HEADER OXIDOREDUCTASE 29-NOV-17 5YWH TITLE CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA HPPD COMPLEXED WITH Y13508 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,H.Y.LIN REVDAT 2 22-NOV-23 5YWH 1 LINK REVDAT 1 16-JAN-19 5YWH 0 JRNL AUTH W.C.YANG,H.Y.LIN JRNL TITL CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA HPPD COMPLEXED JRNL TITL 2 WITH Y13508 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.72 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.13_2998: ???) 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) : 2.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 25183 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.120 REMARK 3 FREE R VALUE TEST SET COUNT : 1289 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 29.4950 - 5.6457 0.99 2843 150 0.2610 0.2928 REMARK 3 2 5.6457 - 4.4863 0.99 2704 148 0.2239 0.3172 REMARK 3 3 4.4863 - 3.9206 0.99 2666 128 0.2122 0.2833 REMARK 3 4 3.9206 - 3.5628 1.00 2635 140 0.2234 0.2693 REMARK 3 5 3.5628 - 3.3078 1.00 2623 154 0.2393 0.2597 REMARK 3 6 3.3078 - 3.1130 1.00 2645 140 0.2532 0.2774 REMARK 3 7 3.1130 - 2.9573 0.99 2606 140 0.2622 0.3595 REMARK 3 8 2.9573 - 2.8287 1.00 2589 152 0.2618 0.3258 REMARK 3 9 2.8287 - 2.7198 0.99 2583 137 0.2744 0.3381 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) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.640 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 : 0.007 5969 REMARK 3 ANGLE : 0.625 8063 REMARK 3 CHIRALITY : 0.128 869 REMARK 3 PLANARITY : 0.004 1041 REMARK 3 DIHEDRAL : 17.395 2210 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 5YWH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-DEC-17. REMARK 100 THE DEPOSITION ID IS D_1300005983. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-15 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 : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25324 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.720 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : 0.12800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 8.10 REMARK 200 R MERGE FOR SHELL (I) : 0.50900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1TFZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NAAC PH4.5, 33% PEG 400, 0.1M REMARK 280 NACL, 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 98.29750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 47.87250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 47.87250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.14875 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 47.87250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 47.87250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 147.44625 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 47.87250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.87250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 49.14875 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 47.87250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.87250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 