HEADER OXIDOREDUCTASE 02-APR-15 4Z5P TITLE CRYSTAL STRUCTURE OF THE LNMA CYTOCHROME P450 HYDROXYLASE FROM THE TITLE 2 LEINAMYCIN BIOSYNTHETIC PATHWAY OF STREPTOMYCES ATROOLIVACEUS S-140 TITLE 3 AT 1.9 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 HYDROXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES ATROOLIVACEUS; SOURCE 3 ORGANISM_TAXID: 66869; SOURCE 4 STRAIN: S-140; SOURCE 5 GENE: LNMA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PRSF-TEV/LIC KEYWDS HYDROXYLASE, LEINAMYCIN, HEME, MONOOXYGENASE, OXIDOREDUCTASE, KEYWDS 2 STRUCTURAL GENOMICS, PSI-BIOLOGY, MIDWEST CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, MCSG, ENZYME DISCOVERY FOR NATURAL PRODUCT BIOSYNTHESIS, KEYWDS 4 NATPRO EXPDTA X-RAY DIFFRACTION AUTHOR M.MA,J.LOHMAN,J.RUDOLF,M.D.MILLER,H.CAO,J.OSIPIUK,G.BABNIGG, AUTHOR 2 G.N.PHILLIPS JR.,A.JOACHIMIAK,B.SHEN,MIDWEST CENTER FOR STRUCTURAL AUTHOR 3 GENOMICS (MCSG),ENZYME DISCOVERY FOR NATURAL PRODUCT BIOSYNTHESIS AUTHOR 4 (NATPRO) REVDAT 4 27-SEP-23 4Z5P 1 LINK REVDAT 3 04-DEC-19 4Z5P 1 REMARK REVDAT 2 20-SEP-17 4Z5P 1 SOURCE REMARK REVDAT 1 29-JUL-15 4Z5P 0 JRNL AUTH M.MA,J.LOHMAN,J.RUDOLF,M.D.MILLER,H.CAO,J.OSIPIUK,G.BABNIGG, JRNL AUTH 2 G.N.PHILLIPS JR.,A.JOACHIMIAK,B.SHEN JRNL TITL CRYSTAL STRUCTURE OF THE LNMA CYTOCHROME P450 HYDROXYLASE JRNL TITL 2 FROM THE LEINAMYCIN BIOSYNTHETIC PATHWAY OF STREPTOMYCES JRNL TITL 3 ATROOLIVACEUS S-140 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 57510 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2884 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) : 2968 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 69.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE SET COUNT : 143 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6005 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 379 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.80000 REMARK 3 B22 (A**2) : -0.23000 REMARK 3 B33 (A**2) : -0.72000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.60000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.181 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.132 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.452 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 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): 6359 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6061 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8689 ; 1.490 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13860 ; 1.083 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 804 ; 5.525 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 297 ;26.174 ;22.391 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1001 ;13.099 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 75 ;15.402 