PDB Short entry for 5L71 HEADER OXIDOREDUCTASE 01-JUN-16 5L71 TITLE CRYSTAL STRUCTURE OF MOUSE PHOSPHOLIPID HYDROPEROXIDE GLUTATHIONE TITLE 2 PEROXIDASE 4 (GPX4) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOLIPID HYDROPEROXIDE GLUTATHIONE PEROXIDASE, COMPND 3 MITOCHONDRIAL; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: PHGPX,GLUTATHIONE PEROXIDASE 4,GSHPX-4; COMPND 6 EC: 1.11.1.12; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: GPX4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PHOSPHOLIPID HYDROPEROXIDE GLUTATHIONE PEROXIDASE 4 (GPX4), KEYWDS 2 SELENOCYSTEINE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR R.JANOWSKI,S.SCANU,T.MADL,D.NIESSING REVDAT 2 10-JAN-24 5L71 1 REMARK REVDAT 1 19-OCT-16 5L71 0 JRNL AUTH R.JANOWSKI,S.SCANU,D.NIESSING,T.MADL JRNL TITL CRYSTAL AND SOLUTION STRUCTURAL STUDIES OF MOUSE JRNL TITL 2 PHOSPHOLIPID HYDROPEROXIDE GLUTATHIONE PEROXIDASE 4. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 72 743 2016 JRNL REFN ESSN 2053-230X JRNL PMID 27710939 JRNL DOI 10.1107/S2053230X16013686 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 22298 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1251 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) : 1600 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 94 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1325 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 185 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.91000 REMARK 3 B22 (A**2) : 0.91000 REMARK 3 B33 (A**2) : -2.95000 REMARK 3 B12 (A**2) : 0.46000 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): 0.086 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.093 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.077 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.985 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1395 ; 0.030 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1308 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1884 ; 2.463 ; 1.944 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3020 ; 1.250 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 174 ; 6.127 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 70 ;35.200 ;24.429 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 244 ;12.445 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;17.544 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 192 ; 0.194 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1600 ; 0.016 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 336 ; 0.002 ; 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): 669 ; 2.215 ; 2.016 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 668 ; 2.215 ; 2.016 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 837 ; 3.277 ; 3.006 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 838 ; 3.275 ; 3.007 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 726 ; 3.388 ; 2.386 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 726 ; 3.378 ; 2.385 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1043 ; 5.192 ; 3.406 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1731 ; 8.400 ;18.664 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1732 ; 8.398 ;18.688 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 32 A 197 REMARK 3 ORIGIN FOR THE GROUP (A): -27.1232 21.0802 -3.4249 REMARK 3 T TENSOR REMARK 3 T11: 0.2378 T22: 0.0790 REMARK 3 T33: 0.0690 T12: -0.0369 REMARK 3 T13: 0.0593 T23: 0.0025 REMARK 3 L TENSOR REMARK 3 L11: 0.6303 L22: 0.1137 REMARK 3 L33: 1.9530 L12: 0.2069 REMARK 3 L13: 0.1531 L23: -0.0831 REMARK 3 S TENSOR REMARK 3 S11: 0.0678 S12: -0.1281 S13: -0.1356 REMARK 3 S21: -0.0436 S22: -0.0009 S23: -0.0755 REMARK 3 S31: -0.2350 S32: -0.2753 S33: -0.0669 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 5L71 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99999 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23549 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.090 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: 2OBI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES, 