147.44625 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 98.29750 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: 3140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 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 1 REMARK 465 GLY A 2 REMARK 465 HIS A 3 REMARK 465 GLN A 4 REMARK 465 ASN A 5 REMARK 465 ALA A 6 REMARK 465 ALA A 7 REMARK 465 VAL A 8 REMARK 465 SER A 9 REMARK 465 GLU A 10 REMARK 465 ASN A 11 REMARK 465 GLN A 12 REMARK 465 ASN A 13 REMARK 465 HIS A 14 REMARK 465 ASP A 15 REMARK 465 ASP A 16 REMARK 465 GLY A 17 REMARK 465 ALA A 18 REMARK 465 ALA A 19 REMARK 465 SER A 20 REMARK 465 SER A 21 REMARK 465 PRO A 22 REMARK 465 GLY A 23 REMARK 465 PHE A 24 REMARK 465 LYS A 25 REMARK 465 LEU A 26 REMARK 465 VAL A 27 REMARK 465 GLY A 28 REMARK 465 ALA A 109 REMARK 465 GLY A 110 REMARK 465 GLU A 111 REMARK 465 ILE A 112 REMARK 465 LYS A 113 REMARK 465 PRO A 114 REMARK 465 THR A 115 REMARK 465 GLU A 195 REMARK 465 ASP A 196 REMARK 465 THR A 197 REMARK 465 GLU A 198 REMARK 465 LYS A 199 REMARK 465 SER A 200 REMARK 465 GLU A 201 REMARK 465 THR A 254 REMARK 465 ALA A 255 REMARK 465 ASP A 256 REMARK 465 ASP A 257 REMARK 465 VAL A 258 REMARK 465 GLY A 259 REMARK 465 THR A 260 REMARK 465 ALA A 261 REMARK 465 GLU A 262 REMARK 465 THR A 288 REMARK 465 LYS A 289 REMARK 465 ARG A 290 REMARK 465 LYS A 404 REMARK 465 ASP A 405 REMARK 465 GLU A 406 REMARK 465 GLU A 407 REMARK 465 GLY A 408 REMARK 465 LYS A 409 REMARK 465 ALA A 410 REMARK 465 TYR A 411 REMARK 465 GLU A 435 REMARK 465 LYS A 436 REMARK 465 THR A 437 REMARK 465 LEU A 438 REMARK 465 GLU A 439 REMARK 465 ALA A 440 REMARK 465 LYS A 441 REMARK 465 GLN A 442 REMARK 465 LEU A 443 REMARK 465 VAL A 444 REMARK 465 GLY A 445 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 HIS B 3 REMARK 465 GLN B 4 REMARK 465 ASN B 5 REMARK 465 ALA B 6 REMARK 465 ALA B 7 REMARK 465 VAL B 8 REMARK 465 SER B 9 REMARK 465 GLU B 10 REMARK 465 ASN B 11 REMARK 465 GLN B 12 REMARK 465 ASN B 13 REMARK 465 HIS B 14 REMARK 465 ASP B 15 REMARK 465 ASP B 16 REMARK 465 GLY B 17 REMARK 465 ALA B 18 REMARK 465 ALA B 19 REMARK 465 SER B 20 REMARK 465 SER B 21 REMARK 465 PRO B 22 REMARK 465 GLY B 23 REMARK 465 PHE B 24 REMARK 465 LYS B 25 REMARK 465 LEU B 26 REMARK 465 VAL B 27 REMARK 465 GLY B 28 REMARK 465 SER B 108 REMARK 465 ALA B 109 REMARK 465 GLY B 110 REMARK 465 GLU B 111 REMARK 465 ILE B 112 REMARK 465 LYS B 113 REMARK 465 PRO B 114 REMARK 465 THR B 115 REMARK 465 GLU B 195 REMARK 465 ASP B 196 REMARK 465 THR B 197 REMARK 465 GLU B 198 REMARK 465 LYS B 199 REMARK 465 SER B 200 REMARK 465 GLU B 201 REMARK 465 THR B 254 REMARK 465 ALA B 255 REMARK 465 ASP B 256 REMARK 465 ASP B 257 REMARK 465 VAL B 258 REMARK 465 GLY B 259 REMARK 465 THR B 260 REMARK 465 ALA B 261 REMARK 465 GLU B 262 REMARK 465 HIS B 286 REMARK 465 GLY B 287 REMARK 465 THR B 288 REMARK 465 LYS B 289 REMARK 465 ARG B 290 REMARK 465 LYS B 404 REMARK 465 ASP B 405 REMARK 465 GLU B 406 REMARK 465 GLU B 407 REMARK 465 GLY B 408 REMARK 465 LYS B 409 REMARK 465 ALA B 410 REMARK 465 GLU B 