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 958 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7295 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1504 ; 0.005 ; 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): 3150 ; 2.195 ; 3.805 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3149 ; 2.194 ; 3.805 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3946 ; 3.298 ; 7.101 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NUMBER OF DIFFERENT NCS GROUPS : NULL 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 7 A 401 REMARK 3 ORIGIN FOR THE GROUP (A): -14.3384 17.3141 44.9040 REMARK 3 T TENSOR REMARK 3 T11: 0.2910 T22: 0.0587 REMARK 3 T33: 0.0120 T12: -0.0046 REMARK 3 T13: -0.0143 T23: -0.0169 REMARK 3 L TENSOR REMARK 3 L11: 0.6593 L22: 0.3941 REMARK 3 L33: 0.5746 L12: -0.0738 REMARK 3 L13: -0.3242 L23: 0.0342 REMARK 3 S TENSOR REMARK 3 S11: -0.0664 S12: 0.0578 S13: -0.0525 REMARK 3 S21: -0.0472 S22: 0.0083 S23: 0.0344 REMARK 3 S31: 0.0342 S32: -0.0571 S33: 0.0581 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 7 B 401 REMARK 3 ORIGIN FOR THE GROUP (A): 7.1269 7.4677 0.8280 REMARK 3 T TENSOR REMARK 3 T11: 0.2235 T22: 0.0536 REMARK 3 T33: 0.0057 T12: -0.0171 REMARK 3 T13: -0.0193 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 1.2432 L22: 0.3785 REMARK 3 L33: 1.1412 L12: -0.2466 REMARK 3 L13: 0.8669 L23: -0.0381 REMARK 3 S TENSOR REMARK 3 S11: -0.0205 S12: 0.1955 S13: 0.0379 REMARK 3 S21: -0.0040 S22: -0.0397 S23: -0.0067 REMARK 3 S31: -0.0886 S32: 0.1598 S33: 0.0602 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL REMARK 3 B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U REMARK 3 FACTORS. 3. WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. REMARK 3 4. THE HEME IRON IS MODELED AS FE2+ AND IS LIKELY REDUCED BY X- REMARK 3 RAY EXPOSURE. 5. A PEG FRAGMENT FROM THE CRYSTLLIZATOION REMARK 3 CONDITIONS HAVE BEEN MODELED. REMARK 4 REMARK 4 4Z5P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000208601. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.77 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTALS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57513 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 46.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.1000 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 (%) : 70.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.83300 REMARK 200 R SYM FOR SHELL (I) : 0.83300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.600 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: 4Z5Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM ACETATE, 0.1 M BIS REMARK 280 -TRIS, PH 6.77, 25% PEG3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 37.72700 REMARK 290 SMTRY3 2 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 