HEADER OXIDOREDUCTASE 27-SEP-05 2C29 TITLE STRUCTURE OF DIHYDROFLAVONOL REDUCTASE FROM VITIS VINIFERA AT 1.8 A. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROFLAVONOL 4-REDUCTASE; COMPND 3 CHAIN: D, F; COMPND 4 EC: 1.1.1.219; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: ROSSMANN FOLD SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VITIS VINIFERA; SOURCE 3 ORGANISM_COMMON: GRAPE; SOURCE 4 ORGANISM_TAXID: 29760; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15(PREP4); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PQE(30XA) KEYWDS FLAVONOIDS, SHORT DEHYDROGENASE REDUCTASE, NADPH, DIHYDROQUERCETIN, KEYWDS 2 ROSSMANN FOLD, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR P.PETIT,T.GRANIER,B.L.D'ESTAINTOT,S.HAMDI,B.GALLOIS REVDAT 5 08-MAY-24 2C29 1 REMARK REVDAT 4 24-FEB-09 2C29 1 VERSN REVDAT 3 08-MAY-07 2C29 1 JRNL REVDAT 2 10-APR-07 2C29 1 AUTHOR JRNL REVDAT 1 16-OCT-06 2C29 0 JRNL AUTH P.PETIT,T.GRANIER,B.L.D'ESTAINTOT,C.MANIGAND,K.BATHANY, JRNL AUTH 2 J.M.SCHMITTER,V.LAUVERGEAT,S.HAMDI,B.GALLOIS JRNL TITL CRYSTAL STRUCTURE OF GRAPE DIHYDROFLAVONOL 4-REDUCTASE, A JRNL TITL 2 KEY ENZYME IN FLAVONOID BIOSYNTHESIS. JRNL REF J.MOL.BIOL. V. 368 1345 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17395203 JRNL DOI 10.1016/J.JMB.2007.02.088 REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 16.43 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 63444 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3382 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) : 1.81 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4378 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3410 REMARK 3 BIN FREE R VALUE SET COUNT : 234 REMARK 3 BIN FREE R VALUE : 0.3760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4990 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 140 REMARK 3 SOLVENT ATOMS : 576 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.68000 REMARK 3 B22 (A**2) : 3.49000 REMARK 3 B33 (A**2) : -2.81000 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): 0.134 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.136 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5303 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4709 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7238 ; 1.428 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10955 ; 3.751 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 656 ; 5.598 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 199 ;31.845 ;23.869 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 851 ;13.057 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;11.433 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 824 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5801 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1044 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1119 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4414 ; 0.225 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2564 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2332 ; 0.109 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 475 ; 0.178 ; 0.200 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): 13 ; 0.116 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 54 ; 0.166 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.131 ; 0.200 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): 3268 ; 3.270 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5291 ; 4.330 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2035 ; 3.646 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1947 ; 4.633 ; 6.