HEADER DNA BINDING PROTEIN 02-NOV-23 8UV1 TITLE STRUCTURE OF TDP1 COMPLEXED WITH COMPOUND IB01 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSYL-DNA PHOSPHODIESTERASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TYR-DNA PHOSPHODIESTERASE 1; COMPND 5 EC: 3.1.4.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TDP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PDN2454 KEYWDS PHOSPHODIESTERASE, DRUG TARGET, CANCER, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.T.LOUNTOS,X.Z.ZHAO,I.BARAKAT,W.WANG,K.AGAMA,M.R.AL MAHMUD, AUTHOR 2 Y.POMMIER,T.R.BURKE REVDAT 1 25-SEP-24 8UV1 0 JRNL AUTH G.T.LOUNTOS,X.Z.ZHAO,I.BARAKAT,W.WANG,K.AGAMA,M.R.AL MAHMUD, JRNL AUTH 2 Y.POMMIER,T.R.BURKE JRNL TITL STRUCTURE OF TDP1 COMPLEXED WITH COMPOUND IB01 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 89336 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 4401 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 43.8000 - 5.6833 1.00 3114 173 0.1857 0.1824 REMARK 3 2 5.6833 - 4.5125 1.00 2946 168 0.1453 0.1719 REMARK 3 3 4.5125 - 3.9425 1.00 2946 170 0.1340 0.1522 REMARK 3 4 3.9425 - 3.5822 1.00 2894 149 0.1486 0.1591 REMARK 3 5 3.5822 - 3.3256 1.00 2863 165 0.1590 0.1837 REMARK 3 6 3.3256 - 3.1296 1.00 2901 159 0.1656 0.1949 REMARK 3 7 3.1296 - 2.9729 1.00 2888 153 0.1767 0.1928 REMARK 3 8 2.9729 - 2.8435 1.00 2878 162 0.1688 0.2042 REMARK 3 9 2.8435 - 2.7340 1.00 2909 121 0.1698 0.1999 REMARK 3 10 2.7340 - 2.6397 1.00 2844 141 0.1633 0.2160 REMARK 3 11 2.6397 - 2.5572 1.00 2878 154 0.1629 0.2228 REMARK 3 12 2.5572 - 2.4841 1.00 2852 143 0.1725 0.2232 REMARK 3 13 2.4841 - 2.4187 1.00 2831 160 0.1609 0.1950 REMARK 3 14 2.4187 - 2.3597 1.00 2844 159 0.1656 0.1805 REMARK 3 15 2.3597 - 2.3060 1.00 2845 156 0.1604 0.1928 REMARK 3 16 2.3060 - 2.2570 0.99 2826 134 0.1635 0.2514 REMARK 3 17 2.2570 - 2.2118 0.99 2847 140 0.1609 0.2050 REMARK 3 18 2.2118 - 2.1701 0.99 2802 134 0.1575 0.1868 REMARK 3 19 2.1701 - 2.1313 0.99 2829 154 0.1649 0.2127 REMARK 3 20 2.1313 - 2.0952 0.99 2805 130 0.1594 0.1910 REMARK 3 21 2.0952 - 2.0614 0.99 2820 143 0.1601 0.1917 REMARK 3 22 2.0614 - 2.0297 0.98 2794 144 0.1677 0.2083 REMARK 3 23 2.0297 - 1.9998 0.98 2721 160 0.1718 0.2363 REMARK 3 24 1.9998 - 1.9717 0.98 2809 142 0.1768 0.2139 REMARK 3 25 1.9717 - 1.9450 0.98 2770 119 0.1789 0.2165 REMARK 3 26 1.9450 - 1.9198 0.97 2775 134 0.1807 0.2245 REMARK 3 27 1.9198 - 1.8958 0.97 2730 153 0.1793 0.2195 REMARK 3 28 1.8958 - 1.8729 0.96 2740 113 0.1840 0.2396 REMARK 3 29 1.8729 - 1.8511 0.95 2652 131 0.1958 0.2404 