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 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 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 SER A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ALA A 3 REMARK 465 THR A 4 REMARK 465 ARG A 5 REMARK 465 ARG A 6 REMARK 465 LEU A 78 REMARK 465 ALA A 79 REMARK 465 ARG A 80 REMARK 465 ARG A 81 REMARK 465 SER A 82 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ALA B 3 REMARK 465 THR B 4 REMARK 465 ARG B 5 REMARK 465 ARG B 6 REMARK 465 LEU B 78 REMARK 465 ALA B 79 REMARK 465 ARG B 80 REMARK 465 ARG B 81 REMARK 465 SER B 82 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 GLU A 15 CG CD OE1 OE2 REMARK 470 GLN A 67 CG CD OE1 NE2 REMARK 470 GLU A 70 CG CD OE1 OE2 REMARK 470 ASP A 71 CG OD1 OD2 REMARK 470 ASP A 83 CG OD1 OD2 REMARK 470 GLU A 118 CD OE1 OE2 REMARK 470 LYS A 178 CG CD CE NZ REMARK 470 GLU B 15 CG CD OE1 OE2 REMARK 470 ARG B 38 CD NE CZ NH1 NH2 REMARK 470 GLU B 70 CG CD OE1 OE2 REMARK 470 ASP B 71 CG OD1 OD2 REMARK 470 ASP B 83 CG OD1 OD2 REMARK 470 GLU B 118 CD OE1 OE2 REMARK 470 LYS B 178 CG CD CE NZ REMARK 470 ARG B 304 NE CZ NH1 NH2 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 29 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 29 NE - CZ - NH1 ANGL. DEV. = 3.2 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 GLN A 67 42.66 -89.46 REMARK 500 LEU A 140 -56.21 -127.06 REMARK 500 ASP A 217 -124.44 57.20 REMARK 500 VAL A 286 -62.71 -107.78 REMARK 500 CYS A 348 117.80 -39.71 REMARK 500 LEU B 34 79.18 -109.87 REMARK 500 GLN B 67 43.24 -94.36 REMARK 500 LEU B 140 -57.22 -125.56 REMARK 500 ASP B 217 -124.69 56.50 REMARK 500 VAL B 286 -62.10 -107.07 REMARK 500 CYS B 348 118.72 -39.99 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 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 348 SG REMARK 620 2 HEM A 401 NA 97.6 REMARK 620 3 HEM A 401 NB 88.2 88.4 REMARK 620 4 HEM A 401 NC 84.8 177.5 90.8 REMARK 620 5 HEM A 401 ND 93.5 91.5 178.3 89.2 REMARK 620 6 HOH A 403 O 164.9 85.9 77.1 91.6 101.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 348 SG REMARK 620 2 HEM B 401 NA 97.1 REMARK 620 3 HEM B 401 NB 90.1 91.1 REMARK 620 4 HEM B 401 NC 85.4 177.4 88.4 REMARK 620 5 HEM B 401 ND 92.1 89.0 177.8 91.5 REMARK 620 6 HOH B 403 O 167.3 83.6 77.2 93.9 100.6 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NATPRO-GO.120949 RELATED DB: TARGETTRACK REMARK 900 RELATED ID: MCSG-APC109424 RELATED DB: TARGETTRACK REMARK 900 RELATED ID: 4Z5Q RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH AN N-TERMINAL PURIFICATION TAG REMARK 999 MGSSHHHHHHSQDPGDENLYFQS. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A SERINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 4Z5P A 1 399 UNP Q8GGQ1 Q8GGQ1_STRAZ 1 399 DBREF 4Z5P B 1 399 UNP Q8GGQ1 Q8GGQ1_STRAZ 1 399 SEQADV 4Z5P SER A 0 UNP Q8GGQ1 EXPRESSION TAG SEQADV 4Z5P SER B 0 UNP Q8GGQ1 EXPRESSION TAG SEQRES 1 A 400 SER MET SER ALA THR ARG ARG VAL HIS ILE TYR PRO PHE SEQRES 2 A 400 GLU GLY GLU VAL ASP GLY LEU GLU ILE HIS PRO LYS PHE SEQRES 3 A 400 ALA GLU LEU ARG GLU THR ASP PRO LEU ALA ARG VAL ARG SEQRES 4 A 400 LEU PRO TYR GLY GLY GLU GLY TRP MET VAL THR ARG TYR SEQRES 5 A 400 ASP ASP VAL ARG ALA ALA ASN SER ASP PRO ARG PHE SER SEQRES 6 A 400 ARG ALA GLN ILE GLY GLU ASP THR PRO ARG THR THR PRO SEQRES 7 A 400 LEU ALA ARG ARG SER ASP THR ILE LEU SER LEU ASP PRO SEQRES 8 A 400 PRO GLU HIS THR ARG LEU ARG ARG LEU LEU SER LYS ALA SEQRES 9 A 400 PHE THR ALA ARG ARG MET GLY ALA MET GLN SER TRP LEU SEQRES 10 A 400 GLU GLU LEU PHE ALA GLY LEU LEU ASP GLY VAL GLU ARG SEQRES 11 A 400 THR GLY HIS PRO ALA ASP ILE VAL ARG ASP LEU ALA GLN SEQRES 12 A 400 PRO PHE THR ILE ALA VAL ILE CYS ARG LEU LEU GLY VAL SEQRES 13 A 400 PRO TYR GLU ASP ARG GLY ARG PHE GLN HIS TRP SER GLU SEQRES 14 A 400 VAL ILE MET SER THR THR ALA TYR SER LYS GLU GLU ALA SEQRES 15 A 400 VAL SER ALA ASP ALA SER ILE ARG ALA TYR LEU ALA ASP SEQRES 16 A 400 LEU VAL SER ALA ARG ARG ALA ALA PRO HIS ASP ASP LEU SEQRES 17 A 400 LEU GLY VAL LEU VAL SER ALA ARG ASP ASP ASP ASP ARG SEQRES 18 A 400 LEU THR GLU ASP GLU LEU ILE THR PHE GLY VAL THR LEU SEQRES 19 A 400 LEU VAL ALA GLY HIS GLU THR SER ALA HIS GLN LEU GLY SEQRES 20 A 400 ASN MET VAL TYR ALA LEU LEU THR HIS GLU ASP GLN LEU SEQRES 21 A 400 SER LEU LEU ARG GLU GLN PRO GLU LEU LEU PRO ARG ALA SEQRES 22 A 400 VAL GLU GLU LEU LEU ARG PHE VAL PRO LEU GLY ASN GLY SEQRES 23 A 400 VAL GLY ASN ALA ARG ILE ALA LEU GLU ASP VAL GLU LEU SEQRES 24 A 400 SER GLY GLY THR VAL ARG ALA GLY GLU GLY VAL VAL ALA SEQRES 25 A 400 ALA ALA VAL ASN ALA ASN ARG ASP PRO ARG ALA PHE ASP SEQRES 26 A 400 ASP PRO ASP ARG LEU ASP ILE THR ARG GLU LYS ASN PRO SEQRES 27 A 400 HIS LEU ALA PHE GLY HIS GLY ALA HIS TYR CYS LEU GLY SEQRES 28 A 400 ALA GLN LEU ALA ARG MET GLU LEU ARG VAL ALA ILE GLY SEQRES 29 A 400 GLY LEU LEU GLU ARG PHE PRO GLY LEU ARG LEU ALA VAL SEQRES 30 A 400 PRO ALA ASP GLN VAL GLU TRP LYS THR GLY GLY LEU PHE SEQRES 31 A 400 ARG GLY PRO GLN ARG LEU PRO ILE ALA TRP SEQRES 1 B 400 SER MET SER ALA THR ARG ARG VAL HIS ILE TYR PRO PHE SEQRES 2 B 400 GLU GLY GLU VAL ASP GLY LEU GLU ILE HIS PRO LYS PHE SEQRES 3 B 400 ALA GLU LEU ARG GLU THR ASP PRO LEU ALA ARG VAL ARG SEQRES 4 B 400 LEU PRO TYR GLY GLY GLU GLY TRP MET VAL THR ARG TYR SEQRES 5 B 400 ASP ASP VAL ARG ALA ALA ASN SER ASP PRO ARG PHE SER SEQRES 6 B 400 ARG ALA GLN ILE GLY GLU ASP THR PRO ARG THR THR PRO SEQRES 7 B 400 LEU ALA ARG ARG SER ASP THR ILE LEU SER LEU ASP PRO SEQRES 8 B 400 PRO GLU HIS THR ARG LEU ARG ARG LEU LEU SER