HEADER OXIDOREDUCTASE 08-DEC-17 5YY7 TITLE CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA HPPD COMPLEXED WITH TITLE 2 BENQUITRIONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 4-HYDROXYPHENYLPYRUVIC ACID OXIDASE,HPPDASE; COMPND 5 EC: 1.13.11.27; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: HPD, PDS1, AT1G06570, F12K11.9; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD(DE3)PLYSS AG KEYWDS 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE, TYPE 1 TYROSINEMIA, DRUG KEYWDS 2 DISCOVERY, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.C.YANG,J.N.CHEN,G.F.YANG REVDAT 2 30-OCT-24 5YY7 1 LINK REVDAT 1 16-JAN-19 5YY7 0 JRNL AUTH W.C.YANG,J.N.CHEN,G.F.YANG JRNL TITL CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA HPPD COMPLEXED JRNL TITL 2 WITH BENQUITRIONE (Y13161) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 13347 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.273 REMARK 3 R VALUE (WORKING SET) : 0.271 REMARK 3 FREE R VALUE : 0.306 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 648 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.4689 - 5.6362 1.00 2695 138 0.2910 0.3007 REMARK 3 2 5.6362 - 4.4747 1.00 2535 140 0.2571 0.2604 REMARK 3 3 4.4747 - 3.9094 1.00 2529 128 0.2477 0.3102 REMARK 3 4 3.9094 - 3.5521 1.00 2497 120 0.2734 0.3472 REMARK 3 5 3.5521 - 3.2976 0.99 2443 122 0.2900 0.3718 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.470 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.620 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 5809 REMARK 3 ANGLE : 0.414 7877 REMARK 3 CHIRALITY : 0.041 859 REMARK 3 PLANARITY : 0.003 1028 REMARK 3 DIHEDRAL : 11.217 3415 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5YY7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-DEC-17. REMARK 100 THE DEPOSITION ID IS D_1300006022. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97780 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13347 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.298 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 400, SODIUM CHLORIDE, SODIUM REMARK 280 ACETATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.16K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 92.51550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 47.46400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 47.46400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.25775 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 47.46400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 47.46400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 138.77325 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 47.46400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.46400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 