REMARK 3 30 1.8511 - 1.8303 0.90 2582 137 0.2031 0.2583 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.440 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 : 0.006 7598 REMARK 3 ANGLE : 0.832 10380 REMARK 3 CHIRALITY : 0.055 1061 REMARK 3 PLANARITY : 0.006 1316 REMARK 3 DIHEDRAL : 6.478 6019 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 162 THROUGH 343 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.5598 0.4286 -40.2358 REMARK 3 T TENSOR REMARK 3 T11: 0.1248 T22: 0.0994 REMARK 3 T33: 0.1358 T12: 0.0175 REMARK 3 T13: -0.0076 T23: -0.0015 REMARK 3 L TENSOR REMARK 3 L11: 1.6934 L22: 0.7235 REMARK 3 L33: 1.7311 L12: -0.1879 REMARK 3 L13: 0.3944 L23: -0.0900 REMARK 3 S TENSOR REMARK 3 S11: -0.0716 S12: -0.1647 S13: 0.1004 REMARK 3 S21: 0.0511 S22: 0.0197 S23: 0.0796 REMARK 3 S31: -0.0995 S32: -0.2438 S33: 0.0452 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 344 THROUGH 436 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.8673 -15.6184 -53.3816 REMARK 3 T TENSOR REMARK 3 T11: 0.2096 T22: 0.1154 REMARK 3 T33: 0.1728 T12: -0.0020 REMARK 3 T13: 0.0039 T23: -0.0198 REMARK 3 L TENSOR REMARK 3 L11: 1.6398 L22: 1.5300 REMARK 3 L33: 1.7437 L12: -0.5053 REMARK 3 L13: 0.4810 L23: -0.5224 REMARK 3 S TENSOR REMARK 3 S11: 0.0985 S12: 0.2412 S13: -0.2714 REMARK 3 S21: -0.2358 S22: -0.0556 S23: -0.0273 REMARK 3 S31: 0.3685 S32: 0.1420 S33: -0.0007 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 437 THROUGH 607 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5219 -13.4418 -37.9226 REMARK 3 T TENSOR REMARK 3 T11: 0.1436 T22: 0.0934 REMARK 3 T33: 0.1467 T12: 0.0165 REMARK 3 T13: 0.0018 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 1.4545 L22: 0.3632 REMARK 3 L33: 1.8254 L12: -0.1072 REMARK 3 L13: 0.4511 L23: -0.0526 REMARK 3 S TENSOR REMARK 3 S11: 0.0112 S12: -0.1257 S13: -0.1291 REMARK 3 S21: 0.0298 S22: 0.0005 S23: -0.0378 REMARK 3 S31: 0.2290 S32: 0.1577 S33: 0.0140 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 162 THROUGH 280 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.6307 11.3875 -89.6523 REMARK 3 T TENSOR REMARK 3 T11: 0.2000 T22: 0.3561 REMARK 3 T33: 0.2302 T12: -0.0207 REMARK 3 T13: 0.0061 T23: 0.1640 REMARK 3 L TENSOR REMARK 3 L11: 1.7124 L22: 1.0485 REMARK 3 L33: 1.9299 L12: 0.3774 REMARK 3 L13: 0.3799 L23: -0.4632 REMARK 3 S TENSOR REMARK 3 S11: -0.0279 S12: 0.4488 S13: 0.1738 REMARK 3 S21: -0.0790 S22: -0.2149 S23: -0.2508 REMARK 3 S31: -0.1566 S32: 0.5006 S33: 0.1240 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 281 THROUGH 452 