HEADER OXIDOREDUCTASE 07-JUL-09 3I6I TITLE STRUCTURE OF THE BINARY COMPLEX LEUCOANTHOCYANIDIN REDUCTASE - NADPH TITLE 2 FROM VITIS VINIFERA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE LEUCOANTHOCYANIDIN REDUCTASE 1; COMPND 3 CHAIN: A; COMPND 4 EC: 1.17.1.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VITIS VINIFERA; SOURCE 3 ORGANISM_COMMON: WINE GRAPE; SOURCE 4 ORGANISM_TAXID: 29760; SOURCE 5 GENE: LAR1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21[DE3]; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETGB1A KEYWDS ROSSMANN FOLD, SHORT CHAIN DEHYDROGENASE REDUCTASE, FLAVONOID, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.MAUGE,M.GARGOURI,B.L.D'ESTAINTOT,T.GRANIER,B.GALLOIS REVDAT 4 01-NOV-23 3I6I 1 REMARK REVDAT 3 20-NOV-13 3I6I 1 JRNL REVDAT 2 13-JUL-11 3I6I 1 VERSN REVDAT 1 23-FEB-10 3I6I 0 JRNL AUTH C.MAUGE,T.GRANIER,B.L.D'ESTAINTOT,M.GARGOURI,C.MANIGAND, JRNL AUTH 2 J.M.SCHMITTER,J.CHAUDIERE,B.GALLOIS JRNL TITL CRYSTAL STRUCTURE AND CATALYTIC MECHANISM OF JRNL TITL 2 LEUCOANTHOCYANIDIN REDUCTASE FROM VITIS VINIFERA. JRNL REF J.MOL.BIOL. V. 397 1079 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20138891 JRNL DOI 10.1016/J.JMB.2010.02.002 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 26688 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1414 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1926 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2303 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 240 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 15.16 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 6.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.51000 REMARK 3 B22 (A**2) : -0.20000 REMARK 3 B33 (A**2) : -0.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.45000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.112 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.965 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2488 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1642 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3406 ; 1.510 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3989 ; 0.999 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 322 ; 5.777 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 105 ;32.840 ;23.905 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 393 ;12.644 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;13.578 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 392 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2785 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 503 ; 0.001 ; 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): 1546 ; 2.195 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 624 ; 0.568 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2513 ; 3.270 ; 8.