HEADER OXIDOREDUCTASE 07-JUN-16 5L86 TITLE ENGINEERED ASCORBATE PEROXIDISE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASCORBATE PEROXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CYTOSOLIC ASCORBATE PEROXIDASE 1; COMPND 5 EC: 1.11.1.11; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: MHS: N(DELTA)-METHYL HISTIDINE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GLYCINE MAX; SOURCE 3 ORGANISM_COMMON: SOYBEAN; SOURCE 4 ORGANISM_TAXID: 3847; SOURCE 5 GENE: APX1, GLYMA_U021900; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN ENGINEERING, PEROXIDASE, HEME, APX2, METHYL HISTIDINE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR T.HAYASHI,P.MITTL,D.HILVERT REVDAT 3 10-JAN-24 5L86 1 LINK REVDAT 2 08-MAR-17 5L86 1 JRNL REVDAT 1 01-MAR-17 5L86 0 JRNL AUTH A.P.GREEN,T.HAYASHI,P.R.MITTL,D.HILVERT JRNL TITL A CHEMICALLY PROGRAMMED PROXIMAL LIGAND ENHANCES THE JRNL TITL 2 CATALYTIC PROPERTIES OF A HEME ENZYME. JRNL REF J. AM. CHEM. SOC. V. 138 11344 2016 JRNL REFN ESSN 1520-5126 JRNL PMID 27500802 JRNL DOI 10.1021/JACS.6B07029 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 36931 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1910 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2687 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.3500 REMARK 3 BIN FREE R VALUE SET COUNT : 122 REMARK 3 BIN FREE R VALUE : 0.3710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3788 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 116 REMARK 3 SOLVENT ATOMS : 385 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.57000 REMARK 3 B22 (A**2) : -0.34000 REMARK 3 B33 (A**2) : 0.91000 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): 0.161 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.143 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.049 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4014 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5474 ; 1.818 ; 2.026 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 492 ; 6.363 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 168 ;33.749 ;24.286 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 620 ;14.037 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;21.295 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 570 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3110 ; 0.012 ; 0.022 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1974 ; 1.132 ; 2.087 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2464 ; 1.872 ; 3.124 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2040 ; 1.550 ; 2.240 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 3 249 B 3 249 648 0.110 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 3 A 249 REMARK 3 ORIGIN FOR THE GROUP (A): -6.6490 -5.3894 12.5543 REMARK 3 T TENSOR REMARK 3 T11: 0.0044 T22: 0.0211 REMARK 3 T33: 0.1247 T12: -0.0054 REMARK 3 T13: 0.0145 T23: 0.0142 REMARK 3 L TENSOR REMARK 3 L11: 0.8677 L22: 1.2468 REMARK 3 L33: 0.9165 L12: 0.1215 REMARK 3 L13: 0.0830 L23: -0.2252 REMARK 3 S TENSOR REMARK 3 S11: -0.0014 S12: -0.0242 S13: -0.0765 REMARK 3 S21: 0.0007 S22: 0.0868 