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2769 -3.1170 -81.3096 REMARK 3 T TENSOR REMARK 3 T11: 0.1835 T22: 0.1833 REMARK 3 T33: 0.1959 T12: 0.0337 REMARK 3 T13: 0.0509 T23: 0.0694 REMARK 3 L TENSOR REMARK 3 L11: 1.5449 L22: 0.6033 REMARK 3 L33: 2.5155 L12: -0.0002 REMARK 3 L13: 0.6233 L23: -0.2184 REMARK 3 S TENSOR REMARK 3 S11: 0.0123 S12: -0.0291 S13: -0.2403 REMARK 3 S21: 0.0427 S22: -0.0842 S23: -0.0608 REMARK 3 S31: 0.3609 S32: 0.0858 S33: 0.0656 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 453 THROUGH 607 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.6428 -2.8052 -92.4900 REMARK 3 T TENSOR REMARK 3 T11: 0.1877 T22: 0.1885 REMARK 3 T33: 0.1841 T12: -0.0124 REMARK 3 T13: 0.0325 T23: 0.0160 REMARK 3 L TENSOR REMARK 3 L11: 1.1754 L22: 0.4694 REMARK 3 L33: 2.7969 L12: 0.2062 REMARK 3 L13: 0.2275 L23: -0.3471 REMARK 3 S TENSOR REMARK 3 S11: -0.0316 S12: 0.0954 S13: -0.1902 REMARK 3 S21: -0.0676 S22: 0.0002 S23: -0.0014 REMARK 3 S31: 0.3932 S32: -0.2784 S33: 0.0028 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 8UV1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-NOV-23. REMARK 100 THE DEPOSITION ID IS D_1000278764. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 89424 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08400 REMARK 200 FOR THE DATA SET : 18.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.60800 REMARK 200 FOR SHELL : 2.100 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M, MOPS/HEPES-NA PH 7.5, 10% (W/V) REMARK 280 PEG 8000 20% (V/V) ETHYLENE GLYCOL, 0.03M SODIUM FLUORIDE, 0.03M REMARK 280 SODIUM BROMIDE, 0.03M SODIUM IODIDE, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 24.97900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 96.51900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.51100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 96.51900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.97900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.51100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 SER A 148 REMARK 465 GLY A 149 REMARK 465 GLU A 150 REMARK 465 GLY A 151 REMARK 465 GLN A 152 REMARK 465 ASP A 153 REMARK 465 ILE A 154 REMARK 465 TRP A 155 REMARK 465 ASP A 156 REMARK 465 MET A 157 REMARK 465 LEU A 158 REMARK 465 ASP A 159 REMARK 465 LYS A 160 REMARK 465 GLY A 161 REMARK 465 LYS A 428 REMARK 465 THR A 429 REMARK 465 PRO A 430 REMARK 465 GLY A 431 REMARK 465 LYS A 432 REMARK 465 SER A 433 REMARK 465 SER A 563 REMARK 465 GLN A 564 REMARK 465 GLU A 565 REMARK 465 PRO A 566 REMARK 465 