46.25775 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 47.46400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.46400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 138.77325 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 92.51550 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A -20 REMARK 465 GLY A -19 REMARK 465 HIS A -18 REMARK 465 GLN A -17 REMARK 465 ASN A -16 REMARK 465 ALA A -15 REMARK 465 ALA A -14 REMARK 465 VAL A -13 REMARK 465 SER A -12 REMARK 465 GLU A -11 REMARK 465 ASN A -10 REMARK 465 GLN A -9 REMARK 465 ASN A -8 REMARK 465 HIS A -7 REMARK 465 ASP A -6 REMARK 465 ASP A -5 REMARK 465 GLY A -4 REMARK 465 ALA A -3 REMARK 465 ALA A -2 REMARK 465 SER A -1 REMARK 465 SER A 0 REMARK 465 PRO A 1 REMARK 465 GLY A 2 REMARK 465 PHE A 3 REMARK 465 LYS A 4 REMARK 465 LEU A 5 REMARK 465 VAL A 6 REMARK 465 GLY A 7 REMARK 465 PHE A 8 REMARK 465 SER A 9 REMARK 465 LYS A 10 REMARK 465 PHE A 11 REMARK 465 VAL A 12 REMARK 465 ARG A 13 REMARK 465 LYS A 14 REMARK 465 ALA A 173 REMARK 465 GLU A 174 REMARK 465 ASP A 175 REMARK 465 THR A 176 REMARK 465 GLU A 177 REMARK 465 LYS A 178 REMARK 465 SER A 179 REMARK 465 SER A 193 REMARK 465 PHE A 194 REMARK 465 GLU A 231 REMARK 465 PHE A 232 REMARK 465 THR A 233 REMARK 465 ALA A 234 REMARK 465 ASP A 235 REMARK 465 ASP A 236 REMARK 465 VAL A 237 REMARK 465 GLY A 238 REMARK 465 THR A 239 REMARK 465 ALA A 240 REMARK 465 GLU A 241 REMARK 465 GLY A 266 REMARK 465 THR A 267 REMARK 465 LYS A 268 REMARK 465 ARG A 269 REMARK 465 GLU A 386 REMARK 465 GLY A 387 REMARK 465 LYS A 388 REMARK 465 SER A 409 REMARK 465 ILE A 410 REMARK 465 GLU A 411 REMARK 465 GLU A 412 REMARK 465 TYR A 413 REMARK 465 GLU A 414 REMARK 465 LYS A 415 REMARK 465 THR A 416 REMARK 465 LEU A 417 REMARK 465 GLU A 418 REMARK 465 ALA A 419 REMARK 465 LYS A 420 REMARK 465 GLN A 421 REMARK 465 LEU A 422 REMARK 465 VAL A 423 REMARK 465 GLY A 424 REMARK 465 MET B -20 REMARK 465 GLY B -19 REMARK 465 HIS B -18 REMARK 465 GLN B -17 REMARK 465 ASN B -16 REMARK 465 ALA B -15 REMARK 465 ALA B -14 REMARK 465 VAL B -13 REMARK 465 SER B -12 REMARK 465 GLU B -11 REMARK 465 ASN B -10 REMARK 465 GLN B -9 REMARK 465 ASN B -8 REMARK 465 HIS B -7 REMARK 465 ASP B -6 REMARK 465 ASP B -5 REMARK 465 GLY B -4 REMARK 465 ALA B -3 REMARK 465 ALA B -2 REMARK 465 SER B -1 REMARK 465 SER B 0 REMARK 465 PRO B 1 REMARK 465 GLY B 2 REMARK 465 PHE B 3 REMARK 465 LYS B 4 REMARK 465 LEU B 5 REMARK 465 VAL B 6 REMARK 465 GLY B 7 REMARK 465 PHE B 8 REMARK 465 SER B 9 REMARK 465 LYS B 10 REMARK 465 PHE B 11 REMARK 465 VAL B 12 REMARK 465 ASP B 175 REMARK 465 THR B 176 REMARK 465 GLU B 177 REMARK 465 LYS B 178 REMARK 465 SER B 179 REMARK 465 ALA B 191 REMARK 465 SER B 192 