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : D F REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 5 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 D 6 D 110 5 REMARK 3 1 F 6 F 110 5 REMARK 3 2 D 130 D 177 5 REMARK 3 2 F 130 F 177 5 REMARK 3 3 D 184 D 261 5 REMARK 3 3 F 184 F 261 5 REMARK 3 4 D 271 D 329 5 REMARK 3 4 F 271 F 329 5 REMARK 3 5 D 332 D 333 1 REMARK 3 5 F 332 F 333 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 D (A): 97 ; 0.06 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 D (A): 1699 ; 0.14 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 D (A): 2587 ; 0.37 ; 5.00 REMARK 3 TIGHT THERMAL 1 D (A**2): 97 ; 0.26 ; 0.50 REMARK 3 MEDIUM THERMAL 1 D (A**2): 1699 ; 1.69 ; 2.00 REMARK 3 LOOSE THERMAL 1 D (A**2): 2587 ; 2.69 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2C29 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1290025748. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97319 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66981 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 1.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.59000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NACL 80-200MM PEG 3350 25-30% HEPES REMARK 280 100MM PH 7.5, PH 7.50 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 43.90900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.59550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.96350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.59550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.90900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.96350 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: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET D 1 REMARK 465 GLY D 2 REMARK 465 SER D 3 REMARK 465 GLN D 4 REMARK 465 SER D 5 REMARK 465 GLU D 330 REMARK 465 LYS D 331 REMARK 465 PRO D 332 REMARK 465 VAL D 333 REMARK 465 ASP D 334 REMARK 465 GLY D 335 REMARK 465 LYS D 336 REMARK 465 THR D 337 REMARK 465 MET F 1 REMARK 465 GLY F 2 REMARK 465 SER F 3 REMARK 465 GLN F 4 REMARK 465 LYS F 331 REMARK 465 PRO F 332 REMARK 465 VAL F 333 REMARK 465 ASP F 334 REMARK 465 GLY F 335 REMARK 465 LYS F 336 REMARK 465 THR F 337 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 LYS D 43 CG CD CE NZ REMARK 470 GLU D 68 CG CD OE1 OE2 REMARK 470 GLU D 73 CG CD OE1 OE2 REMARK 470 GLU D 91 OE1 OE2 REMARK 470 LYS D 93 CG CD CE NZ REMARK 470 GLU D 151 CG CD OE1 OE2 REMARK 470 MET D 162 CE REMARK 470 LYS D 176 CE NZ REMARK 470 LYS D 179 CG CD CE NZ REMARK 470 ASN D 182 CB CG OD1 ND2 REMARK 470 ILE D 183 CD1 REMARK 470 LYS D 246 CD CE NZ REMARK 470 GLU D 269 OE1 OE2 REMARK 470 LYS D 270 CG CD CE NZ REMARK 470 GLU D 279 CG CD OE1 OE2 REMARK 470 LYS D 281 CG CD CE NZ REMARK 470 ASP D 284 OD1 