MET A 567 REMARK 465 SER A 608 REMARK 465 SER B 148 REMARK 465 GLY B 149 REMARK 465 GLU B 150 REMARK 465 GLY B 151 REMARK 465 GLN B 152 REMARK 465 ASP B 153 REMARK 465 ILE B 154 REMARK 465 TRP B 155 REMARK 465 ASP B 156 REMARK 465 MET B 157 REMARK 465 LEU B 158 REMARK 465 ASP B 159 REMARK 465 LYS B 160 REMARK 465 GLY B 161 REMARK 465 LYS B 428 REMARK 465 THR B 429 REMARK 465 PRO B 430 REMARK 465 GLY B 431 REMARK 465 LYS B 432 REMARK 465 SER B 563 REMARK 465 GLN B 564 REMARK 465 GLU B 565 REMARK 465 PRO B 566 REMARK 465 MET B 567 REMARK 465 SER B 608 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 GLU A 246 CG CD OE1 OE2 REMARK 470 THR A 309 OG1 CG2 REMARK 470 LYS A 527 CG CD CE NZ REMARK 470 GLU B 246 CG CD OE1 OE2 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 OE1 GLU A 408 OH TYR A 476 2.17 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 ARG A 232 -130.52 55.68 REMARK 500 HIS A 290 -68.89 -94.79 REMARK 500 HIS A 310 65.55 -119.04 REMARK 500 TRP A 411 -42.94 -157.12 REMARK 500 GLN A 470 48.33 -143.21 REMARK 500 ALA A 482 47.66 -145.97 REMARK 500 ARG B 232 -134.99 58.86 REMARK 500 HIS B 290 -67.89 -97.67 REMARK 500 HIS B 310 75.76 -117.32 REMARK 500 TRP B 411 -45.57 -158.13 REMARK 500 GLN B 470 50.20 -145.27 REMARK 500 ALA B 482 47.55 -145.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1132 DISTANCE = 6.24 ANGSTROMS DBREF 8UV1 A 148 608 UNP Q9NUW8 TYDP1_HUMAN 148 608 DBREF 8UV1 B 148 608 UNP Q9NUW8 TYDP1_HUMAN 148 608 SEQRES 1 A 461 SER GLY GLU GLY GLN ASP ILE TRP ASP MET LEU ASP LYS SEQRES 2 A 461 GLY ASN PRO PHE GLN PHE TYR LEU THR ARG VAL SER GLY SEQRES 3 A 461 VAL LYS PRO LYS TYR ASN SER GLY ALA LEU HIS ILE LYS SEQRES 4 A 461 ASP ILE LEU SER PRO LEU PHE GLY THR LEU VAL SER SER SEQRES 5 A 461 ALA GLN PHE ASN TYR CYS PHE ASP VAL ASP TRP LEU VAL SEQRES 6 A 461 LYS GLN TYR PRO PRO GLU PHE ARG LYS LYS PRO ILE LEU SEQRES 7 A 461 LEU VAL HIS GLY ASP LYS ARG GLU ALA LYS ALA HIS LEU SEQRES 8 A 461 HIS ALA GLN ALA LYS PRO TYR GLU ASN ILE SER LEU CYS SEQRES 9 A 461 GLN ALA LYS LEU ASP ILE ALA PHE GLY THR HIS HIS THR SEQRES 10 A 461 LYS MET MET LEU LEU LEU TYR GLU GLU GLY LEU ARG VAL SEQRES 11 A 461 VAL ILE HIS THR SER ASN LEU ILE HIS ALA ASP TRP HIS SEQRES 12 A 461 GLN LYS THR GLN GLY ILE TRP LEU SER PRO LEU TYR PRO SEQRES 13 A 461 ARG ILE ALA ASP GLY THR HIS LYS SER GLY GLU SER PRO SEQRES 14 A 461 THR HIS PHE LYS ALA ASP LEU ILE SER TYR LEU MET ALA SEQRES 15 A 461 TYR ASN ALA PRO SER LEU LYS GLU TRP ILE ASP VAL ILE SEQRES 16 A 461 HIS LYS HIS ASP LEU SER GLU THR ASN VAL TYR LEU