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 942 ; 3.881 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 887 ; 5.434 ;12.000 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 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 10 A 126 REMARK 3 ORIGIN FOR THE GROUP (A): 13.0600 10.4120 21.5970 REMARK 3 T TENSOR REMARK 3 T11: 0.1448 T22: 0.0330 REMARK 3 T33: 0.0988 T12: 0.0072 REMARK 3 T13: 0.0312 T23: -0.0188 REMARK 3 L TENSOR REMARK 3 L11: 1.4226 L22: 3.0361 REMARK 3 L33: 1.9947 L12: 0.2667 REMARK 3 L13: 0.3645 L23: 0.1534 REMARK 3 S TENSOR REMARK 3 S11: -0.0415 S12: -0.1977 S13: 0.1641 REMARK 3 S21: 0.5712 S22: -0.0151 S23: 0.1318 REMARK 3 S31: -0.2002 S32: -0.0631 S33: 0.0567 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 : A 127 A 176 REMARK 3 ORIGIN FOR THE GROUP (A): 4.0700 4.2050 8.2740 REMARK 3 T TENSOR REMARK 3 T11: 0.0137 T22: 0.0234 REMARK 3 T33: 0.0519 T12: 0.0071 REMARK 3 T13: 0.0243 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 1.8985 L22: 1.9821 REMARK 3 L33: 0.9862 L12: 0.3686 REMARK 3 L13: 0.4886 L23: -0.3440 REMARK 3 S TENSOR REMARK 3 S11: 0.0199 S12: -0.0389 S13: 0.0915 REMARK 3 S21: 0.1028 S22: 0.0129 S23: 0.2190 REMARK 3 S31: -0.0622 S32: -0.1444 S33: -0.0327 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 177 A 308 REMARK 3 ORIGIN FOR THE GROUP (A): 0.6290 -8.8830 12.0700 REMARK 3 T TENSOR REMARK 3 T11: 0.0235 T22: 0.0080 REMARK 3 T33: 0.0522 T12: -0.0013 REMARK 3 T13: 0.0260 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 2.8283 L22: 0.7761 REMARK 3 L33: 0.6226 L12: 0.4090 REMARK 3 L13: 0.4909 L23: -0.0306 REMARK 3 S TENSOR REMARK 3 S11: 0.0201 S12: -0.1183 S13: -0.1529 REMARK 3 S21: 0.0883 S22: 0.0142 S23: 0.0242 REMARK 3 S31: 0.0220 S32: -0.0485 S33: -0.0342 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 309 A 317 REMARK 3 ORIGIN FOR THE GROUP (A): -2.2480 -13.1920 27.5270 REMARK 3 T TENSOR REMARK 3 T11: 0.6428 T22: 0.7973 REMARK 3 T33: 0.2897 T12: 0.2305 REMARK 3 T13: -0.0443 T23: -0.1657 REMARK 3 L TENSOR REMARK 3 L11: 4.0527 L22: 4.0561 REMARK 3 L33: 18.4261 L12: -0.8847 REMARK 3 L13: -7.6683 L23: 5.1870 REMARK 3 S TENSOR REMARK 3 S11: 0.5219 S12: -0.6526 S13: 0.2565 REMARK 3 S21: 0.8166 S22: -0.4221 S23: 0.1677 REMARK 3 S31: -0.6636 S32: 0.0858 S33: -0.0998 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3I6I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000054025. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8726 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : PT COATED MIRRORS IN A REMARK 200 KIRKPATRICK-BAEZ (KB) GEOMETRY REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28119 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 65.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07700 REMARK 200 FOR THE DATA SET : 6.