HEADER HYDROLASE 31-MAR-16 5J3S TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN TYROSYL DNA TITLE 2 PHOSPHODIESTERASE 2 IN COMPLEX WITH A SMALL MOLECULE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSYL-DNA PHOSPHODIESTERASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HTDP2,5'-TYROSYL-DNA PHOSPHODIESTERASE,5'-TYR-DNA COMPND 5 PHOSPHODIESTERASE,ETS1-ASSOCIATED PROTEIN 2,ETS1-ASSOCIATED PROTEIN COMPND 6 II,EAPII,TRAF AND TNF RECEPTOR-ASSOCIATED PROTEIN,TYROSYL-RNA COMPND 7 PHOSPHODIESTERASE,VPG UNLINKASE; COMPND 8 EC: 3.1.4.-; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TDP2, EAP2, TTRAP, AD-022; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834(DE3) KEYWDS TYROSYL DNA PHOSPHODIESTERASE 2 CATALYTIC DOMAIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.HORNYAK,L.H.PEARL,K.W.CALDECOTT,A.W.OLIVER REVDAT 4 10-JAN-24 5J3S 1 REMARK REVDAT 3 16-OCT-19 5J3S 1 REMARK REVDAT 2 06-JUL-16 5J3S 1 JRNL REVDAT 1 04-MAY-16 5J3S 0 JRNL AUTH P.HORNYAK,T.ASKWITH,S.WALKER,E.KOMULAINEN,M.PARADOWSKI, JRNL AUTH 2 L.E.PENNICOTT,E.J.BARTLETT,N.C.BRISSETT,A.RAOOF,M.WATSON, JRNL AUTH 3 A.M.JORDAN,D.J.OGILVIE,S.E.WARD,J.R.ATACK,L.H.PEARL, JRNL AUTH 4 K.W.CALDECOTT,A.W.OLIVER JRNL TITL MODE OF ACTION OF DNA-COMPETITIVE SMALL MOLECULE INHIBITORS JRNL TITL 2 OF TYROSYL DNA PHOSPHODIESTERASE 2. JRNL REF BIOCHEM.J. V. 473 1869 2016 JRNL REFN ESSN 1470-8728 JRNL PMID 27099339 JRNL DOI 10.1042/BCJ20160180 REMARK 2 REMARK 2 RESOLUTION. 3.40 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) : 3.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.22 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 7545 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.255 REMARK 3 R VALUE (WORKING SET) : 0.254 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.770 REMARK 3 FREE R VALUE TEST SET COUNT : 360 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 45.2223 - 4.9028 1.00 2359 140 0.2208 0.2590 REMARK 3 2 4.9028 - 3.8922 1.00 2433 107 0.2546 0.2494 REMARK 3 3 3.8922 - 3.4004 1.00 2393 113 0.3460 0.3666 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) : 0.480 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.220 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 1800 REMARK 3 ANGLE : 0.494 2458 REMARK 3 CHIRALITY : 0.040 283 REMARK 3 PLANARITY : 0.004 314 REMARK 3 DIHEDRAL : 12.387 1109 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 112 THROUGH 128 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.8758 -11.1217 9.7725 REMARK 3 T TENSOR REMARK 3 T11: 1.3427 T22: 0.7440 REMARK 3 T33: 0.3625 T12: -0.3665 REMARK 3 T13: 0.0820 T23: 0.0263 REMARK 3 L TENSOR REMARK 3 L11: 4.0769 L22: 1.3593 REMARK 3 L33: 3.1657 L12: 0.4581 REMARK 3 L13: 2.1967 L23: -1.3773 REMARK 3 S TENSOR REMARK 3 S11: -0.0270 S12: -0.6932 S13: -0.2793 REMARK 3 S21: -0.3854 S22: 0.0430 S23: -0.2748 REMARK 3 S31: -0.0974 S32: -1.2014 S33: 0.0756 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 129 THROUGH 198 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.6003 -16.1481 11.8733 REMARK 3 T TENSOR REMARK 3 T11: 1.3405 T22: 1.5703 REMARK 3 T33: 0.6398 T12: -0.7249 REMARK 3 T13: 0.1874 T23: -0.1709 REMARK 3 