LYS ALA SEQRES 9 B 400 PHE THR ALA ARG ARG MET GLY ALA MET GLN SER TRP LEU SEQRES 10 B 400 GLU GLU LEU PHE ALA GLY LEU LEU ASP GLY VAL GLU ARG SEQRES 11 B 400 THR GLY HIS PRO ALA ASP ILE VAL ARG ASP LEU ALA GLN SEQRES 12 B 400 PRO PHE THR ILE ALA VAL ILE CYS ARG LEU LEU GLY VAL SEQRES 13 B 400 PRO TYR GLU ASP ARG GLY ARG PHE GLN HIS TRP SER GLU SEQRES 14 B 400 VAL ILE MET SER THR THR ALA TYR SER LYS GLU GLU ALA SEQRES 15 B 400 VAL SER ALA ASP ALA SER ILE ARG ALA TYR LEU ALA ASP SEQRES 16 B 400 LEU VAL SER ALA ARG ARG ALA ALA PRO HIS ASP ASP LEU SEQRES 17 B 400 LEU GLY VAL LEU VAL SER ALA ARG ASP ASP ASP ASP ARG SEQRES 18 B 400 LEU THR GLU ASP GLU LEU ILE THR PHE GLY VAL THR LEU SEQRES 19 B 400 LEU VAL ALA GLY HIS GLU THR SER ALA HIS GLN LEU GLY SEQRES 20 B 400 ASN MET VAL TYR ALA LEU LEU THR HIS GLU ASP GLN LEU SEQRES 21 B 400 SER LEU LEU ARG GLU GLN PRO GLU LEU LEU PRO ARG ALA SEQRES 22 B 400 VAL GLU GLU LEU LEU ARG PHE VAL PRO LEU GLY ASN GLY SEQRES 23 B 400 VAL GLY ASN ALA ARG ILE ALA LEU GLU ASP VAL GLU LEU SEQRES 24 B 400 SER GLY GLY THR VAL ARG ALA GLY GLU GLY VAL VAL ALA SEQRES 25 B 400 ALA ALA VAL ASN ALA ASN ARG ASP PRO ARG ALA PHE ASP SEQRES 26 B 400 ASP PRO ASP ARG LEU ASP ILE THR ARG GLU LYS ASN PRO SEQRES 27 B 400 HIS LEU ALA PHE GLY HIS GLY ALA HIS TYR CYS LEU GLY SEQRES 28 B 400 ALA GLN LEU ALA ARG MET GLU LEU ARG VAL ALA ILE GLY SEQRES 29 B 400 GLY LEU LEU GLU ARG PHE PRO GLY LEU ARG LEU ALA VAL SEQRES 30 B 400 PRO ALA ASP GLN VAL GLU TRP LYS THR GLY GLY LEU PHE SEQRES 31 B 400 ARG GLY PRO GLN ARG LEU PRO ILE ALA TRP HET HEM A 401 43 HET HEM B 401 43 HET PGE B 402 10 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM PGE TRIETHYLENE GLYCOL HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 5 PGE C6 H14 O4 FORMUL 6 HOH *379(H2 O) HELIX 1 AA1 HIS A 22 ASP A 32 1 11 HELIX 2 AA2 ARG A 50 ASP A 60 1 11 HELIX 3 AA3 THR A 84 LEU A 88 5 5 HELIX 4 AA4 PRO A 91 SER A 101 1 11 HELIX 5 AA5 THR A 105 ALA A 111 1 7 HELIX 6 AA6 MET A 112 GLY A 131 1 20 HELIX 7 AA7 ILE A 136 LEU A 140 1 5 HELIX 8 AA8 LEU A 140 GLY A 154 1 15 HELIX 9 AA9 PRO A 156 GLU A 158 5 3 HELIX 10 AB1 ASP A 159 SER A 172 1 14 HELIX 11 AB2 SER A 177 ALA A 202 1 26 HELIX 12 AB3 ASP A 206 ALA A 214 1 9 HELIX 13 AB4 THR A 222 HIS A 238 1 17 HELIX 14 AB5 HIS A 238 THR A 254 1 17 HELIX 15 AB6 HIS A 255 GLN A 265 1 11 HELIX 16 AB7 LEU A 268 VAL A 280 1 13 HELIX 17 AB8 ALA A 312 ASN A 317 1 6 HELIX 18 AB9 GLY A 350 PHE A 369 1 20 HELIX 19 AC1 PRO A 377 VAL A 381 5 5 HELIX 20 AC2 HIS B 22 ASP B 32 1 11 HELIX 21 AC3 ARG B 50 ASP B 60 1 11 HELIX 22 AC4 THR B 84 LEU B 88 5 5 HELIX 23 AC5 PRO B 91 SER B 101 1 11 HELIX 24 AC6 THR B 105 ALA B 111 1 7 HELIX 25 AC7 MET B 112 GLY B 131 1 20 HELIX 26 AC8 ILE B 136 LEU B 140 1 5 HELIX 27 AC9 LEU B 140 GLY B 154 1 