HEADER XIDOREDUCTASE 23-DEC-04 2BGM TITLE X-RAY STRUCTURE OF TERNARY-SECOISOLARICIRESINOL DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHIZOME SECOISOLARICIRESINOL DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PODOPHYLLUM PELTATUM; SOURCE 3 ORGANISM_COMMON: MAYAPPLE; SOURCE 4 ORGANISM_TAXID: 35933; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: TOP10; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PTRCHIS2-TOPO TA VECTOR KEYWDS XIDOREDUCTASE, OXIDOREDUCTASE, DEHYDROGENASE EXPDTA X-RAY DIFFRACTION AUTHOR B.YOUN,S.G.MOINUDDIN,L.B.DAVIN,N.G.LEWIS,C.KANG REVDAT 4 13-DEC-23 2BGM 1 REMARK REVDAT 3 24-FEB-09 2BGM 1 VERSN REVDAT 2 31-MAR-05 2BGM 1 JRNL REVDAT 1 13-JAN-05 2BGM 0 JRNL AUTH B.YOUN,S.G.MOINUDDIN,L.B.DAVIN,N.G.LEWIS,C.KANG JRNL TITL CRYSTAL STRUCTURES OF APO-FORM AND BINARY/TERNARY COMPLEXES JRNL TITL 2 OF PODOPHYLLUM SECOISOLARICIRESINOL DEHYDROGENASE, AN ENZYME JRNL TITL 3 INVOLVED IN FORMATION OF HEALTH-PROTECTING AND PLANT DEFENSE JRNL TITL 4 LIGNANS JRNL REF J.BIOL.CHEM. V. 280 12917 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15653677 JRNL DOI 10.1074/JBC.M413266200 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 79.1 REMARK 3 NUMBER OF REFLECTIONS : 11716 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 SET) : 0.200 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1985 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 127 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.020 REMARK 3 BOND ANGLES (DEGREES) : 4.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.60 REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2BGM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1290022150. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU STURN 92 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12187 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 79.1 REMARK 200 DATA REDUNDANCY : 5.810 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6000 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) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 13.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.30 REMARK 200 R MERGE FOR SHELL (I) : 0.23000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1BGK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: F 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z+1/2 REMARK 290 7555 -X,Y+1/2,-Z+1/2 REMARK 290 8555 X,-Y+1/2,-Z+1/2 REMARK 290 9555 X+1/2,Y,Z+1/2 REMARK 290 10555 -X+1/2,-Y,Z+1/2 REMARK 290 11555 -X+1/2,Y,-Z+1/2 REMARK 290 12555 X+1/2,-Y,-Z+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z REMARK 290 14555 -X+1/2,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y+1/2,-Z REMARK 290 16555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.37000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.62500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.37000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.62500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 59.37000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.62500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 59.37000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 65.62500 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 65.62500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 65.62500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 65.62500 REMARK 290 SMTRY1 12 1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 65.62500 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 59.37000 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 59.37000 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 59.37000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 28.67500 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 59.37000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PQS 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 59.37000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 65.62500 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 