REMARK 465 PHE B 232 REMARK 465 THR B 233 REMARK 465 ALA B 234 REMARK 465 ASP B 235 REMARK 465 ASP B 236 REMARK 465 VAL B 237 REMARK 465 GLY B 238 REMARK 465 THR B 239 REMARK 465 ALA B 240 REMARK 465 THR B 267 REMARK 465 LYS B 268 REMARK 465 ARG B 269 REMARK 465 GLY B 387 REMARK 465 LYS B 388 REMARK 465 ALA B 389 REMARK 465 TYR B 390 REMARK 465 SER B 409 REMARK 465 ILE B 410 REMARK 465 GLU B 411 REMARK 465 GLU B 412 REMARK 465 TYR B 413 REMARK 465 GLU B 414 REMARK 465 LYS B 415 REMARK 465 THR B 416 REMARK 465 LEU B 417 REMARK 465 GLU B 418 REMARK 465 ALA B 419 REMARK 465 LYS B 420 REMARK 465 GLN B 421 REMARK 465 LEU B 422 REMARK 465 VAL B 423 REMARK 465 GLY B 424 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 A 22 CG CD CE NZ REMARK 470 LYS A 24 CG CD CE NZ REMARK 470 ARG A 25 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 50 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 75 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 91 CG1 CG2 CD1 REMARK 470 LYS A 92 CG CD CE NZ REMARK 470 ARG A 108 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 189 CG CD OE1 OE2 REMARK 470 LYS A 326 CG CD CE NZ REMARK 470 LYS A 327 CG CD CE NZ REMARK 470 ASP A 352 CG OD1 OD2 REMARK 470 GLN A 353 CG CD OE1 NE2 REMARK 470 PHE A 407 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 13 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 20 CG CD CE NZ REMARK 470 LYS B 92 CG CD CE NZ REMARK 470 GLU B 151 CG CD OE1 OE2 REMARK 470 LYS B 159 CG CD CE NZ REMARK 470 GLU B 180 CG CD OE1 OE2 REMARK 470 GLU B 189 CG CD OE1 OE2 REMARK 470 LYS B 270 CG CD CE NZ REMARK 470 LYS B 327 CG CD CE NZ REMARK 470 LYS B 339 CG CD CE NZ REMARK 470 GLU B 342 CG CD OE1 OE2 REMARK 470 GLN B 353 CG CD OE1 NE2 REMARK 470 LYS B 400 CG CD CE NZ REMARK 470 GLU B 405 CG CD OE1 OE2 REMARK 470 LEU B 406 CG CD1 CD2 REMARK 470 PHE B 407 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 408 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O11 94L A 502 O HOH A 601 2.12 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 LYS A 17 71.57 54.46 REMARK 500 LYS A 24 -84.46 -77.47 REMARK 500 HIS A 27 -77.11 -104.10 REMARK 500 SER A 52 -71.55 -88.08 REMARK 500 SER A 55 88.85 -158.67 REMARK 500 ASP A 56 -158.15 -135.12 REMARK 500 SER A 87 42.00 -100.60 REMARK 500 ALA A 152 -34.80 -139.41 REMARK 500 LEU A 160 -84.85 -98.35 REMARK 500 ASP A 351 -141.07 -125.24 REMARK 500 THR A 369 -91.10 -109.07 REMARK 500 CYS A 380 18.92 58.57 REMARK 500 GLN A 391 -160.29 -104.75 REMARK 500 SER A 392 -159.18 -102.72 REMARK 500 SER B 18 44.91 -101.23 REMARK 500 LYS B 24 -74.74 -84.20 REMARK 500 HIS B 27 -86.03 -118.16 REMARK 500 SER B 55 88.16 -153.82 REMARK 500 ASP B 56 -152.59 -140.72 REMARK 500 SER B 87 67.22 -114.02 REMARK 500 THR B 94 