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33900 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3I52 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM ACETATE 0.36M, PEG 4000 38%, REMARK 280 TRIS 100MM, NAN3 3MM, GLYCEROL 2.5%, PH 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K 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 25.11800 REMARK 290 SMTRY3 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 THR A 2 REMARK 465 VAL A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 VAL A 6 REMARK 465 PRO A 7 REMARK 465 SER A 8 REMARK 465 PRO A 9 REMARK 465 LYS A 10 REMARK 465 ILE A 171 REMARK 465 HIS A 172 REMARK 465 PRO A 173 REMARK 465 SER A 174 REMARK 465 GLU A 175 REMARK 465 MET A 318 REMARK 465 GLU A 319 REMARK 465 GLU A 320 REMARK 465 LYS A 321 REMARK 465 GLN A 322 REMARK 465 PRO A 323 REMARK 465 THR A 324 REMARK 465 ALA A 325 REMARK 465 ASP A 326 REMARK 465 SER A 327 REMARK 465 ALA A 328 REMARK 465 ILE A 329 REMARK 465 ALA A 330 REMARK 465 ASN A 331 REMARK 465 THR A 332 REMARK 465 GLY A 333 REMARK 465 PRO A 334 REMARK 465 VAL A 335 REMARK 465 VAL A 336 REMARK 465 GLY A 337 REMARK 465 MET A 338 REMARK 465 ARG A 339 REMARK 465 GLN A 340 REMARK 465 VAL A 341 REMARK 465 THR A 342 REMARK 465 ALA A 343 REMARK 465 THR A 344 REMARK 465 CYS A 345 REMARK 465 ALA A 346 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 GLN A 24 OE1 NE2 REMARK 470 PRO A 45 CG CD REMARK 470 LYS A 50 CG CD CE NZ REMARK 470 LYS A 52 CG CD CE NZ REMARK 470 LYS A 55 CB CG CD CE NZ REMARK 470 LYS A 77 CD CE NZ REMARK 470 LYS A 80 CE NZ REMARK 470 GLU A 81 CD OE1 OE2 REMARK 470 ASN A 170 CB CG OD1 ND2 REMARK 470 VAL A 176 CB CG1 CG2 REMARK 470 LEU A 177 CG CD1 CD2 REMARK 470 ILE A 230 CD1 REMARK 470 LYS A 239 CD CE NZ REMARK 470 ASP A 288 CG OD1 OD2 REMARK 470 GLU A 308 CD OE1 OE2 REMARK 470 GLU A 309 CD OE1 OE2 REMARK 470 ILE A 315 CG2 CD1 REMARK 470 LYS A 317 CG CD CE NZ 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 GLU A 119 -96.80 -103.50 REMARK 500 CYS A 158 74.82 -107.84 REMARK 500 ASN A 160 -147.31 66.85 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 NDP A 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 360 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3I52 RELATED DB: PDB REMARK 900 TERNARY COMPLEX STRUCTURE OF LEUCOANTHOCYANIDIN REDUCTASE REMARK 900 RELATED ID: 3I5M RELATED DB: PDB REMARK 900 STRUCTURE OF APO FORM OF LEUCOANTHOCYANIDIN REDUCTASE DBREF 3I6I A 1 346 UNP Q4W2K4 Q4W2K4_VITVI 1 346 SEQRES 1 A 346 MET THR VAL SER PRO VAL PRO SER PRO LYS GLY ARG VAL SEQRES 2 A 346 LEU ILE ALA GLY ALA THR GLY PHE ILE GLY GLN PHE VAL SEQRES 3 A 346 ALA THR ALA SER LEU ASP ALA HIS ARG PRO THR TYR ILE SEQRES 4 A 346 LEU ALA ARG PRO GLY PRO ARG SER PRO SER LYS ALA LYS SEQRES 5 A 346 ILE PHE LYS ALA LEU GLU ASP LYS GLY ALA ILE ILE VAL SEQRES 6 A 346 TYR GLY LEU ILE ASN GLU GLN GLU ALA MET GLU LYS ILE SEQRES 7 A 346 LEU LYS GLU HIS GLU ILE ASP ILE VAL VAL SER THR VAL SEQRES 8 A 346 GLY GLY GLU SER ILE LEU ASP GLN ILE ALA LEU VAL LYS SEQRES 9 A 346 ALA MET LYS ALA VAL GLY THR ILE LYS ARG PHE LEU PRO SEQRES 10 A 346 SER GLU PHE GLY HIS ASP VAL ASN ARG ALA ASP PRO VAL SEQRES 11 A 346 GLU PRO GLY LEU ASN MET TYR ARG GLU LYS ARG ARG VAL SEQRES 12 A 346 ARG GLN LEU VAL GLU GLU SER GLY ILE PRO PHE THR TYR SEQRES 13 A 346 ILE CYS CYS ASN SER ILE ALA SER TRP PRO TYR TYR ASN SEQRES 14 A 346 