L TENSOR REMARK 3 L11: 1.7027 L22: 0.0822 REMARK 3 L33: 3.1215 L12: 0.2942 REMARK 3 L13: 1.4458 L23: 0.1275 REMARK 3 S TENSOR REMARK 3 S11: -0.1562 S12: -0.1350 S13: -0.5474 REMARK 3 S21: 0.1726 S22: -0.2277 S23: 0.4335 REMARK 3 S31: 2.0758 S32: -1.8522 S33: 0.0315 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 199 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.3384 -25.5131 15.7504 REMARK 3 T TENSOR REMARK 3 T11: 2.7853 T22: 0.6153 REMARK 3 T33: 0.7872 T12: -0.6100 REMARK 3 T13: 0.1203 T23: 0.0390 REMARK 3 L TENSOR REMARK 3 L11: 3.8215 L22: 5.9449 REMARK 3 L33: 4.7966 L12: 4.4496 REMARK 3 L13: 3.2138 L23: 4.5642 REMARK 3 S TENSOR REMARK 3 S11: 0.2493 S12: -0.3497 S13: -0.4166 REMARK 3 S21: 1.5629 S22: 0.0201 S23: -0.3886 REMARK 3 S31: 0.4851 S32: -0.0863 S33: 1.4068 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 216 THROUGH 233 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7568 -22.3903 10.3310 REMARK 3 T TENSOR REMARK 3 T11: 1.6663 T22: 0.5596 REMARK 3 T33: 0.6933 T12: -0.3022 REMARK 3 T13: 0.0008 T23: 0.0577 REMARK 3 L TENSOR REMARK 3 L11: 0.9179 L22: 4.9433 REMARK 3 L33: 4.5745 L12: 1.6405 REMARK 3 L13: 0.2130 L23: 3.3276 REMARK 3 S TENSOR REMARK 3 S11: 0.2942 S12: 0.3111 S13: 0.0419 REMARK 3 S21: -0.6386 S22: 0.4581 S23: -0.3469 REMARK 3 S31: 0.9828 S32: 0.4519 S33: 0.2146 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 234 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.8872 -18.7994 5.8519 REMARK 3 T TENSOR REMARK 3 T11: 1.4082 T22: 0.4161 REMARK 3 T33: 0.5838 T12: 0.0158 REMARK 3 T13: -0.0483 T23: 0.0937 REMARK 3 L TENSOR REMARK 3 L11: 1.6101 L22: 3.4612 REMARK 3 L33: 0.5255 L12: -0.6637 REMARK 3 L13: -0.4481 L23: -0.8617 REMARK 3 S TENSOR REMARK 3 S11: -0.1677 S12: 0.2585 S13: -0.1978 REMARK 3 S21: -0.2357 S22: 0.6053 S23: -0.4292 REMARK 3 S31: 1.3265 S32: 0.1528 S33: 0.0467 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 302 THROUGH 357 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.4945 -8.7085 4.3877 REMARK 3 T TENSOR REMARK 3 T11: 0.6346 T22: 0.5717 REMARK 3 T33: 0.5535 T12: -0.0547 REMARK 3 T13: 0.0940 T23: 0.0317 REMARK 3 L TENSOR REMARK 3 L11: 8.3352 L22: 4.1598 REMARK 3 L33: 6.2603 L12: 0.2592 REMARK 3 L13: 3.8103 L23: -1.5010 REMARK 3 S TENSOR REMARK 3 S11: -0.6028 S12: 0.1854 S13: 1.4132 REMARK 3 S21: 0.2814 S22: -0.2830 S23: 0.0808 REMARK 3 S31: 0.7528 S32: -0.0443 S33: 0.3948 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 5J3S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000219904. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-13 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 : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7545 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.400 REMARK 200 RESOLUTION RANGE LOW (A) : 45.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.24230 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) : 3.