43.84 -90.21 REMARK 500 SER B 144 118.90 -161.93 REMARK 500 ALA B 152 -49.11 -141.63 REMARK 500 LEU B 160 -108.61 -90.16 REMARK 500 PHE B 181 -149.66 -83.49 REMARK 500 ASP B 204 -70.04 -87.92 REMARK 500 ALA B 230 105.19 -160.50 REMARK 500 ALA B 247 102.71 -162.74 REMARK 500 GLU B 254 14.47 59.56 REMARK 500 GLN B 286 -76.60 -70.82 REMARK 500 PRO B 368 76.80 -68.14 REMARK 500 THR B 369 -77.97 -122.87 REMARK 500 CYS B 380 73.76 38.73 REMARK 500 MET B 382 -142.47 -150.64 REMARK 500 PHE B 398 13.14 -140.74 REMARK 500 GLU B 405 -80.33 -63.58 REMARK 500 PHE B 407 -177.64 -171.72 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 CO A 501 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 205 NE2 REMARK 620 2 HIS A 287 NE2 100.6 REMARK 620 3 GLU A 373 OE1 88.7 79.5 REMARK 620 4 94L A 502 O8 103.3 94.0 167.3 REMARK 620 5 94L A 502 O11 135.9 123.5 97.9 76.6 REMARK 620 6 HOH A 601 O 83.3 168.2 89.6 96.0 53.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO B 501 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 205 NE2 REMARK 620 2 HIS B 287 NE2 101.3 REMARK 620 3 GLU B 373 OE2 108.6 79.7 REMARK 620 4 94L B 502 O8 90.1 130.1 141.9 REMARK 620 5 94L B 502 O11 157.2 101.3 79.1 72.5 REMARK 620 6 HOH B 601 O 93.1 148.2 68.9 77.5 69.2 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 CO A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 94L A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 94L B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DHW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA HPPD COMPLEXED WITH REMARK 900 SULCOTRIONE DBREF 5YY7 A -20 424 UNP P93836 HPPD_ARATH 1 445 DBREF 5YY7 B -20 424 UNP P93836 HPPD_ARATH 1 445 SEQRES 1 A 445 MET GLY HIS GLN ASN ALA ALA VAL SER GLU ASN GLN ASN SEQRES 2 A 445 HIS ASP ASP GLY ALA ALA SER SER PRO GLY PHE LYS LEU SEQRES 3 A 445 VAL GLY PHE SER LYS PHE VAL ARG LYS ASN PRO LYS SER SEQRES 4 A 445 ASP LYS PHE LYS VAL LYS ARG PHE HIS HIS ILE GLU PHE SEQRES 5 A 445 TRP CYS GLY ASP ALA THR ASN VAL ALA ARG ARG PHE SER SEQRES 6 A 445 TRP GLY LEU GLY MET ARG PHE SER ALA LYS SER ASP LEU SEQRES 7 A 445 SER THR GLY ASN MET VAL HIS ALA SER TYR LEU LEU THR SEQRES 8 A 445 SER GLY ASP LEU ARG PHE LEU PHE THR ALA PRO TYR SER SEQRES 9 A 445 PRO SER LEU SER ALA GLY GLU ILE LYS PRO THR THR THR SEQRES 10 A 445 ALA SER ILE PRO SER PHE ASP HIS GLY SER CYS ARG SER SEQRES 11 A 445 PHE PHE SER SER HIS GLY LEU GLY VAL ARG ALA VAL ALA SEQRES 12 A 445 ILE GLU VAL GLU ASP ALA GLU SER ALA PHE SER ILE SER SEQRES 13 A 445 VAL ALA ASN GLY ALA ILE PRO SER SER PRO PRO ILE VAL SEQRES 14 A 445 LEU ASN GLU ALA VAL THR ILE ALA GLU VAL LYS LEU TYR SEQRES 15 A 445 GLY ASP VAL VAL LEU ARG TYR VAL SER TYR LYS ALA GLU SEQRES 16 A 445 ASP THR GLU LYS SER GLU PHE LEU PRO GLY