28.67500 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 65.62500 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 28.67500 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 59.37000 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 A2029 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2115 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 1 REMARK 465 GLY A 2 REMARK 465 SER A 3 REMARK 465 THR A 4 REMARK 465 SER A 5 REMARK 465 THR A 6 REMARK 465 PRO A 7 REMARK 465 ASP A 8 REMARK 465 SER A 9 REMARK 465 SER A 10 REMARK 465 ALA A 278 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 HIS A 70 NE2 HIS A 70 CD2 -0.072 REMARK 500 HIS A 90 NE2 HIS A 90 CD2 -0.069 REMARK 500 HIS A 135 NE2 HIS A 135 CD2 -0.072 REMARK 500 VAL A 163 CA VAL A 163 CB 0.134 REMARK 500 HIS A 172 NE2 HIS A 172 CD2 -0.077 REMARK 500 HIS A 221 NE2 HIS A 221 CD2 -0.075 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 13 CB - CA - C ANGL. DEV. = -12.1 DEGREES REMARK 500 ASP A 16 CA - CB - CG ANGL. DEV. = 16.9 DEGREES REMARK 500 ARG A 80 CG - CD - NE ANGL. DEV. = 13.3 DEGREES REMARK 500 ARG A 80 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 80 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 TYR A 108 CB - CG - CD2 ANGL. DEV. = -4.7 DEGREES REMARK 500 TYR A 127 CB - CG - CD2 ANGL. DEV. = 8.5 DEGREES REMARK 500 TYR A 127 CB - CG - CD1 ANGL. DEV. = -8.7 DEGREES REMARK 500 TYR A 167 CB - CG - CD1 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 191 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 CYS A 194 CA - CB - SG ANGL. DEV. = 8.0 DEGREES REMARK 500 VAL A 195 CG1 - CB - CG2 ANGL. DEV. = -12.3 DEGREES REMARK 500 VAL A 200 CA - C - N ANGL. DEV. = -16.4 DEGREES REMARK 500 ALA A 201 N - CA - C ANGL. DEV. = 16.6 DEGREES REMARK 500 PRO A 203 N - CA - C ANGL. DEV. = 17.7 DEGREES REMARK 500 LEU A 204 CA - C - N ANGL. DEV. = -18.5 DEGREES REMARK 500 LEU A 205 C - N - CA ANGL. DEV. = 19.3 DEGREES REMARK 500 LEU A 205 N - CA - C ANGL. DEV. = 26.5 DEGREES REMARK 500 THR A 206 N - CA - C ANGL. DEV. = 17.1 DEGREES REMARK 500 SER A 213 N - CA - C ANGL. DEV. = 20.6 DEGREES REMARK 500 ARG A 215 CA - CB - CG ANGL. DEV. = -13.7 DEGREES REMARK 500 ARG A 215 CG - CD - NE ANGL. DEV. = -13.5 DEGREES REMARK 500 ARG A 215 NE - CZ - NH2 ANGL. DEV. = 7.1 DEGREES REMARK 500 GLN A 222 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 ASN A 225 N - CA - C ANGL. DEV. = -20.5 DEGREES REMARK 500 ASN A 225 CA - C - N ANGL. DEV. = -24.2 DEGREES REMARK 500 ASN A 225 O - C - N ANGL. DEV. = 12.9 DEGREES REMARK 500 THR A 229 N - CA - CB ANGL. DEV. = 11.6 DEGREES REMARK 500 ARG A 232 NE - CZ - NH2 ANGL. DEV. = 6.8 DEGREES REMARK 500 GLY A 245 CA - C - O ANGL. DEV. = 11.1 DEGREES REMARK 500 GLY A 245 CA - C - N ANGL. DEV. = -34.0 DEGREES REMARK 500 GLY A 245 O - C - N ANGL. DEV. = 16.5 DEGREES REMARK 500 LEU A 254 N - CA - C ANGL. DEV. = 22.4 DEGREES REMARK 500 ARG A 264 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 264 NE - CZ - NH2 ANGL. DEV. = 4.1 DEGREES REMARK 500 LEU A 273 CA - CB - CG ANGL. DEV. = 14.0 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 12 85.16 -155.64 REMARK 500 ASP A 16 -55.97 123.95 REMARK 500 ASP A 50 -75.44 -19.24 REMARK 500 PRO A 63 -20.65 -35.84 REMARK 500 ALA A 152 -125.68 -95.83 REMARK 500 PHE A 157 -2.55 -150.14 REMARK 500 TYR A 198 -157.32 -90.27 REMARK 500 ALA A 201 -32.11 -14.44 REMARK 500 PRO A 203 54.22 -110.18 REMARK 500 LEU A 204 71.15 58.01 REMARK 500 LEU A 205 -18.96 -33.91 REMARK 500 PHE A 209 133.11 107.41 REMARK 500 LEU A 226 119.46 90.54 REMARK 500 LEU A 273 -70.31 -61.23 REMARK 500 LYS A 274 -133.79 36.26 REMARK 500 HIS A 275 -67.21 -173.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 202 PRO A 203 41.