S23: 0.1985 REMARK 3 S31: 0.0233 S32: -0.1153 S33: -0.0854 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 249 REMARK 3 ORIGIN FOR THE GROUP (A): 9.4716 2.8839 -16.6336 REMARK 3 T TENSOR REMARK 3 T11: 0.0155 T22: 0.0457 REMARK 3 T33: 0.0552 T12: 0.0200 REMARK 3 T13: -0.0037 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 2.1788 L22: 1.0141 REMARK 3 L33: 0.6545 L12: 0.2481 REMARK 3 L13: -0.1576 L23: 0.0367 REMARK 3 S TENSOR REMARK 3 S11: 0.0620 S12: 0.2255 S13: 0.1363 REMARK 3 S21: -0.0940 S22: -0.0473 S23: 0.0618 REMARK 3 S31: 0.0146 S32: -0.0279 S33: -0.0148 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: NULL REMARK 4 REMARK 4 5L86 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000294. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-15 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 : 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) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 300K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73768 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.35300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 3.68800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.560 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: 1V0H REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM BIS-TRIS, PH 5.5, 2.0 M REMARK 280 AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 42.23000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.90000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.97500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.90000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.23000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.97500 REMARK 290 SMTRY3 4 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 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 419 O HOH A 538 1.94 REMARK 500 O HOH A 419 O HOH A 585 2.03 REMARK 500 O HOH B 539 O HOH B 540 2.16 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 ASP A 133 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 LYS A 170 CD - CE - NZ ANGL. DEV. = -14.7 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 ARG A 172 -85.14 -105.15 REMARK 500 ARG B 172 -62.11 -102.25 REMARK 500 REMARK 500 REMARK: NULL 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 HEM A 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MHS A 163 NE2 REMARK 620 2 HEM A 301 NA 92.4 REMARK 620 3 HEM A 301 NB 95.1 88.5 REMARK 620 4 HEM A 301 NC 86.3 178.3 90.5 REMARK 620 5 HEM A 301 ND 83.2 91.6 178.2 89.3 REMARK 620 6 HOH A 517 O 177.3 89.1 87.2 92.2 94.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MHS B 163 NE2 REMARK 620 2 HEM B 301 NA 95.2 REMARK 620 3 HEM B 301 NB 94.6 88.7 REMARK 620 4 HEM B 301 NC 82.9 177.8 90.6 REMARK 620 5 HEM B 301 ND 83.2 91.3 177.7 89.4 REMARK 620 6 HOH B 443 O 170.0 90.2 94.0 91.9 88.