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 2.02500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 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: 5J3P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2M D/L-MALIC ACID PH7.0, 0.1M BIS REMARK 280 -TRIS PROPANE PH 7.0, 3% V/V DMSO, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 273K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 139.67000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 69.83500 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 104.75250 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 34.91750 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 174.58750 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 139.67000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 69.83500 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 34.91750 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 104.75250 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 174.58750 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 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 GLY A 110 REMARK 465 SER A 111 REMARK 465 PRO A 252 REMARK 465 GLU A 253 REMARK 465 SER A 254 REMARK 465 ALA A 255 REMARK 465 THR A 256 REMARK 465 ALA A 321A REMARK 465 ALA A 321B REMARK 465 ALA A 321C REMARK 465 GLU A 321D REMARK 465 GLU A 321E REMARK 465 GLY A 321F REMARK 465 HIS A 321G REMARK 465 ILE A 358 REMARK 465 ILE A 359 REMARK 465 LEU A 360 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 HIS A 112 CG ND1 CD2 CE1 NE2 REMARK 470 MET A 113 CG SD CE REMARK 470 ASN A 127 CG OD1 ND2 REMARK 470 SER A 130 OG REMARK 470 ARG A 134 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 146 CG OD1 OD2 REMARK 470 LYS A 162 CG CD CE NZ REMARK 470 LYS A 163 CG CD CE NZ REMARK 470 ARG A 164 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 169 CG CD OE1 OE2 REMARK 470 HIS A 174 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 175 CG CD OE1 OE2 REMARK 470 GLU A 176 CG CD OE1 OE2 REMARK 470 LYS A 185 CG CD CE NZ REMARK 470 LYS A 186 CG CD CE NZ REMARK 470 LYS A 190 CG CD CE NZ REMARK 470 LYS A 192 CG CD CE NZ REMARK 470 ILE A 197 CG1 CG2 CD1 REMARK 470 PHE A 199 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 203 CG CD CE NZ REMARK 470 MET A 205 CG SD CE REMARK 470 GLU A 219 CG CD OE1 OE2 REMARK 470 GLU A 228 CG CD OE1 OE2 REMARK 470 HIS A 233 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 236 CG CD OE1 OE2 REMARK 470 ASN A 239 CG OD1 ND2 REMARK 470 MET A 243 CG SD CE REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 LYS A 247 CG CD CE NZ REMARK 470 GLU A 250 CG CD OE1 OE2 REMARK 470 ARG A 268 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 276 CG CD1 CD2 REMARK 470 ASN A 278 CG OD1 ND2 REMARK 470 ASN A 279 CG OD1 ND2 REMARK 470 ILE A 280 CG1 CG2 CD1 REMARK 470 LYS A 291 CG CD CE NZ REMARK 470 THR A 299 OG1 CG2 REMARK 470 THR A 308 OG1 CG2 REMARK 470 ARG A 321 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 327 CG1 CG2 CD1 REMARK 470 ILE A 328 CG1 CG2 CD1 REMARK 470 GLU A 338 CG CD OE1 OE2 REMARK 470 LYS A 339 CG CD CE NZ REMARK 470 ARG A 344 CG CD NE CZ NH1 NH2 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 SER A 144 71.18 54.24 REMARK 500 HIS A 174 -136.94 -157.48 REMARK 500 GLU A 175 -33.98 -162.48 REMARK 500 LYS A 185 104.09 -58.98 REMARK 500 ARG A 188 -31.75 -131.54 REMARK 500 PRO A 200 -84.32 -71.91 REMARK 500 SER A 201 45.85 -77.96 REMARK 