING ARTIFACT SEQADV 2I3Y SER A 27 UNP O75715 CLONING ARTIFACT SEQRES 1 A 215 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 215 GLY THR GLU ASN LEU TYR PHE GLN SER MET LYS MET ASP SEQRES 3 A 215 CYS HIS LYS ASP GLU LYS GLY THR ILE TYR ASP TYR GLU SEQRES 4 A 215 ALA ILE ALA LEU ASN LYS ASN GLU TYR VAL SER PHE LYS SEQRES 5 A 215 GLN TYR VAL GLY LYS HIS ILE LEU PHE VAL ASN VAL ALA SEQRES 6 A 215 THR TYR CYS GLY LEU THR ALA GLN TYR PRO GLU LEU ASN SEQRES 7 A 215 ALA LEU GLN GLU GLU LEU LYS PRO TYR GLY LEU VAL VAL SEQRES 8 A 215 LEU GLY PHE PRO CYS ASN GLN PHE GLY LYS GLN GLU PRO SEQRES 9 A 215 GLY ASP ASN LYS GLU ILE LEU PRO GLY LEU LYS TYR VAL SEQRES 10 A 215 ARG PRO GLY GLY GLY PHE VAL PRO SER PHE GLN LEU PHE SEQRES 11 A 215 GLU LYS GLY ASP VAL ASN GLY GLU LYS GLU GLN LYS VAL SEQRES 12 A 215 PHE SER PHE LEU LYS HIS SER CYS PRO HIS PRO SER GLU SEQRES 13 A 215 ILE LEU GLY THR PHE LYS SER ILE SER TRP ASP PRO VAL SEQRES 14 A 215 LYS VAL HIS ASP ILE ARG TRP ASN PHE GLU LYS PHE LEU SEQRES 15 A 215 VAL GLY PRO ASP GLY ILE PRO VAL MET ARG TRP SER HIS SEQRES 16 A 215 ARG ALA THR VAL SER SER VAL LYS THR ASP ILE LEU ALA SEQRES 17 A 215 TYR LEU LYS GLN PHE LYS THR HET EDO A 221 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO C2 H6 O2 FORMUL 3 HOH *99(H2 O) HELIX 1 1 THR A 39 ASP A 42 5 4 HELIX 2 2 LYS A 57 VAL A 60 5 4 HELIX 3 3 CYS A 73 ALA A 77 5 5 HELIX 4 4 GLN A 78 LYS A 90 1 13 HELIX 5 5 ASP A 111 LYS A 113 5 3 HELIX 6 6 GLU A 114 VAL A 122 1 9 HELIX 7 7 GLN A 146 CYS A 156 1 11 HELIX 8 8 THR A 203 LEU A 215 1 13 HELIX 9 9 LYS A 216 PHE A 218 5 3 SHEET 1 A 2 GLU A 44 ILE A 46 0 SHEET 2 A 2 TYR A 53 SER A 55 -1 O VAL A 54 N ALA A 45 SHEET 1 B 5 GLN A 133 LEU A 134 0 SHEET 2 B 5 LEU A 94 PRO A 100 1 N GLY A 98 O GLN A 133 SHEET 3 B 5 HIS A 63 VAL A 69 1 N LEU A 65 O VAL A 95 SHEET 4 B 5 LYS A 185 VAL A 188 -1 O PHE A 186 N PHE A 66 SHEET 5 B 5 PRO A 194 TRP A 198 -1 O VAL A 195 N LEU A 187 CISPEP 1 ARG A 123 PRO A 124 0 -1.85 CISPEP 2 ASP A 172 PRO A 173 0 -6.22 SITE 1 AC1 3 ARG A 180 HIS A 200 HOH A 313 CRYST1 104.544 104.544 71.663 90.00 90.00 120.00 P 62 2 2 12 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 0.009565 0.005523 0.000000 0.00000 SCALE2 0.000000 0.011045 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013954 0.00000