HEADER XIDOREDUCTASE 23-DEC-04 2BGL TITLE X-RAY STRUCTURE OF BINARY-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 2BGL 1 REMARK REVDAT 3 24-FEB-09 2BGL 1 VERSN REVDAT 2 31-MAR-05 2BGL 1 JRNL REVDAT 1 13-JAN-05 2BGL 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. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 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) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 4585 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) : 0.201 REMARK 3 FREE R VALUE : 0.221 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 : 44 REMARK 3 SOLVENT ATOMS : 28 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) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 4.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.50 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 2BGL 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_1290022149. 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 RUH2R 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 : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU IMAGE PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5752 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.580 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.29000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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 (%): 37.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 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 59.45500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 66.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.45500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 59.45500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 59.45500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 66.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 66.00000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 66.00000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 66.00000 REMARK 290 SMTRY1 12 1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 66.00000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 59.45500 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 59.45500 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 59.45500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 29.25500 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 59.45500 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 59.45500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 66.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 29.25500 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 66.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 29.25500 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 59.45500 REMARK 350 BIOMT3 4 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 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 52 NE2 HIS A 52 CD2 -0.071 REMARK 500 HIS A 90 NE2 HIS A 90 CD2 -0.075 REMARK 500 HIS A 135 NE2 HIS A 135 CD2 -0.070 REMARK 500 HIS A 165 NE2 HIS A 165 CD2 -0.070 REMARK 500 HIS A 275 NE2 HIS A 275 CD2 -0.072 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 NE - CZ - NH2 ANGL. DEV. = 4.1 DEGREES REMARK 500 GLN A 15 CA - C - N ANGL. DEV. = -14.1 DEGREES REMARK 500 GLN A 15 O - C - N ANGL. DEV. = 10.7 DEGREES REMARK 500 ASP A 16 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 ARG A 38 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ILE A 66 CB - CA - C ANGL. DEV. = -12.2 DEGREES REMARK 500 GLY A 101 CA - C - N ANGL. DEV. = -27.2 DEGREES REMARK 500 GLY A 101 O - C - N ANGL. DEV. = 11.2 DEGREES REMARK 500 GLU A 112 CA - C - N ANGL. DEV. = -14.2 DEGREES REMARK 500 GLU A 112 O - C - N ANGL. DEV. = 11.6 DEGREES REMARK 500 GLY A 114 CA - C - N ANGL. DEV. = -15.2 DEGREES REMARK 500 ASN A 115 N - CA - C ANGL. DEV. = 17.5 DEGREES REMARK 500 ARG A 120 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 120 NE - CZ - NH2 ANGL. DEV. = 4.1 DEGREES REMARK 500 TYR A 127 CA - CB - CG ANGL. DEV. = 16.1 DEGREES REMARK 500 ARG A 138 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 LEU A 177 CA - CB - CG ANGL. DEV. = 19.0 DEGREES REMARK 500 CYS A 194 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 VAL A 195 CG1 - CB - CG2 ANGL. DEV. = -11.4 DEGREES REMARK 