435 REMARK 465 LYS B 436 REMARK 465 THR B 437 REMARK 465 LEU B 438 REMARK 465 GLU B 439 REMARK 465 ALA B 440 REMARK 465 LYS B 441 REMARK 465 GLN B 442 REMARK 465 LEU B 443 REMARK 465 VAL B 444 REMARK 465 GLY B 445 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 TYR A 434 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE B 215 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 432 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 A 45 -95.68 -106.70 REMARK 500 ASP A 77 -158.24 -132.44 REMARK 500 LEU A 181 -70.30 -96.96 REMARK 500 ASP A 218 114.78 -167.31 REMARK 500 ASP A 372 -146.60 -132.72 REMARK 500 THR A 390 -92.42 -125.49 REMARK 500 GLU A 432 12.70 -69.12 REMARK 500 GLU A 433 68.12 -100.09 REMARK 500 LYS B 45 -92.15 -97.80 REMARK 500 ASP B 77 -159.91 -129.06 REMARK 500 ALA B 173 -40.04 -130.69 REMARK 500 LEU B 181 -71.84 -99.15 REMARK 500 ASP B 218 111.21 -168.80 REMARK 500 ASP B 372 -148.41 -131.07 REMARK 500 THR B 390 -94.41 -123.68 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 FE A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 226 NE2 REMARK 620 2 HIS A 308 NE2 96.7 REMARK 620 3 GLU A 394 OE1 98.2 86.7 REMARK 620 4 92U A 502 O12 149.1 111.1 96.5 REMARK 620 5 92U A 502 O17 89.0 105.4 165.1 71.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 226 NE2 REMARK 620 2 HIS B 308 NE2 107.1 REMARK 620 3 GLU B 394 OE1 93.4 85.2 REMARK 620 4 92U B 502 O12 142.8 109.6 95.7 REMARK 620 5 92U B 502 O17 87.6 87.3 172.4 88.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 92U A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 92U B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CTO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA HPPD COMPLEXED WITH NTBC DBREF 5YWH A 1 445 UNP P93836 HPPD_ARATH 1 445 DBREF 5YWH B 1 445 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 FE A 501 1 HET 92U A 502 24 HET FE B 501 1 HET 92U B 502 24 HETNAM FE FE (III) ION HETNAM 92U [1,3-DIETHYL-2,2-BIS(OXIDANYLIDENE)-2$L^{6},1,3- HETNAM 2 92U BENZOTHIADIAZOL-5-YL]-(1-METHYL-5-OXIDANYL-PYRAZOL-4- HETNAM 3 92U YL)METHANONE FORMUL 3 FE 2(FE 3+) FORMUL 4 92U 2(C15 H18 N4 O4 S) FORMUL 7 HOH *110(H2 O) HELIX 1 AA1 ASP A 56 GLY A 69 1 14 HELIX 2 AA2 ASP A 77 GLY A 81 5 5 HELIX 3 AA3 SER A 104 SER A 108 5 5 HELIX 4 AA4 ASP A 124 GLY A 136 1 13 HELIX 5 AA5 ASP A 148 ASN A 159 1 12 HELIX 6 AA6 GLU A 233 GLY A 246 1 14 HELIX 7 AA7 SER A 292 GLU A 302 1 11 HELIX 8 AA8 ASP A 315 ARG A 326 1 12 HELIX 9 AA9 PRO A 339 ASN A 345 1 7 HELIX 10 AB1 LEU A 346 GLY A 351 1 6 HELIX 11 AB2 SER A 355 GLY A 366 1 12 HELIX 12 AB3 GLY A 422 GLU A 432 1 11 HELIX 13 AB4 ASP B 56 GLY B 69 1 14 HELIX 14 AB5 ASP B 124 GLY B 136 1 13 HELIX 15 AB6 ASP B 148 ALA B 158 1 11 HELIX 16 AB7 GLU B 233 GLY B 246 1 14 HELIX 17 AB8 SER B 292 GLU B 302 1 11 HELIX 18 AB9 ASP B 315 ARG B 326 1 12 HELIX 19 AC1 PRO B 339 ASN B 345 1 7 HELIX 20 AC2 LEU B 346 GLY B 351 1 6 HELIX 21 AC3 SER B 355 GLY B 366 1 12 HELIX 22 AC4 GLY B 422 GLU B 433 1 12 SHEET 1 AA1 9 PRO A 163 LEU A 170 0 SHEET 2 AA1 9 VAL A 174 TYR A 182 -1 O VAL A 174 