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 304 DBREF 5L86 A 3 249 UNP Q43758 Q43758_SOYBN 3 249 DBREF 5L86 B 3 249 UNP Q43758 Q43758_SOYBN 3 249 SEQADV 5L86 ASP A 14 UNP Q43758 LYS 14 ENGINEERED MUTATION SEQADV 5L86 PHE A 41 UNP Q43758 TRP 41 ENGINEERED MUTATION SEQADV 5L86 LYS A 112 UNP Q43758 GLU 112 ENGINEERED MUTATION SEQADV 5L86 PRO A 134 UNP Q43758 ALA 134 ENGINEERED MUTATION SEQADV 5L86 ASP B 14 UNP Q43758 LYS 14 ENGINEERED MUTATION SEQADV 5L86 PHE B 41 UNP Q43758 TRP 41 ENGINEERED MUTATION SEQADV 5L86 LYS B 112 UNP Q43758 GLU 112 ENGINEERED MUTATION SEQADV 5L86 PRO B 134 UNP Q43758 ALA 134 ENGINEERED MUTATION SEQRES 1 A 247 LYS SER TYR PRO THR VAL SER ALA ASP TYR GLN ASP ALA SEQRES 2 A 247 VAL GLU LYS ALA LYS LYS LYS LEU ARG GLY PHE ILE ALA SEQRES 3 A 247 GLU LYS ARG CYS ALA PRO LEU MET LEU ARG LEU ALA PHE SEQRES 4 A 247 HIS SER ALA GLY THR PHE ASP LYS GLY THR LYS THR GLY SEQRES 5 A 247 GLY PRO PHE GLY THR ILE LYS HIS PRO ALA GLU LEU ALA SEQRES 6 A 247 HIS SER ALA ASN ASN GLY LEU ASP ILE ALA VAL ARG LEU SEQRES 7 A 247 LEU GLU PRO LEU LYS ALA GLU PHE PRO ILE LEU SER TYR SEQRES 8 A 247 ALA ASP PHE TYR GLN LEU ALA GLY VAL VAL ALA VAL GLU SEQRES 9 A 247 VAL THR GLY GLY PRO LYS VAL PRO PHE HIS PRO GLY ARG SEQRES 10 A 247 GLU ASP LYS PRO GLU PRO PRO PRO GLU GLY ARG LEU PRO SEQRES 11 A 247 ASP PRO THR LYS GLY SER ASP HIS LEU ARG ASP VAL PHE SEQRES 12 A 247 GLY LYS ALA MET GLY LEU THR ASP GLN ASP ILE VAL ALA SEQRES 13 A 247 LEU SER GLY GLY MHS THR ILE GLY ALA ALA HIS LYS GLU SEQRES 14 A 247 ARG SER GLY PHE GLU GLY PRO TRP THR SER ASN PRO LEU SEQRES 15 A 247 ILE PHE ASP ASN SER TYR PHE THR GLU LEU LEU SER GLY SEQRES 16 A 247 GLU LYS GLU GLY LEU LEU GLN LEU PRO SER ASP LYS ALA SEQRES 17 A 247 LEU LEU SER ASP PRO VAL PHE ARG PRO LEU VAL ASP LYS SEQRES 18 A 247 TYR ALA ALA ASP GLU ASP ALA PHE PHE ALA ASP TYR ALA SEQRES 19 A 247 GLU ALA HIS GLN LYS LEU SER GLU LEU GLY PHE ALA ASP SEQRES 1 B 247 LYS SER TYR PRO THR VAL SER ALA ASP TYR GLN ASP ALA SEQRES 2 B 247 VAL GLU LYS ALA LYS LYS LYS LEU ARG GLY PHE ILE ALA SEQRES 3 B 247 GLU LYS ARG CYS ALA PRO LEU MET LEU ARG LEU ALA PHE SEQRES 4 B 247 HIS SER ALA GLY THR PHE ASP LYS GLY THR LYS THR GLY SEQRES 5 B 247 GLY PRO PHE GLY THR ILE LYS HIS PRO ALA GLU LEU ALA SEQRES 6 B 247 HIS SER ALA ASN ASN GLY LEU ASP ILE ALA VAL ARG LEU SEQRES 7 B 247 LEU GLU PRO LEU LYS ALA GLU PHE PRO ILE LEU SER TYR SEQRES 8 B 247 ALA ASP PHE TYR GLN LEU ALA GLY VAL VAL ALA VAL GLU SEQRES 9 B 247 VAL THR GLY GLY PRO LYS VAL PRO PHE HIS PRO GLY ARG SEQRES 10 B 247 GLU ASP LYS PRO GLU PRO PRO PRO GLU GLY ARG LEU PRO SEQRES 11 B 247 ASP PRO THR LYS GLY SER ASP HIS LEU ARG ASP VAL PHE SEQRES 12 B 247 GLY LYS ALA MET GLY LEU THR ASP GLN ASP ILE VAL ALA SEQRES 13 B 247 LEU SER GLY GLY MHS THR ILE GLY ALA ALA HIS LYS GLU SEQRES 14 B 247 ARG SER GLY PHE GLU GLY PRO TRP THR SER ASN PRO LEU SEQRES 15 B 247 ILE PHE ASP ASN SER TYR PHE THR GLU LEU LEU SER GLY SEQRES 16 B 247 GLU LYS GLU GLY LEU LEU GLN LEU PRO SER ASP LYS ALA SEQRES 17 B 247 LEU LEU SER ASP PRO VAL PHE ARG PRO LEU VAL ASP LYS SEQRES 18 B 247 TYR ALA ALA ASP GLU ASP ALA PHE PHE ALA ASP TYR ALA SEQRES 19 B 247 GLU ALA HIS GLN LYS LEU SER GLU LEU GLY PHE ALA ASP MODRES 5L86 MHS A 163 HIS MODIFIED RESIDUE MODRES 5L86 MHS B 163 HIS MODIFIED RESIDUE HET MHS A 163 11 HET MHS B 163 11 HET HEM A 301 43 HET SO4 A 302 5 HET SO4 A 303 5 HET