OD2 REMARK 470 GLU D 285 CG CD OE1 OE2 REMARK 470 ARG F 28 NH1 NH2 REMARK 470 LYS F 43 CG CD CE NZ REMARK 470 GLU F 68 CG CD OE1 OE2 REMARK 470 GLU F 73 CD OE1 OE2 REMARK 470 LYS F 93 CG CD CE NZ REMARK 470 LYS F 101 NZ REMARK 470 GLU F 151 CG CD OE1 OE2 REMARK 470 MET F 162 CE REMARK 470 LYS F 176 CD CE NZ REMARK 470 LYS F 179 CG CD CE NZ REMARK 470 GLU F 180 CD OE1 OE2 REMARK 470 LYS F 246 CD CE NZ REMARK 470 GLU F 269 CD OE1 OE2 REMARK 470 LYS F 270 CD CE NZ REMARK 470 GLU F 279 CG CD OE1 OE2 REMARK 470 LYS F 281 CG CD CE NZ REMARK 470 GLU F 285 CD OE1 OE2 REMARK 470 GLU F 330 CB CG CD OE1 OE2 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 LYS D 53 1.98 83.06 REMARK 500 VAL D 99 -64.70 -133.23 REMARK 500 LYS D 118 -8.32 69.92 REMARK 500 SER D 127 -149.72 -82.98 REMARK 500 THR D 191 -122.28 -94.72 REMARK 500 LYS F 53 7.43 97.37 REMARK 500 VAL F 99 -66.22 -130.29 REMARK 500 SER F 127 -139.12 -83.91 REMARK 500 THR F 191 -109.57 -100.08 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 D2021 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH F2025 DISTANCE = 6.05 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP D1330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DQH D1331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP F1331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DQH F1332 DBREF 2C29 D 1 337 UNP P93799 P93799_VITVI 1 337 DBREF 2C29 F 1 337 UNP P93799 P93799_VITVI 1 337 SEQRES 1 D 337 MET GLY SER GLN SER GLU THR VAL CYS VAL THR GLY ALA SEQRES 2 D 337 SER GLY PHE ILE GLY SER TRP LEU VAL MET ARG LEU LEU SEQRES 3 D 337 GLU ARG GLY TYR THR VAL ARG ALA THR VAL ARG ASP PRO SEQRES 4 D 337 THR ASN VAL LYS LYS VAL LYS HIS LEU LEU ASP LEU PRO SEQRES 5 D 337 LYS ALA GLU THR HIS LEU THR LEU TRP LYS ALA ASP LEU SEQRES 6 D 337 ALA ASP GLU GLY SER PHE ASP GLU ALA ILE LYS GLY CYS SEQRES 7 D 337 THR GLY VAL PHE HIS VAL ALA THR PRO MET ASP PHE GLU SEQRES 8 D 337 SER LYS ASP PRO GLU ASN GLU VAL ILE LYS PRO THR ILE SEQRES 9 D 337 GLU GLY MET LEU GLY ILE MET LYS SER CYS ALA ALA ALA SEQRES 10 D 337 LYS THR VAL ARG ARG LEU VAL PHE THR SER SER ALA GLY SEQRES 11 D 337 THR VAL ASN ILE GLN GLU HIS GLN LEU PRO VAL TYR ASP SEQRES 12 D 337 GLU SER CYS TRP SER ASP MET GLU PHE CYS ARG ALA LYS SEQRES 13 D 337 LYS MET THR ALA TRP MET TYR PHE VAL SER LYS THR LEU SEQRES 14 D 337 ALA GLU GLN ALA ALA TRP LYS TYR ALA LYS GLU ASN ASN SEQRES 15 D 337 ILE ASP PHE ILE THR ILE ILE PRO THR LEU VAL VAL GLY SEQRES 16 D 337 PRO PHE ILE MET SER SER MET PRO PRO SER LEU ILE THR SEQRES 17 D 337 ALA LEU SER PRO ILE THR GLY ASN GLU ALA HIS TYR SER SEQRES 18 D 337 ILE ILE ARG GLN GLY GLN PHE VAL HIS LEU ASP ASP LEU SEQRES 19 D 337 CYS ASN ALA HIS ILE TYR LEU PHE GLU ASN PRO LYS ALA SEQRES 20 D 337 GLU GLY ARG TYR ILE CYS SER SER HIS ASP CYS ILE ILE SEQRES 21 D 337 LEU ASP LEU ALA LYS MET LEU ARG GLU LYS TYR PRO GLU SEQRES 22 D 337 TYR ASN ILE PRO THR GLU PHE LYS GLY VAL ASP GLU ASN SEQRES 23 D 337 LEU LYS SER VAL CYS PHE SER SER LYS LYS LEU THR ASP SEQRES 24 D 337 LEU GLY PHE GLU PHE LYS TYR SER LEU GLU ASP MET PHE SEQRES 25 D 337 THR GLY ALA VAL ASP THR CYS ARG ALA LYS GLY LEU LEU SEQRES 26 D 337 PRO PRO SER HIS GLU LYS PRO VAL ASP GLY