ASN ILE HIS PRO SER GLU VAL LEU PRO PRO THR ASP PHE SEQRES 15 A 346 PHE GLN ILE TYR GLY ASP GLY ASN VAL LYS ALA TYR PHE SEQRES 16 A 346 VAL ALA GLY THR ASP ILE GLY LYS PHE THR MET LYS THR SEQRES 17 A 346 VAL ASP ASP VAL ARG THR LEU ASN LYS SER VAL HIS PHE SEQRES 18 A 346 ARG PRO SER CYS ASN CYS LEU ASN ILE ASN GLU LEU ALA SEQRES 19 A 346 SER VAL TRP GLU LYS LYS ILE GLY ARG THR LEU PRO ARG SEQRES 20 A 346 VAL THR VAL THR GLU ASP ASP LEU LEU ALA ALA ALA GLY SEQRES 21 A 346 GLU ASN ILE ILE PRO GLN SER VAL VAL ALA ALA PHE THR SEQRES 22 A 346 HIS ASP ILE PHE ILE LYS GLY CYS GLN VAL ASN PHE SER SEQRES 23 A 346 ILE ASP GLY PRO GLU ASP VAL GLU VAL THR THR LEU TYR SEQRES 24 A 346 PRO GLU ASP SER PHE ARG THR VAL GLU GLU CYS PHE GLY SEQRES 25 A 346 GLU TYR ILE VAL LYS MET GLU GLU LYS GLN PRO THR ALA SEQRES 26 A 346 ASP SER ALA ILE ALA ASN THR GLY PRO VAL VAL GLY MET SEQRES 27 A 346 ARG GLN VAL THR ALA THR CYS ALA HET NDP A 350 48 HET ACY A 360 4 HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE HETNAM ACY ACETIC ACID FORMUL 2 NDP C21 H30 N7 O17 P3 FORMUL 3 ACY C2 H4 O2 FORMUL 4 HOH *240(H2 O) HELIX 1 1 GLY A 20 ALA A 33 1 14 HELIX 2 2 SER A 47 LYS A 60 1 14 HELIX 3 3 GLU A 71 HIS A 82 1 12 HELIX 4 4 GLY A 92 LEU A 97 5 6 HELIX 5 5 ASP A 98 GLY A 110 1 13 HELIX 6 6 PRO A 132 SER A 150 1 19 HELIX 7 7 ALA A 197 VAL A 209 1 13 HELIX 8 8 ASP A 210 LEU A 215 5 6 HELIX 9 9 PRO A 223 CYS A 225 5 3 HELIX 10 10 ASN A 229 GLY A 242 1 14 HELIX 11 11 THR A 251 GLU A 261 1 11 HELIX 12 12 PRO A 265 ILE A 278 1 14 HELIX 13 13 VAL A 295 TYR A 299 1 5 HELIX 14 14 THR A 306 VAL A 316 1 11 SHEET 1 A 5 ILE A 63 TYR A 66 0 SHEET 2 A 5 THR A 37 ALA A 41 1 N ALA A 41 O VAL A 65 SHEET 3 A 5 VAL A 13 ALA A 16 1 N VAL A 13 O TYR A 38 SHEET 4 A 5 ILE A 86 SER A 89 1 O VAL A 88 N LEU A 14 SHEET 5 A 5 ARG A 114 LEU A 116 1 O LEU A 116 N SER A 89 SHEET 1 B 3 THR A 155 CYS A 158 0 SHEET 2 B 3 LYS A 217 HIS A 220 1 O VAL A 219 N TYR A 156 SHEET 3 B 3 ASP A 292 GLU A 294 1 O VAL A 293 N HIS A 220 SHEET 1 C 3 SER A 161 ILE A 162 0 SHEET 2 C 3 ALA A 193 VAL A 196 1 O VAL A 196 N SER A 161 SHEET 3 C 3 CYS A 227 LEU A 228 -1 O LEU A 228 N ALA A 193 SHEET 1 D 2 PHE A 183 TYR A 186 0 SHEET 2 D 2 ARG A 247 VAL A 250 1 O VAL A 250 N ILE A 185 CISPEP 1 GLU A 131 PRO A 132 0 -0.82 CISPEP 2 ILE A 264 PRO A 265 0 4.93 SITE 1 AC1 27 GLY A 17 THR A 19 GLY A 20 PHE A 21 SITE 2 AC1 27 ILE A 22 ARG A 42 LEU A 68 ILE A 69 SITE 3 AC1 27 ASN A 70 THR A 90 VAL A 91 GLY A 92 SITE 4 AC1 27 SER A 95 ASP A 98 SER A 118 GLU A 119 SITE 5 AC1 27 PHE A 120 LYS A 140 ASN A 160 ILE A 162 SITE 6 AC1 27 ACY A 360 HOH A 361 HOH A 416 HOH A 445 SITE 7 AC1 27 HOH A 459 HOH A 581 HOH A 640 SITE 1 AC2 6 GLY A 121 HIS A 122 TYR A 137 PHE A 272 SITE 2 AC2 6 NDP A 350 HOH A 364 CRYST1 45.079 50.236 67.424 90.00 103.56 90.00 P 1 21 1 2 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 0.022183 0.000000 0.005351 0.00000 SCALE2 0.000000 0.019906 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015257 0.00000