15 HELIX 28 AD1 PRO B 156 GLU B 158 5 3 HELIX 29 AD2 ASP B 159 SER B 172 1 14 HELIX 30 AD3 SER B 177 ALA B 202 1 26 HELIX 31 AD4 ASP B 206 ALA B 214 1 9 HELIX 32 AD5 THR B 222 HIS B 238 1 17 HELIX 33 AD6 HIS B 238 THR B 254 1 17 HELIX 34 AD7 HIS B 255 GLN B 265 1 11 HELIX 35 AD8 LEU B 268 VAL B 280 1 13 HELIX 36 AD9 ALA B 312 ASN B 317 1 6 HELIX 37 AE1 GLY B 350 PHE B 369 1 20 HELIX 38 AE2 PRO B 377 VAL B 381 5 5 SHEET 1 AA1 6 HIS A 8 ILE A 9 0 SHEET 2 AA1 6 ALA A 35 ARG A 38 1 O ARG A 36 N HIS A 8 SHEET 3 AA1 6 GLU A 44 MET A 47 -1 O GLY A 45 N VAL A 37 SHEET 4 AA1 6 GLY A 308 VAL A 310 1 O VAL A 310 N TRP A 46 SHEET 5 AA1 6 ARG A 290 ALA A 292 -1 N ARG A 290 O VAL A 309 SHEET 6 AA1 6 PHE A 63 SER A 64 -1 N SER A 64 O ILE A 291 SHEET 1 AA2 3 ALA A 134 ASP A 135 0 SHEET 2 AA2 3 PRO A 396 ALA A 398 -1 O ILE A 397 N ALA A 134 SHEET 3 AA2 3 ARG A 373 LEU A 374 -1 N ARG A 373 O ALA A 398 SHEET 1 AA3 2 VAL A 296 LEU A 298 0 SHEET 2 AA3 2 GLY A 301 VAL A 303 -1 O GLY A 301 N LEU A 298 SHEET 1 AA4 6 HIS B 8 ILE B 9 0 SHEET 2 AA4 6 ALA B 35 ARG B 38 1 O ARG B 36 N HIS B 8 SHEET 3 AA4 6 GLU B 44 MET B 47 -1 O GLY B 45 N VAL B 37 SHEET 4 AA4 6 GLY B 308 VAL B 310 1 O VAL B 310 N TRP B 46 SHEET 5 AA4 6 ARG B 290 ALA B 292 -1 N ARG B 290 O VAL B 309 SHEET 6 AA4 6 PHE B 63 SER B 64 -1 N SER B 64 O ILE B 291 SHEET 1 AA5 3 ALA B 134 ASP B 135 0 SHEET 2 AA5 3 PRO B 396 ALA B 398 -1 O ILE B 397 N ALA B 134 SHEET 3 AA5 3 ARG B 373 LEU B 374 -1 N ARG B 373 O ALA B 398 SHEET 1 AA6 2 VAL B 296 LEU B 298 0 SHEET 2 AA6 2 GLY B 301 VAL B 303 -1 O GLY B 301 N LEU B 298 LINK SG CYS A 348 FE HEM A 401 1555 1555 2.45 LINK FE HEM A 401 O HOH A 403 1555 1555 2.29 LINK SG CYS B 348 FE HEM B 401 1555 1555 2.41 LINK FE HEM B 401 O HOH B 403 1555 1555 2.48 CISPEP 1 TYR A 10 PRO A 11 0 9.40 CISPEP 2 PRO A 90 PRO A 91 0 3.48 CISPEP 3 HIS A 132 PRO A 133 0 1.76 CISPEP 4 TYR B 10 PRO B 11 0 9.38 CISPEP 5 PRO B 90 PRO B 91 0 6.27 CISPEP 6 HIS B 132 PRO B 133 0 3.02 SITE 1 AC1 19 ARG A 65 ILE A 85 HIS A 93 ARG A 97 SITE 2 AC1 19 LEU A 152 LEU A 233 ALA A 236 GLY A 237 SITE 3 AC1 19 THR A 240 SER A 241 GLN A 244 ALA A 340 SITE 4 AC1 19 PHE A 341 HIS A 346 CYS A 348 LEU A 349 SITE 5 AC1 19 GLY A 350 ALA A 354 HOH A 403 SITE 1 AC2 20 ARG B 65 ILE B 85 HIS B 93 ARG B 97 SITE 2 AC2 20 LEU B 152 PHE B 229 LEU B 233 ALA B 236 SITE 3 AC2 20 GLY B 237 THR B 240 SER B 241 GLN B 244 SITE 4 AC2 20 ALA B 340 PHE B 341 HIS B 346 CYS B 348 SITE 5 AC2 20 LEU B 349 GLY B 350 ALA B 354 HOH B 403 SITE 1 AC3 4 PRO B 320 ARG B 321 ASP B 324 HOH B 631 CRYST1 55.759 75.454 93.858 90.00 98.91 90.00 P 1 21 1 4 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 0.017934 0.000000 0.002811 0.00000 SCALE2 0.000000 0.013253 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010784 0.00000