LYS THR SEQRES 1 F 337 MET GLY SER GLN SER GLU THR VAL CYS VAL THR GLY ALA SEQRES 2 F 337 SER GLY PHE ILE GLY SER TRP LEU VAL MET ARG LEU LEU SEQRES 3 F 337 GLU ARG GLY TYR THR VAL ARG ALA THR VAL ARG ASP PRO SEQRES 4 F 337 THR ASN VAL LYS LYS VAL LYS HIS LEU LEU ASP LEU PRO SEQRES 5 F 337 LYS ALA GLU THR HIS LEU THR LEU TRP LYS ALA ASP LEU SEQRES 6 F 337 ALA ASP GLU GLY SER PHE ASP GLU ALA ILE LYS GLY CYS SEQRES 7 F 337 THR GLY VAL PHE HIS VAL ALA THR PRO MET ASP PHE GLU SEQRES 8 F 337 SER LYS ASP PRO GLU ASN GLU VAL ILE LYS PRO THR ILE SEQRES 9 F 337 GLU GLY MET LEU GLY ILE MET LYS SER CYS ALA ALA ALA SEQRES 10 F 337 LYS THR VAL ARG ARG LEU VAL PHE THR SER SER ALA GLY SEQRES 11 F 337 THR VAL ASN ILE GLN GLU HIS GLN LEU PRO VAL TYR ASP SEQRES 12 F 337 GLU SER CYS TRP SER ASP MET GLU PHE CYS ARG ALA LYS SEQRES 13 F 337 LYS MET THR ALA TRP MET TYR PHE VAL SER LYS THR LEU SEQRES 14 F 337 ALA GLU GLN ALA ALA TRP LYS TYR ALA LYS GLU ASN ASN SEQRES 15 F 337 ILE ASP PHE ILE THR ILE ILE PRO THR LEU VAL VAL GLY SEQRES 16 F 337 PRO PHE ILE MET SER SER MET PRO PRO SER LEU ILE THR SEQRES 17 F 337 ALA LEU SER PRO ILE THR GLY ASN GLU ALA HIS TYR SER SEQRES 18 F 337 ILE ILE ARG GLN GLY GLN PHE VAL HIS LEU ASP ASP LEU SEQRES 19 F 337 CYS ASN ALA HIS ILE TYR LEU PHE GLU ASN PRO LYS ALA SEQRES 20 F 337 GLU GLY ARG TYR ILE CYS SER SER HIS ASP CYS ILE ILE SEQRES 21 F 337 LEU ASP LEU ALA LYS MET LEU ARG GLU LYS TYR PRO GLU SEQRES 22 F 337 TYR ASN ILE PRO THR GLU PHE LYS GLY VAL ASP GLU ASN SEQRES 23 F 337 LEU LYS SER VAL CYS PHE SER SER LYS LYS LEU THR ASP SEQRES 24 F 337 LEU GLY PHE GLU PHE LYS TYR SER LEU GLU ASP MET PHE SEQRES 25 F 337 THR GLY ALA VAL ASP THR CYS ARG ALA LYS GLY LEU LEU SEQRES 26 F 337 PRO PRO SER HIS GLU LYS PRO VAL ASP GLY LYS THR HET NAP D1330 48 HET DQH D1331 22 HET NAP F1331 48 HET DQH F1332 22 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM DQH (2R,3R)-2-(3,4-DIHYDROXYPHENYL)-3,5,7-TRIHYDROXY-2,3- HETNAM 2 DQH DIHYDRO-4H-CHROMEN-4-ONE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN DQH (2R,3R)-TRANS-DIHYDROQUERCETIN FORMUL 3 NAP 2(C21 H28 N7 O17 P3) FORMUL 4 DQH 2(C15 H12 O7) FORMUL 7 HOH *576(H2 O) HELIX 1 1 GLY D 15 ARG D 28 1 14 HELIX 2 2 ASN D 41 ASP D 50 1 10 HELIX 3 3 LYS D 53 HIS D 57 1 5 HELIX 4 4 PHE D 71 LYS D 76 1 6 HELIX 5 5 ASP D 94 VAL D 99 1 6 HELIX 6 6 VAL D 99 LYS D 118 1 20 HELIX 7 7 SER D 128 VAL D 132 5 5 HELIX 8 8 ASP D 149 LYS D 157 1 9 HELIX 9 9 ALA D 160 ASN D 182 1 23 HELIX 10 10 PRO D 203 LEU D 210 1 8 HELIX 11 11 LEU D 210 GLY D 215 1 6 HELIX 12 12 ASN D 216 ALA D 218 5 3 HELIX 13 13 HIS D 219 ARG D 224 1 6 HELIX 14 14 LEU D 231 ASN D 244 1 14 HELIX 15 15 ILE D 260 TYR D 271 1 12 HELIX 16 16 SER D 294 LEU D 300 1 7 HELIX 17 17 SER D 307 LYS D 322 1 16 HELIX 18 18 GLY F 15 ARG F 28 1 14 HELIX 19 19 ASN F 41 ASP F 50 1 10 HELIX 20 20 LYS F 53 HIS F 57 1 5 HELIX 21 21 PHE F 71 LYS F 76 1 6 HELIX 22 22 ASP F 94 VAL F 99 1 6 HELIX 23 23 VAL F 99 ALA F 117 1 19 HELIX 24 24 SER F 128 VAL F 132 5 5 HELIX 25 25 ASP F 149 LYS F 157 1 9 HELIX 26 26 ALA F 160 ASN F 181 1 22 HELIX 27 27 PRO F 203 LEU F 210 1 8 HELIX 28 28 LEU F 210 GLY F 215 1 6 HELIX 29 29 ASN F 216 ALA F 218 5 3 HELIX 30 30 