SO4 A 304 5 HET HEM B 301 43 HET SO4 B 302 5 HET SO4 B 303 5 HET SO4 B 304 5 HETNAM MHS N1-METHYLATED HISTIDINE HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM SO4 SULFATE ION HETSYN HEM HEME FORMUL 1 MHS 2(C7 H11 N3 O2) FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 SO4 6(O4 S 2-) FORMUL 11 HOH *385(H2 O) HELIX 1 AA1 SER A 9 ARG A 31 1 23 HELIX 2 AA2 CYS A 32 GLY A 45 1 14 HELIX 3 AA3 GLY A 58 LYS A 61 5 4 HELIX 4 AA4 HIS A 62 ALA A 67 1 6 HELIX 5 AA5 HIS A 68 ASN A 72 5 5 HELIX 6 AA6 GLY A 73 GLU A 87 1 15 HELIX 7 AA7 SER A 92 THR A 108 1 17 HELIX 8 AA8 GLY A 137 GLY A 146 1 10 HELIX 9 AA9 THR A 152 GLY A 161 1 10 HELIX 10 AB1 GLY A 162 ILE A 165 5 4 HELIX 11 AB2 ASN A 188 SER A 196 1 9 HELIX 12 AB3 LEU A 205 ASP A 214 1 10 HELIX 13 AB4 VAL A 216 ASP A 227 1 12 HELIX 14 AB5 ASP A 227 GLU A 244 1 18 HELIX 15 AB6 SER B 9 ARG B 31 1 23 HELIX 16 AB7 CYS B 32 GLY B 45 1 14 HELIX 17 AB8 GLY B 58 LYS B 61 5 4 HELIX 18 AB9 HIS B 62 ALA B 67 1 6 HELIX 19 AC1 HIS B 68 ASN B 72 5 5 HELIX 20 AC2 GLY B 73 ALA B 86 1 14 HELIX 21 AC3 SER B 92 THR B 108 1 17 HELIX 22 AC4 GLY B 137 GLY B 146 1 10 HELIX 23 AC5 THR B 152 GLY B 161 1 10 HELIX 24 AC6 GLY B 162 ILE B 165 5 4 HELIX 25 AC7 HIS B 169 GLY B 174 1 6 HELIX 26 AC8 ASN B 188 GLY B 197 1 10 HELIX 27 AC9 LEU B 205 SER B 213 1 9 HELIX 28 AD1 VAL B 216 ASP B 227 1 12 HELIX 29 AD2 ASP B 227 GLU B 244 1 18 SHEET 1 AA1 2 ALA A 167 ALA A 168 0 SHEET 2 AA1 2 GLY A 177 PRO A 178 -1 O GLY A 177 N ALA A 168 SHEET 1 AA2 2 ALA B 167 ALA B 168 0 SHEET 2 AA2 2 GLY B 177 PRO B 178 -1 O GLY B 177 N ALA B 168 LINK C GLY A 162 N MHS A 163 1555 1555 1.34 LINK C MHS A 163 N THR A 164 1555 1555 1.33 LINK C GLY B 162 N MHS B 163 1555 1555 1.34 LINK C MHS B 163 N THR B 164 1555 1555 1.34 LINK NE2 MHS A 163 FE HEM A 301 1555 1555 1.91 LINK FE HEM A 301 O HOH A 517 1555 1555 2.13 LINK NE2 MHS B 163 FE HEM B 301 1555 1555 2.00 LINK FE HEM B 301 O HOH B 443 1555 1555 2.00 SITE 1 AC1 20 PRO A 34 PHE A 41 PRO A 132 PRO A 134 SITE 2 AC1 20 PHE A 145 LEU A 159 MHS A 163 GLY A 166 SITE 3 AC1 20 ALA A 167 ALA A 168 HIS A 169 ARG A 172 SITE 4 AC1 20 SER A 173 TRP A 179 SER A 207 TYR A 235 SITE 5 AC1 20 HOH A 410 HOH A 428 HOH A 442 HOH A 517 SITE 1 AC2 6 LYS A 20 ARG A 24 LYS A 112 HOH A 404 SITE 2 AC2 6 HOH A 493 LYS B 112 SITE 1 AC3 4 GLY A 137 SER A 138 ASP A 139 HIS A 140 SITE 1 AC4 3 ARG A 31 LEU A 184 HOH A 494 SITE 1 AC5 21 PRO B 34 ARG B 38 PHE B 41 PRO B 132 SITE 2 AC5 21 PRO B 134 PHE B 145 LEU B 159 MHS B 163 SITE 3 AC5 21 GLY B 166 ALA B 167 ALA B 168 HIS B 169 SITE 4 AC5 21 ARG B 172 SER B 173 TRP B 179 SER B 207 SITE 5 AC5 21 TYR B 235 HOH B 431 HOH B 433 HOH B 443 SITE 6 AC5 21 HOH B 484 SITE 1 AC6 5 LYS A 112 LYS B 20 ARG B 24 LYS B 112 SITE 2 AC6 5 HOH B 418 SITE 1 AC7 6 LYS B 136 GLY B 137 SER B 138 ASP B 139 SITE 2 AC7 6 HIS B 140 HOH B 506 SITE 1 AC8 2 ARG B 31 HOH B 485 CRYST1 84.460 81.950 69.800 90.00 90.00 90.00 P 21 21 21 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 0.011840 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012203 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014327 0.00000