500 MET A 204 18.97 -147.72 REMARK 500 LEU A 287 31.06 -85.84 REMARK 500 ARG A 330 -63.31 -98.28 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 6FQ A 401 DBREF 5J3S A 113 360 UNP O95551 TYDP2_HUMAN 113 362 SEQADV 5J3S GLY A 110 UNP O95551 EXPRESSION TAG SEQADV 5J3S SER A 111 UNP O95551 EXPRESSION TAG SEQADV 5J3S HIS A 112 UNP O95551 EXPRESSION TAG SEQADV 5J3S SER A 273 UNP O95551 CYS 273 ENGINEERED MUTATION SEQRES 1 A 253 GLY SER HIS MET PHE SER LEU ILE THR TRP ASN ILE ASP SEQRES 2 A 253 GLY LEU ASP LEU ASN ASN LEU SER GLU ARG ALA ARG GLY SEQRES 3 A 253 VAL CYS SER TYR LEU ALA LEU TYR SER PRO ASP VAL ILE SEQRES 4 A 253 PHE LEU GLN GLU VAL ILE PRO PRO TYR TYR SER TYR LEU SEQRES 5 A 253 LYS LYS ARG SER SER ASN TYR GLU ILE ILE THR GLY HIS SEQRES 6 A 253 GLU GLU GLY TYR PHE THR ALA ILE MET LEU LYS LYS SER SEQRES 7 A 253 ARG VAL LYS LEU LYS SER GLN GLU ILE ILE PRO PHE PRO SEQRES 8 A 253 SER THR LYS MET MET ARG ASN LEU LEU CYS VAL HIS VAL SEQRES 9 A 253 ASN VAL SER GLY ASN GLU LEU CYS LEU MET THR SER HIS SEQRES 10 A 253 LEU GLU SER THR ARG GLY HIS ALA ALA GLU ARG MET ASN SEQRES 11 A 253 GLN LEU LYS MET VAL LEU LYS LYS MET GLN GLU ALA PRO SEQRES 12 A 253 GLU SER ALA THR VAL ILE PHE ALA GLY ASP THR ASN LEU SEQRES 13 A 253 ARG ASP ARG GLU VAL THR ARG SER GLY GLY LEU PRO ASN SEQRES 14 A 253 ASN ILE VAL ASP VAL TRP GLU PHE LEU GLY LYS PRO LYS SEQRES 15 A 253 HIS CYS GLN TYR THR TRP ASP THR GLN MET ASN SER ASN SEQRES 16 A 253 LEU GLY ILE THR ALA ALA CYS LYS LEU ARG PHE ASP ARG SEQRES 17 A 253 ILE PHE PHE ARG ALA ALA ALA GLU GLU GLY HIS ILE ILE SEQRES 18 A 253 PRO ARG SER LEU ASP LEU LEU GLY LEU GLU LYS LEU ASP SEQRES 19 A 253 CYS GLY ARG PHE PRO SER ASP HIS TRP GLY LEU LEU CYS SEQRES 20 A 253 ASN LEU ASP ILE ILE LEU HET 6FQ A 401 29 HETNAM 6FQ 2,4-DIOXO-10-[3-(1H-TETRAZOL-5-YL)PHENYL]-2,3,4,10- HETNAM 2 6FQ TETRAHYDROPYRIMIDO[4,5-B]QUINOLINE-8-CARBONITRILE FORMUL 2 6FQ C19 H10 N8 O2 HELIX 1 AA1 ASN A 128 SER A 144 1 17 HELIX 2 AA2 ILE A 154 SER A 165 1 12 HELIX 3 AA3 HIS A 233 GLN A 249 1 17 HELIX 4 AA4 ARG A 268 SER A 273 1 6 HELIX 5 AA5 VAL A 283 LEU A 287 1 5 SHEET 1 AA1 6 TYR A 168 THR A 172 0 SHEET 2 AA1 6 PHE A 179 LYS A 185 -1 O LEU A 184 N GLU A 169 SHEET 3 AA1 6 VAL A 147 VAL A 153 -1 N LEU A 150 O ALA A 181 SHEET 4 AA1 6 PHE A 114 ASN A 120 1 N ILE A 117 O PHE A 149 SHEET 5 AA1 6 GLY A 351 ASP A 357 -1 O LEU A 352 N THR A 118 SHEET 6 AA1 6 ILE A 328 LEU A 335 -1 N ARG A 330 O ASN A 355 SHEET 1 AA2 6 VAL A 189 PRO A 198 0 SHEET 2 AA2 6 ASN A 207 VAL A 215 -1 O LEU A 208 N ILE A 197 SHEET 3 AA2 6 CYS A 221 SER A 225 -1 O LEU A 222 N VAL A 211 SHEET 4 AA2 6 ILE A 258 ASP A 262 1 O ILE A 258 N CYS A 221 SHEET 5 AA2 6 ASP A 316 PHE A 320 -1 O PHE A 319 N PHE A 259 SHEET 6 AA2 6 VAL A 281 ASP A 282 -1 N VAL A 281 O PHE A 320 SHEET 1 AA3 2 TRP A 297 ASP A 298 0 SHEET 2 AA3 2 LYS A 312 LEU A 313 -1 O LEU A 313 N TRP A 297 SITE 1 AC1 4 ARG A 231 ARG A 266 ILE A 307 CYS A 311 CRYST1 68.516 68.516 209.505 90.00 90.00 120.00 P 65 2 2 12 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 0.014595 0.008427 0.000000 0.00000 SCALE2 0.000000 0.016853 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004773 0.00000