PHE GLU ARG SEQRES 17 A 445 VAL GLU ASP ALA SER SER PHE PRO LEU ASP TYR GLY ILE SEQRES 18 A 445 ARG ARG LEU ASP HIS ALA VAL GLY ASN VAL PRO GLU LEU SEQRES 19 A 445 GLY PRO ALA LEU THR TYR VAL ALA GLY PHE THR GLY PHE SEQRES 20 A 445 HIS GLN PHE ALA GLU PHE THR ALA ASP ASP VAL GLY THR SEQRES 21 A 445 ALA GLU SER GLY LEU ASN SER ALA VAL LEU ALA SER ASN SEQRES 22 A 445 ASP GLU MET VAL LEU LEU PRO ILE ASN GLU PRO VAL HIS SEQRES 23 A 445 GLY THR LYS ARG LYS SER GLN ILE GLN THR TYR LEU GLU SEQRES 24 A 445 HIS ASN GLU GLY ALA GLY LEU GLN HIS LEU ALA LEU MET SEQRES 25 A 445 SER GLU ASP ILE PHE ARG THR LEU ARG GLU MET ARG LYS SEQRES 26 A 445 ARG SER SER ILE GLY GLY PHE ASP PHE MET PRO SER PRO SEQRES 27 A 445 PRO PRO THR TYR TYR GLN ASN LEU LYS LYS ARG VAL GLY SEQRES 28 A 445 ASP VAL LEU SER ASP ASP GLN ILE LYS GLU CYS GLU GLU SEQRES 29 A 445 LEU GLY ILE LEU VAL ASP ARG ASP ASP GLN GLY THR LEU SEQRES 30 A 445 LEU GLN ILE PHE THR LYS PRO LEU GLY ASP ARG PRO THR SEQRES 31 A 445 ILE PHE ILE GLU ILE ILE GLN ARG VAL GLY CYS MET MET SEQRES 32 A 445 LYS ASP GLU GLU GLY LYS ALA TYR GLN SER GLY GLY CYS SEQRES 33 A 445 GLY GLY PHE GLY LYS GLY ASN PHE SER GLU LEU PHE LYS SEQRES 34 A 445 SER ILE GLU GLU TYR GLU LYS THR LEU GLU ALA LYS GLN SEQRES 35 A 445 LEU VAL GLY SEQRES 1 B 445 MET GLY HIS GLN ASN ALA ALA VAL SER GLU ASN GLN ASN SEQRES 2 B 445 HIS ASP ASP GLY ALA ALA SER SER PRO GLY PHE LYS LEU SEQRES 3 B 445 VAL GLY PHE SER LYS PHE VAL ARG LYS ASN PRO LYS SER SEQRES 4 B 445 ASP LYS PHE LYS VAL LYS ARG PHE HIS HIS ILE GLU PHE SEQRES 5 B 445 TRP CYS GLY ASP ALA THR ASN VAL ALA ARG ARG PHE SER SEQRES 6 B 445 TRP GLY LEU GLY MET ARG PHE SER ALA LYS SER ASP LEU SEQRES 7 B 445 SER THR GLY ASN MET VAL HIS ALA SER TYR LEU LEU THR SEQRES 8 B 445 SER GLY ASP LEU ARG PHE LEU PHE THR ALA PRO TYR SER SEQRES 9 B 445 PRO SER LEU SER ALA GLY GLU ILE LYS PRO THR THR THR SEQRES 10 B 445 ALA SER ILE PRO SER PHE ASP HIS GLY SER CYS ARG SER SEQRES 11 B 445 PHE PHE SER SER HIS GLY LEU GLY VAL ARG ALA VAL ALA SEQRES 12 B 445 ILE GLU VAL GLU ASP ALA GLU SER ALA PHE SER ILE SER SEQRES 13 B 445 VAL ALA ASN GLY ALA ILE PRO SER SER PRO PRO ILE VAL SEQRES 14 B 445 LEU ASN GLU ALA VAL THR ILE ALA GLU VAL LYS LEU TYR SEQRES 15 B 445 GLY ASP VAL VAL LEU ARG TYR VAL SER TYR LYS ALA GLU SEQRES 16 B 445 ASP THR GLU LYS SER GLU PHE LEU PRO GLY PHE GLU ARG SEQRES 17 B 445 VAL GLU ASP ALA SER SER PHE PRO LEU ASP TYR GLY ILE SEQRES 18 B 445 ARG ARG LEU ASP HIS ALA VAL GLY ASN VAL PRO GLU LEU SEQRES 19 B 445 GLY PRO ALA LEU THR TYR VAL ALA GLY PHE THR GLY PHE SEQRES 20 B 445 HIS GLN PHE ALA GLU PHE THR ALA ASP ASP VAL GLY THR SEQRES 21 B 445 ALA GLU SER GLY LEU ASN SER ALA VAL LEU ALA SER ASN SEQRES 22 B 445 ASP GLU MET VAL LEU LEU PRO ILE ASN GLU PRO