HIS F 219 ARG F 224 1 6 HELIX 31 31 LEU F 231 ASN F 244 1 14 HELIX 32 32 ILE F 260 TYR F 271 1 12 HELIX 33 33 SER F 294 GLY F 301 1 8 HELIX 34 34 SER F 307 LYS F 322 1 16 SHEET 1 DA 7 LEU D 58 LYS D 62 0 SHEET 2 DA 7 THR D 31 VAL D 36 1 O VAL D 32 N THR D 59 SHEET 3 DA 7 THR D 7 VAL D 10 1 O VAL D 8 N ARG D 33 SHEET 4 DA 7 GLY D 80 HIS D 83 1 O GLY D 80 N CYS D 9 SHEET 5 DA 7 ARG D 122 THR D 126 1 O ARG D 122 N VAL D 81 SHEET 6 DA 7 PHE D 185 PRO D 190 1 O ILE D 186 N PHE D 125 SHEET 7 DA 7 GLY D 249 CYS D 253 1 O GLY D 249 N THR D 187 SHEET 1 DB 2 VAL D 141 TYR D 142 0 SHEET 2 DB 2 CYS D 291 PHE D 292 1 O CYS D 291 N TYR D 142 SHEET 1 DC 3 LEU D 192 VAL D 194 0 SHEET 2 DC 3 GLN D 225 HIS D 230 1 O GLN D 227 N LEU D 192 SHEET 3 DC 3 HIS D 256 ILE D 259 -1 O HIS D 256 N PHE D 228 SHEET 1 FA 7 LEU F 58 LYS F 62 0 SHEET 2 FA 7 THR F 31 VAL F 36 1 O VAL F 32 N THR F 59 SHEET 3 FA 7 THR F 7 VAL F 10 1 O VAL F 8 N ARG F 33 SHEET 4 FA 7 GLY F 80 HIS F 83 1 O GLY F 80 N CYS F 9 SHEET 5 FA 7 ARG F 122 THR F 126 1 O ARG F 122 N VAL F 81 SHEET 6 FA 7 PHE F 185 PRO F 190 1 O ILE F 186 N PHE F 125 SHEET 7 FA 7 GLY F 249 CYS F 253 1 O GLY F 249 N THR F 187 SHEET 1 FB 2 VAL F 141 TYR F 142 0 SHEET 2 FB 2 CYS F 291 PHE F 292 1 O CYS F 291 N TYR F 142 SHEET 1 FC 3 LEU F 192 VAL F 194 0 SHEET 2 FC 3 GLN F 225 HIS F 230 1 O GLN F 227 N LEU F 192 SHEET 3 FC 3 HIS F 256 ILE F 259 -1 O HIS F 256 N PHE F 228 SITE 1 AC1 34 SER D 14 GLY D 15 PHE D 16 ILE D 17 SITE 2 AC1 34 VAL D 36 ARG D 37 LYS D 44 ASP D 64 SITE 3 AC1 34 LEU D 65 VAL D 84 ALA D 85 THR D 86 SITE 4 AC1 34 MET D 88 THR D 126 SER D 127 TYR D 163 SITE 5 AC1 34 LYS D 167 PRO D 190 THR D 191 VAL D 193 SITE 6 AC1 34 PRO D 204 SER D 205 DQH D1331 HOH D2003 SITE 7 AC1 34 HOH D2032 HOH D2042 HOH D2081 HOH D2256 SITE 8 AC1 34 HOH D2257 HOH D2258 HOH D2259 HOH D2260 SITE 9 AC1 34 HOH D2261 HOH D2264 SITE 1 AC2 18 SER D 128 ALA D 129 ASN D 133 ILE D 134 SITE 2 AC2 18 TYR D 163 PRO D 190 THR D 191 LEU D 192 SITE 3 AC2 18 PRO D 204 SER D 205 THR D 208 ILE D 222 SITE 4 AC2 18 GLN D 227 NAP D1330 HOH D2173 HOH D2181 SITE 5 AC2 18 HOH D2263 HOH D2264 SITE 1 AC3 34 SER F 14 GLY F 15 PHE F 16 ILE F 17 SITE 2 AC3 34 ARG F 37 LYS F 44 ASP F 64 LEU F 65 SITE 3 AC3 34 VAL F 84 ALA F 85 THR F 86 PRO F 87 SITE 4 AC3 34 MET F 88 THR F 126 SER F 127 TYR F 163 SITE 5 AC3 34 LYS F 167 PRO F 190 THR F 191 LEU F 192 SITE 6 AC3 34 VAL F 193 PRO F 204 SER F 205 DQH F1332 SITE 7 AC3 34 HOH F2006 HOH F2010 HOH F2093 HOH F2304 SITE 8 AC3 34 HOH F2306 HOH F2307 HOH F2308 HOH F2309 SITE 9 AC3 34 HOH F2310 HOH F2311 SITE 1 AC4 18 SER F 128 ALA F 129 ASN F 133 ILE F 134 SITE 2 AC4 18 TYR F 163 PRO F 190 THR F 191 LEU F 192 SITE 3 AC4 18 PRO F 204 SER F 205 THR F 208 ILE F 222 SITE 4 AC4 18 GLN F 227 NAP F1331 HOH F2201 HOH F2215 SITE 5 AC4 18 HOH F2311 HOH F2312 CRYST1 87.818 89.927 93.191 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 0.011387 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011120 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010731 0.00000 MTRIX1 1 -0.036940 -0.999260 0.010940 115.17899 1 MTRIX2 1 -0.999280 0.037030 0.007930 106.01623 1 MTRIX3 1 -0.008330 -0.010640 -0.999910 69.92290 1