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2009 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A2019 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A2020 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH A2021 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH A2026 DISTANCE = 6.22 ANGSTROMS REMARK 525 HOH A2033 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH A2056 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH A2073 DISTANCE = 7.50 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAJ A1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAX A6001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BGK RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF APO-SECOISOLARICIRESINOL DEHYDROGENASE REMARK 900 RELATED ID: 2BGL RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF BINARY-SECOISOLARICIRESINOL DEHYDROGENASE DBREF 2BGM A 1 278 UNP Q94KL8 Q94KL8 1 278 SEQRES 1 A 278 MET GLY SER THR SER THR PRO ASP SER SER THR ASN ARG SEQRES 2 A 278 LEU GLN ASP LYS VAL ALA ILE ILE THR GLY GLY ALA GLY SEQRES 3 A 278 GLY ILE GLY GLU THR THR ALA LYS LEU PHE VAL ARG TYR SEQRES 4 A 278 GLY ALA LYS VAL VAL ILE ALA ASP ILE ALA ASP ASP HIS SEQRES 5 A 278 GLY GLN LYS VAL CYS ASN ASN ILE GLY SER PRO ASP VAL SEQRES 6 A 278 ILE SER PHE VAL HIS CYS ASP VAL THR LYS ASP GLU ASP SEQRES 7 A 278 VAL ARG ASN LEU VAL ASP THR THR ILE ALA LYS HIS GLY SEQRES 8 A 278 LYS LEU ASP ILE MET PHE GLY ASN VAL GLY VAL LEU SER SEQRES 9 A 278 THR THR PRO TYR SER ILE LEU GLU ALA GLY ASN GLU ASP SEQRES 10 A 278 PHE LYS ARG VAL MET ASP ILE ASN VAL TYR GLY ALA PHE SEQRES 11 A 278 LEU VAL ALA LYS HIS ALA ALA ARG VAL MET ILE PRO ALA SEQRES 12 A 278 LYS LYS GLY SER ILE VAL PHE THR ALA SER ILE SER SER SEQRES 13 A 278 PHE THR ALA GLY GLU GLY VAL SER HIS VAL TYR THR ALA SEQRES 14 A 278 THR LYS HIS ALA VAL LEU GLY LEU THR THR SER LEU CYS SEQRES 15 A 278 THR GLU LEU GLY GLU TYR GLY ILE ARG VAL ASN CYS VAL SEQRES 16 A 278 SER PRO TYR ILE VAL ALA SER PRO LEU LEU THR ASP VAL SEQRES 17 A 278 PHE GLY VAL ASP SER SER ARG VAL GLU GLU LEU ALA HIS SEQRES 18 A 278 GLN ALA ALA ASN LEU LYS GLY THR LEU LEU ARG ALA GLU SEQRES 19 A 278 ASP VAL ALA ASP ALA VAL ALA TYR LEU ALA GLY ASP GLU SEQRES 20 A 278 SER LYS TYR VAL SER GLY LEU ASN LEU VAL ILE ASP GLY SEQRES 21 A 278 GLY TYR THR ARG THR ASN PRO ALA PHE PRO THR ALA LEU SEQRES 22 A 278 LYS HIS GLY LEU ALA HET NAJ A1300 44 HET MAX A6001 26 HETNAM NAJ NICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM) HETNAM MAX MATAIRESINOL HETSYN MAX ARTIGENIN CONGENER; DIBENZYLBUTYROLACTONE LIGNANOLIDE FORMUL 2 NAJ C21 H27 N7 O14 P2 FORMUL 3 MAX C20 H22 O6 FORMUL 4 HOH *127(H2 O) HELIX 1 1 GLY A 26 TYR A 39 1 14 HELIX 2 2 ALA A 49 GLY A 61 1 13 HELIX 3 3 LYS A 75 HIS A 90 1 16 HELIX 4 4 GLY A 114 VAL A 126 1 13 HELIX 5 5 VAL A 126 ILE A 141 1 16 HELIX 6 6 SER A 153 PHE A 157 5 5 HELIX 7 7 SER A 164 GLY A 186 1 23 HELIX 8 8 SER A 214 ALA A 224 1 11 HELIX 9 9 ARG A 232 GLY A 245 1 14 HELIX 10 10 GLY A 261 THR A 265 5 5 HELIX 11 11 PRO A 267 LYS A 274 1 8 SHEET 1 AA 7 ILE A 66 HIS A 70 0 SHEET 2 AA 7 LYS A 42 ASP A 47 1 O VAL A 43 N SER A 67 SHEET 3 AA 7 VAL A 18 THR A 22 1 O ALA A 19 N VAL A 44 SHEET 4 AA 7 ILE A 95 GLY A 98 1 O ILE A 95 N ILE A 20 SHEET 5 AA 7 GLY A 146 THR A 151 1 O SER A 147 N MET A 96 SHEET 6 AA 7 ILE A 190 PRO A 197 1 O ARG A 191 N ILE A 148 SHEET 7 AA 7 ASN A 255 ILE A 258 1 O LEU A 256 N SER A 196 SITE 1 AC1 25 GLY A 23 GLY A 26 GLY A 27 ILE A 28 SITE 2 AC1 25 ASP A 47 ILE A 48 CYS A 71 ASP A 72 SITE 3 AC1 25 VAL A 73 ASN A 99 VAL A 100 GLY A 101 SITE 4 AC1 25 THR A 151 ALA A 152 SER A 153 TYR A 167 SITE 5 AC1 25 LYS A 171 PRO A 197 TYR A 198 ILE A 199 SITE 6 AC1 25 VAL A 200 HOH A2007 HOH A2123 HOH A2124 SITE 7 AC1 25 MAX A6001 SITE 1 AC2 15 LEU A 103 SER A 104 ILE A 154 GLY A 162 SITE 2 AC2 15 VAL A 163 SER A 164 TYR A 167 PRO A 197 SITE 3 AC2 15 TYR A 198 ILE A 199 NAJ A1300 HOH A2067 SITE 4 AC2 15 HOH A2125 HOH A2126 HOH A2127 CRYST1 57.350 118.740 131.250 90.00 90.00 90.00 F 2 2 2 16 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 0.017437 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008422 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007619 0.00000