N LEU A 170 SHEET 3 AA1 9 VAL A 185 TYR A 192 -1 O TYR A 189 N ALA A 177 SHEET 4 AA1 9 GLY A 138 VAL A 146 1 N ARG A 140 O VAL A 186 SHEET 5 AA1 9 VAL A 44 TRP A 53 -1 N LYS A 45 O GLU A 145 SHEET 6 AA1 9 LEU A 95 PRO A 102 1 O LEU A 98 N ILE A 50 SHEET 7 AA1 9 HIS A 85 SER A 92 -1 N LEU A 90 O PHE A 97 SHEET 8 AA1 9 ARG A 71 SER A 76 -1 N ARG A 71 O THR A 91 SHEET 9 AA1 9 GLU A 207 ARG A 208 -1 O GLU A 207 N LYS A 75 SHEET 1 AA2 8 HIS A 248 PHE A 250 0 SHEET 2 AA2 8 LEU A 265 ALA A 271 -1 O VAL A 269 N PHE A 250 SHEET 3 AA2 8 LEU A 278 PRO A 284 -1 O LEU A 279 N LEU A 270 SHEET 4 AA2 8 ILE A 221 ASN A 230 1 N GLY A 229 O ASN A 282 SHEET 5 AA2 8 GLY A 305 SER A 313 -1 O GLN A 307 N VAL A 228 SHEET 6 AA2 8 PHE A 392 GLY A 400 1 O GLU A 394 N LEU A 311 SHEET 7 AA2 8 GLY A 375 PHE A 381 -1 N ILE A 380 O ILE A 395 SHEET 8 AA2 8 LEU A 368 ARG A 371 -1 N ASP A 370 O LEU A 377 SHEET 1 AA3 9 PRO B 163 LEU B 170 0 SHEET 2 AA3 9 VAL B 174 TYR B 182 -1 O VAL B 174 N LEU B 170 SHEET 3 AA3 9 VAL B 185 SER B 191 -1 O LEU B 187 N VAL B 179 SHEET 4 AA3 9 GLY B 138 VAL B 146 1 N VAL B 146 O VAL B 190 SHEET 5 AA3 9 VAL B 44 TRP B 53 -1 N ARG B 46 O GLU B 145 SHEET 6 AA3 9 LEU B 95 PRO B 102 1 O LEU B 98 N PHE B 52 SHEET 7 AA3 9 HIS B 85 SER B 92 -1 N LEU B 90 O PHE B 97 SHEET 8 AA3 9 ARG B 71 SER B 76 -1 N ARG B 71 O THR B 91 SHEET 9 AA3 9 GLU B 207 ARG B 208 -1 O GLU B 207 N LYS B 75 SHEET 1 AA4 8 HIS B 248 PHE B 250 0 SHEET 2 AA4 8 LEU B 265 ALA B 271 -1 O VAL B 269 N PHE B 250 SHEET 3 AA4 8 LEU B 278 PRO B 284 -1 O LEU B 279 N LEU B 270 SHEET 4 AA4 8 ILE B 221 ASN B 230 1 N GLY B 229 O ASN B 282 SHEET 5 AA4 8 GLY B 305 SER B 313 -1 O ALA B 310 N ASP B 225 SHEET 6 AA4 8 PHE B 392 GLY B 400 1 O GLU B 394 N LEU B 311 SHEET 7 AA4 8 GLY B 375 PHE B 381 -1 N THR B 376 O VAL B 399 SHEET 8 AA4 8 LEU B 368 ARG B 371 -1 N LEU B 368 O GLN B 379 SSBOND 1 CYS A 401 CYS A 416 1555 1555 2.04 SSBOND 2 CYS B 401 CYS B 416 1555 1555 2.04 LINK NE2 HIS A 226 FE FE A 501 1555 1555 2.36 LINK NE2 HIS A 308 FE FE A 501 1555 1555 2.41 LINK OE1 GLU A 394 FE FE A 501 1555 1555 2.03 LINK FE FE A 501 O12 92U A 502 1555 1555 2.31 LINK FE FE A 501 O17 92U A 502 1555 1555 2.55 LINK NE2 HIS B 226 FE FE B 501 1555 1555 2.49 LINK NE2 HIS B 308 FE FE B 501 1555 1555 2.63 LINK OE1 GLU B 394 FE FE B 501 1555 1555 1.87 LINK FE FE B 501 O12 92U B 502 1555 1555 1.92 LINK FE FE B 501 O17 92U B 502 1555 1555 2.35 SITE 1 AC1 4 HIS A 226 HIS A 308 GLU A 394 92U A 502 SITE 1 AC2 11 HIS A 226 PRO A 280 LEU A 368 PHE A 381 SITE 2 AC2 11 PHE A 392 GLU A 394 PHE A 419 GLY A 420 SITE 3 AC2 11 ASN A 423 PHE A 424 FE A 501 SITE 1 AC3 4 HIS B 226 HIS B 308 GLU B 394 92U B 502 SITE 1 AC4 13 HIS B 226 VAL B 228 SER B 267 PRO B 280 SITE 2 AC4 13 GLN B 293 HIS B 308 GLN B 379 PHE B 381 SITE 3 AC4 13 GLU B 394 PHE B 419 GLY B 420 PHE B 424 SITE 4 AC4 13 FE B 501 CRYST1 95.745 95.745 196.595 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 0.010444 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010444 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005087 0.00000