5 MM TCEP, PH 6.5, SMALL REMARK 280 TUBES, TEMPERATURE 292K 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 37.99333 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 75.98667 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 75.98667 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 37.99333 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 8.0 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 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 0 REMARK 465 GLY A 1 REMARK 465 CYS A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 ARG A 5 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 353 O HOH A 422 1.76 REMARK 500 O HOH A 372 O HOH A 422 1.90 REMARK 500 O HOH A 367 O HOH A 418 1.91 REMARK 500 O HOH A 362 O HOH A 418 1.98 REMARK 500 O HOH A 333 O HOH A 417 1.99 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 436 O HOH A 452 3454 1.72 REMARK 500 O HOH A 331 O HOH A 432 4455 1.97 REMARK 500 O HOH A 403 O HOH A 440 4455 2.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 TYR A 53 CE1 TYR A 53 CZ 0.085 REMARK 500 GLU A 65 CD GLU A 65 OE2 0.067 REMARK 500 GLU A 91 CG GLU A 91 CD 0.096 REMARK 500 ARG A 127 CZ ARG A 127 NH2 0.110 REMARK 500 GLU A 163 CD GLU A 163 OE1 -0.077 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 VAL A 51 CG1 - CB - CG2 ANGL. DEV. = -11.3 DEGREES REMARK 500 VAL A 57 CG1 - CB - CG2 ANGL. DEV. = -10.2 DEGREES REMARK 500 ARG A 62 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A 101 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP A 144 CB - CG - OD2 ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 152 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 203 DBREF 5L71 A 2 170 UNP O70325 GPX41_MOUSE 29 197 SEQADV 5L71 MET A 0 UNP O70325 INITIATING METHIONINE SEQADV 5L71 GLY A 1 UNP O70325 EXPRESSION TAG SEQADV 5L71 CYS A 46 UNP O70325 SEC 73 ENGINEERED MUTATION SEQRES 1 A 171 MET GLY CYS ALA SER ARG ASP ASP TRP ARG CYS ALA ARG SEQRES 2 A 171 SER MET HIS GLU PHE SER ALA LYS ASP ILE ASP GLY HIS SEQRES 3 A 171 MET VAL CYS LEU ASP LYS TYR ARG GLY PHE VAL CYS ILE SEQRES 4 A 171 VAL THR ASN VAL ALA SER GLN CYS GLY LYS THR ASP VAL SEQRES 5 A 171 ASN TYR THR GLN LEU VAL ASP LEU HIS ALA ARG TYR ALA SEQRES 6 A 171 GLU CYS GLY LEU ARG ILE LEU ALA PHE PRO CYS ASN GLN SEQRES 7 A 171 PHE GLY ARG GLN GLU PRO GLY SER ASN GLN GLU ILE LYS SEQRES 8 A 171 GLU PHE ALA ALA GLY TYR ASN VAL LYS PHE ASP MET TYR SEQRES 9 A 171 SER LYS ILE CYS VAL ASN GLY ASP ASP ALA HIS PRO LEU SEQRES 10 A 171 TRP LYS TRP MET LYS VAL GLN PRO LYS GLY ARG GLY MET SEQRES 11 A 171 LEU GLY ASN ALA ILE LYS TRP ASN PHE THR LYS PHE LEU SEQRES 12 A 171 ILE ASP LYS ASN GLY CYS VAL VAL LYS ARG TYR GLY PRO SEQRES 13 A 171 MET GLU GLU PRO GLN VAL ILE GLU LYS ASP LEU PRO CYS SEQRES 14 A 171 TYR LEU HET EDO A 201 4 HET EDO A 202 4 HET EDO A 203 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO 3(C2 H6 O2) FORMUL 5 HOH *185(H2 O) HELIX 1 AA1 ASP A 7 ALA A 11 5 5 HELIX 2 AA2 SER A 13 GLU A 16 5 4 HELIX 3 AA3 ASP A 30 ARG A 33 5 4 HELIX 4 AA4 LYS A 48 ALA A 64 1 17 HELIX 5 AA5 SER A 85 TYR A 96 1 12 HELIX 6 AA6 HIS A 114 VAL A 122 1 9 HELIX 7 AA7 GLN A 123 ARG A 127 5 5 HELIX 8 AA8 PRO A 159 LYS A 164 1 6 HELIX 9 AA9 ASP A 165 TYR A 169 5 5 SHEET 1 AA1 2 SER A 18 LYS A 20 0 SHEET 2 AA1 2 MET A 26 CYS A 28 -1 O VAL A 27 N ALA A 19 SHEET 1 AA2 5 ASP A 101 MET A 102 0 SHEET 2 AA2 5 LEU A 68 PRO A 74 1 N ALA A 72 O ASP A 101 SHEET 3 AA2 5 VAL A 36 VAL A 42 1 N THR A 40 O PHE A 73 SHEET 4 AA2 5 LYS A 140 ILE A 143 -1 O ILE A 143 N CYS A 37 SHEET 5 AA2 5 VAL A 149 TYR A 153 -1 O TYR A 153 N LYS A 140 SITE 1 AC1 7 ASN A 109 GLY A 110 LYS A 121 ALA A 133 SITE 2 AC1 7 HOH A 360 HOH A 382 HOH A 429 SITE 1 AC2 4 LYS A 31 PHE A 35 ARG A 69 HOH A 307 SITE 1 AC3 8 CYS A 10 SER A 44 GLN A 45 GLU A 88 SITE 2 AC3 8 PHE A 92 HOH A 329 HOH A 351 HOH A 449 CRYST1 61.260 61.260 113.980 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 0.016324 0.009425 0.000000 0.00000 SCALE2 0.000000 0.018849 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008773 0.00000