500 TYR A 198 CB - CG - CD2 ANGL. DEV. = -4.7 DEGREES REMARK 500 TYR A 198 CB - CG - CD1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ALA A 201 N - CA - C ANGL. DEV. = 20.5 DEGREES REMARK 500 SER A 213 N - CA - C ANGL. DEV. = 16.8 DEGREES REMARK 500 SER A 213 CA - C - N ANGL. DEV. = -17.7 DEGREES REMARK 500 ARG A 215 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 VAL A 240 CG1 - CB - CG2 ANGL. DEV. = -10.5 DEGREES REMARK 500 ASN A 255 N - CA - C ANGL. DEV. = -18.7 DEGREES REMARK 500 PRO A 267 C - N - CA ANGL. DEV. = 10.4 DEGREES REMARK 500 LEU A 273 CA - CB - CG ANGL. DEV. = 19.5 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 13 -75.19 -54.25 REMARK 500 LEU A 14 49.87 -88.08 REMARK 500 ASP A 16 -41.69 130.29 REMARK 500 THR A 22 43.88 -101.35 REMARK 500 ALA A 46 80.89 -154.99 REMARK 500 ALA A 49 65.71 -68.02 REMARK 500 HIS A 52 -52.78 -120.26 REMARK 500 VAL A 56 -51.83 -122.96 REMARK 500 ILE A 60 -61.31 -172.84 REMARK 500 LEU A 82 -55.31 174.97 REMARK 500 ASN A 99 -83.13 -37.17 REMARK 500 VAL A 100 114.87 28.51 REMARK 500 PRO A 107 -93.47 -43.28 REMARK 500 TYR A 108 -65.60 -177.17 REMARK 500 SER A 109 124.49 -39.08 REMARK 500 ALA A 113 118.62 -169.49 REMARK 500 GLU A 116 -0.01 -142.16 REMARK 500 ASP A 117 44.81 -105.30 REMARK 500 VAL A 121 54.57 -105.64 REMARK 500 MET A 122 -38.05 -145.06 REMARK 500 TYR A 127 42.37 -85.65 REMARK 500 PHE A 130 -71.48 -43.59 REMARK 500 LYS A 144 17.08 55.85 REMARK 500 PHE A 150 -123.43 -118.97 REMARK 500 THR A 151 116.77 167.55 REMARK 500 ALA A 152 -149.05 -116.76 REMARK 500 THR A 158 -139.59 -137.39 REMARK 500 HIS A 165 -11.36 -45.20 REMARK 500 HIS A 172 -61.45 -155.24 REMARK 500 LEU A 177 48.87 -85.58 REMARK 500 THR A 178 5.45 -154.24 REMARK 500 THR A 183 2.69 -68.81 REMARK 500 SER A 196 68.97 -164.32 REMARK 500 PRO A 197 -160.47 -71.77 REMARK 500 VAL A 200 -72.06 -114.04 REMARK 500 SER A 202 -76.55 -43.70 REMARK 500 PRO A 203 63.83 -52.08 REMARK 500 LEU A 204 83.08 62.35 REMARK 500 LEU A 205 -138.27 -51.24 REMARK 500 THR A 206 144.74 93.49 REMARK 500 ASP A 207 -24.43 -165.28 REMARK 500 PHE A 209 132.22 55.77 REMARK 500 ASP A 212 56.01 174.38 REMARK 500 SER A 214 -48.09 164.80 REMARK 500 ARG A 215 29.87 -69.26 REMARK 500 HIS A 221 -34.09 -134.49 REMARK 500 ALA A 224 -178.71 -52.75 REMARK 500 LEU A 226 86.35 -173.34 REMARK 500 ARG A 232 -163.30 -164.51 REMARK 500 GLU A 247 -4.42 68.58 REMARK 500 REMARK 500 THIS ENTRY HAS 64 RAMACHANDRAN OUTLIERS. 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 62 PRO A 63 -144.92 REMARK 500 SER A 202 PRO A 203 -88.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 101 -12.53 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 NAJ A1300 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: 2BGM RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF TERNARY- SECOISOLARICIRESINOL DEHYDROGENASE DBREF 2BGL 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 HETNAM NAJ NICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM) FORMUL 2 NAJ C21 H27 N7 O14 P2 FORMUL 3 HOH *28(H2 O) HELIX 1 1 GLY A 27 VAL A 37 1 11 HELIX 2 2 GLY A 53 ASN A 58 1 6 HELIX 3 3 LYS A 75 HIS A 90 1 16 HELIX 4 4 LYS A 119 ILE A 124 1 6 HELIX 5 5 GLY A 128 ILE A 141 1 14 HELIX 6 6 PRO A 142 LYS A 144 5 3 HELIX 7 7 VAL A 166 VAL A 174 1 9 HELIX 8 8 ALA A 233 ALA A 244 1 12 HELIX 9 9 GLY A 261 THR A 265 5 5 HELIX 10 10 PHE A 269 LYS A 274 1 6 SHEET 1 AA 7 ILE A 66 SER A 67 0 SHEET 2 AA 7 LYS A 42 VAL A 44 1 O VAL A 43 N SER A 67 SHEET 3 AA 7 VAL A 18 ILE A 21 1 O ALA A 19 N VAL A 44 SHEET 4 AA 7 ILE A 95 PHE A 97 1 O ILE A 95 N ILE A 20 SHEET 5 AA 7 GLY A 146 VAL A 149 1 O SER A 147 N MET A 96 SHEET 6 AA 7 ILE A 190 SER A 196 1 O ARG A 191 N ILE A 148 SHEET 7 AA 7 ASN A 255 VAL A 257 1 O LEU A 256 N SER A 196 SITE 1 AC1 22 GLY A 23 GLY A 26 GLY A 27 ILE A 28 SITE 2 AC1 22 ASP A 47 ILE A 48 CYS A 71 ASP A 72 SITE 3 AC1 22 VAL A 73 THR A 74 ASN A 99 VAL A 100 SITE 4 AC1 22 GLY A 101 ILE A 124 THR A 151 ALA A 152 SITE 5 AC1 22 SER A 153 TYR A 167 LYS A 171 TYR A 198 SITE 6 AC1 22 ILE A 199 VAL A 200 CRYST1 58.510 118.910 132.000 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 0.017091 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008410 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007576 0.00000