VAL HIS SEQRES 23 B 445 GLY THR LYS ARG LYS SER GLN ILE GLN THR TYR LEU GLU SEQRES 24 B 445 HIS ASN GLU GLY ALA GLY LEU GLN HIS LEU ALA LEU MET SEQRES 25 B 445 SER GLU ASP ILE PHE ARG THR LEU ARG GLU MET ARG LYS SEQRES 26 B 445 ARG SER SER ILE GLY GLY PHE ASP PHE MET PRO SER PRO SEQRES 27 B 445 PRO PRO THR TYR TYR GLN ASN LEU LYS LYS ARG VAL GLY SEQRES 28 B 445 ASP VAL LEU SER ASP ASP GLN ILE LYS GLU CYS GLU GLU SEQRES 29 B 445 LEU GLY ILE LEU VAL ASP ARG ASP ASP GLN GLY THR LEU SEQRES 30 B 445 LEU GLN ILE PHE THR LYS PRO LEU GLY ASP ARG PRO THR SEQRES 31 B 445 ILE PHE ILE GLU ILE ILE GLN ARG VAL GLY CYS MET MET SEQRES 32 B 445 LYS ASP GLU GLU GLY LYS ALA TYR GLN SER GLY GLY CYS SEQRES 33 B 445 GLY GLY PHE GLY LYS GLY ASN PHE SER GLU LEU PHE LYS SEQRES 34 B 445 SER ILE GLU GLU TYR GLU LYS THR LEU GLU ALA LYS GLN SEQRES 35 B 445 LEU VAL GLY HET CO A 501 1 HET 94L A 502 31 HET CO B 501 1 HET 94L B 502 31 HETNAM CO COBALT (II) ION HETNAM 94L 3-(2,6-DIMETHYLPHENYL)-1-METHYL-6-(2-OXIDANYL-6- HETNAM 2 94L OXIDANYLIDENE-CYCLOHEXEN-1-YL)CARBONYL-QUINAZOLINE-2, HETNAM 3 94L 4-DIONE FORMUL 3 CO 2(CO 2+) FORMUL 4 94L 2(C24 H22 N2 O5) FORMUL 7 HOH *2(H2 O) HELIX 1 AA1 ASP A 35 GLY A 48 1 14 HELIX 2 AA2 ASP A 103 HIS A 114 1 12 HELIX 3 AA3 ASP A 127 ALA A 137 1 11 HELIX 4 AA4 GLU A 212 GLY A 225 1 14 HELIX 5 AA5 SER A 271 GLU A 281 1 11 HELIX 6 AA6 ASP A 294 ARG A 303 1 10 HELIX 7 AA7 LYS A 304 SER A 306 5 3 HELIX 8 AA8 PRO A 318 VAL A 329 1 12 HELIX 9 AA9 SER A 334 GLU A 343 1 10 HELIX 10 AB1 GLY A 401 LEU A 406 1 6 HELIX 11 AB2 ASP B 35 LEU B 47 1 13 HELIX 12 AB3 ASP B 103 HIS B 114 1 12 HELIX 13 AB4 ASP B 127 ALA B 137 1 11 HELIX 14 AB5 LEU B 213 GLY B 225 1 13 HELIX 15 AB6 SER B 271 ASN B 280 1 10 HELIX 16 AB7 ASP B 294 SER B 306 1 13 HELIX 17 AB8 PRO B 318 GLN B 323 5 6 HELIX 18 AB9 ASN B 324 VAL B 329 1 6 HELIX 19 AC1 SER B 334 GLY B 345 1 12 HELIX 20 AC2 GLY B 399 SER B 404 5 6 SHEET 1 AA1 9 PRO A 142 LEU A 149 0 SHEET 2 AA1 9 VAL A 153 LYS A 159 -1 O VAL A 153 N LEU A 149 SHEET 3 AA1 9 VAL A 165 TYR A 171 -1 O LEU A 166 N VAL A 158 SHEET 4 AA1 9 GLY A 117 GLU A 124 1 N ARG A 119 O VAL A 165 SHEET 5 AA1 9 ARG A 25 TRP A 32 -1 N GLU A 30 O ARG A 119 SHEET 6 AA1 9 LEU A 74 THR A 79 1 O LEU A 77 N PHE A 31 SHEET 7 AA1 9 SER A 66 SER A 71 -1 N LEU A 69 O PHE A 76 SHEET 8 AA1 9 ARG A 50 SER A 55 -1 N ARG A 50 O THR A 70 SHEET 9 AA1 9 GLU A 186 ARG A 187 -1 O GLU A 186 N LYS A 54 SHEET 1 AA2 6 ILE A 200 LEU A 203 0 SHEET 2 AA2 6 GLY A 284 SER A 292 -1 O MET A 291 N ARG A 201 SHEET 3 AA2 6 VAL A 207 ASN A 209 -1 N ASN A 209 O GLY A 284 SHEET 4 AA2 6 LEU A 257 PRO A 263 1 O ASN A 261 N GLY A 208 SHEET 5 AA2 6 LEU A 244 ALA A 250 -1 N LEU A 249 O LEU A 258 SHEET 6 AA2 6 HIS A 227 PHE A 229 -1 N PHE A 229 O VAL A 248 SHEET 1 AA3 5 ILE A 200 LEU A 203 0 SHEET 2 AA3 5 GLY A 284 SER A 292 -1 O MET A 291 N ARG A 201 SHEET 3 AA3 5 PHE A 371 VAL A 378 1 O GLU A 373 N LEU A 290 SHEET 4 AA3 5 THR A 355 PHE A 360 -1 N THR A 355 O VAL A 378 SHEET 5 AA3 5 LEU A 347 ARG A 350 -1 N LEU A 347 O GLN A 358 SHEET 1 AA4 9 PRO B 142 LEU B 149 0 SHEET 2 AA4 9 VAL B 153 LYS B 159 -1 O VAL B 153 N LEU B 149 SHEET 3 AA4 9 VAL B 165 TYR B 171 -1 O LEU B 166 N VAL B 158 SHEET 4 AA4 9 VAL B 118 VAL B 125 1 N VAL B 125 O VAL B 169 SHEET 5 AA4 9 VAL B 23 TRP B 32 -1 N GLU B 30 O ARG B 119 SHEET 6 AA4 9 LEU B 74 PRO B 81 1 O LEU B 77 N PHE B 31 SHEET 7 AA4 9 HIS B 64 SER B 71 -1 N ALA B 65 O ALA B 80 SHEET 8 AA4 9 PHE B 51 SER B 55 -1 N ALA B 53 O LEU B 68 SHEET 9 AA4 9 GLU B 186 ARG B 187 -1 O GLU B 186 N LYS B 54 SHEET 1 AA5 7 ASN B 245 ALA B 247 0 SHEET 2 AA5 7 ILE B 260 GLU B 262 -1 O ILE B 260 N ALA B 247 SHEET 3 AA5 7 ILE B 200 ASN B 209 1 N GLY B 208 O ASN B 261 SHEET 4 AA5 7 GLY B 284 SER B 292 -1 O ALA B 289 N ASP B 204 SHEET 5 AA5 7 PHE B 371 VAL B 378 1 O GLU B 373 N LEU B 288 SHEET 6 AA5 7 THR B 355 PHE B 360 -1 N ILE B 359 O ILE B 374 SHEET 7 AA5 7 LEU B 347 ARG B 350 -1 N LEU B 347 O GLN B 358 SHEET 1 AA6 2 HIS B 227 GLN B 228 0 SHEET 2 AA6 2 LEU B 249 ALA B 250 -1 O ALA B 250 N HIS B 227 SSBOND 1 CYS A 380 CYS A 395 1555 1555 2.03 SSBOND 2 CYS B 380 CYS B 395 1555 1555 2.03 LINK NE2 HIS A 205 CO CO A 501 1555 1555 2.40 LINK NE2 HIS A 287 CO CO A 501 1555 1555 2.37 LINK OE1 GLU A 373 CO CO A 501 1555 1555 2.16 LINK CO CO A 501 O8 94L A 502 1555 1555 2.00 LINK CO CO A 501 O11 94L A 502 1555 1555 2.40 LINK CO CO A 501 O HOH A 601 1555 1555 2.32 LINK NE2 HIS B 205 CO CO B 501 1555 1555 2.08 LINK NE2 HIS B 287 CO CO B 501 1555 1555 2.36 LINK OE2 GLU B 373 CO CO B 501 1555 1555 2.24 LINK CO CO B 501 O8 94L B 502 1555 1555 2.34 LINK CO CO B 501 O11 94L B 502 1555 1555 2.22 LINK CO CO B 501 O HOH B 601 1555 1555 2.34 SITE 1 AC1 5 HIS A 205 HIS A 287 GLU A 373 94L A 502 SITE 2 AC1 5 HOH A 601 SITE 1 AC2 13 HIS A 205 VAL A 207 SER A 246 HIS A 287 SITE 2 AC2 13 PHE A 360 GLU A 373 PHE A 398 GLY A 399 SITE 3 AC2 13 LYS A 400 PHE A 403 LEU A 406 CO A 501 SITE 4 AC2 13 HOH A 601 SITE 1 AC3 5 HIS B 205 HIS B 287 GLU B 373 94L B 502 SITE 2 AC3 5 HOH B 601 SITE 1 AC4 17 HIS B 205 LEU B 244 SER B 246 PRO B 259 SITE 2 AC4 17 ASN B 261 GLN B 272 HIS B 287 GLN B 358 SITE 3 AC4 17 PHE B 360 GLU B 373 PHE B 398 GLY B 399 SITE 4 AC4 17 ASN B 402 PHE B 403 LYS B 408 CO B 501 SITE 5 AC4 17 HOH B 601 CRYST1 94.928 94.928 185.031 90.00 90.00 90.00 P 41 21 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 0.010534 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010534 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005404 0.00000