ILE SEQRES 17 A 461 GLY SER THR PRO GLY ARG PHE GLN GLY SER GLN LYS ASP SEQRES 18 A 461 ASN TRP GLY HIS PHE ARG LEU LYS LYS LEU LEU LYS ASP SEQRES 19 A 461 HIS ALA SER SER MET PRO ASN ALA GLU SER TRP PRO VAL SEQRES 20 A 461 VAL GLY GLN PHE SER SER VAL GLY SER LEU GLY ALA ASP SEQRES 21 A 461 GLU SER LYS TRP LEU CYS SER GLU PHE LYS GLU SER MET SEQRES 22 A 461 LEU THR LEU GLY LYS GLU SER LYS THR PRO GLY LYS SER SEQRES 23 A 461 SER VAL PRO LEU TYR LEU ILE TYR PRO SER VAL GLU ASN SEQRES 24 A 461 VAL ARG THR SER LEU GLU GLY TYR PRO ALA GLY GLY SER SEQRES 25 A 461 LEU PRO TYR SER ILE GLN THR ALA GLU LYS GLN ASN TRP SEQRES 26 A 461 LEU HIS SER TYR PHE HIS LYS TRP SER ALA GLU THR SER SEQRES 27 A 461 GLY ARG SER ASN ALA MET PRO HIS ILE LYS THR TYR MET SEQRES 28 A 461 ARG PRO SER PRO ASP PHE SER LYS ILE ALA TRP PHE LEU SEQRES 29 A 461 VAL THR SER ALA ASN LEU SER LYS ALA ALA TRP GLY ALA SEQRES 30 A 461 LEU GLU LYS ASN GLY THR GLN LEU MET ILE ARG SER TYR SEQRES 31 A 461 GLU LEU GLY VAL LEU PHE LEU PRO SER ALA PHE GLY LEU SEQRES 32 A 461 ASP SER PHE LYS VAL LYS GLN LYS PHE PHE ALA GLY SER SEQRES 33 A 461 GLN GLU PRO MET ALA THR PHE PRO VAL PRO TYR ASP LEU SEQRES 34 A 461 PRO PRO GLU LEU TYR GLY SER LYS ASP ARG PRO TRP ILE SEQRES 35 A 461 TRP ASN ILE PRO TYR VAL LYS ALA PRO ASP THR HIS GLY SEQRES 36 A 461 ASN MET TRP VAL PRO SER SEQRES 1 B 461 SER GLY GLU GLY GLN ASP ILE TRP ASP MET LEU ASP LYS SEQRES 2 B 461 GLY ASN PRO PHE GLN PHE TYR LEU THR ARG VAL SER GLY SEQRES 3 B 461 VAL LYS PRO LYS TYR ASN SER GLY ALA LEU HIS ILE LYS SEQRES 4 B 461 ASP ILE LEU SER PRO LEU PHE GLY THR LEU VAL SER SER SEQRES 5 B 461 ALA GLN PHE ASN TYR CYS PHE ASP VAL ASP TRP LEU VAL SEQRES 6 B 461 LYS GLN TYR PRO PRO GLU PHE ARG LYS LYS PRO ILE LEU SEQRES 7 B 461 LEU VAL HIS GLY ASP LYS ARG GLU ALA LYS ALA HIS LEU SEQRES 8 B 461 HIS ALA GLN ALA LYS PRO TYR GLU ASN ILE SER LEU CYS SEQRES 9 B 461 GLN ALA LYS LEU ASP ILE ALA PHE GLY THR HIS HIS THR SEQRES 10 B 461 LYS MET MET LEU LEU LEU TYR GLU GLU GLY LEU ARG VAL SEQRES 11 B 461 VAL ILE HIS THR SER ASN LEU ILE HIS ALA ASP TRP HIS SEQRES 12 B 461 GLN LYS THR GLN GLY ILE TRP LEU SER PRO LEU TYR PRO SEQRES 13 B 461 ARG ILE ALA ASP GLY THR HIS LYS SER GLY GLU SER PRO SEQRES 14 B 461 THR HIS PHE LYS ALA ASP LEU ILE SER TYR LEU MET ALA SEQRES 15 B 461 TYR ASN ALA PRO SER LEU LYS GLU TRP ILE ASP VAL ILE SEQRES 16 B 461 HIS LYS HIS ASP LEU SER GLU THR ASN VAL TYR LEU ILE SEQRES 17 B 461 GLY SER THR PRO GLY ARG PHE GLN GLY SER GLN LYS ASP SEQRES 18 B 461 ASN TRP GLY HIS PHE ARG LEU LYS LYS LEU LEU LYS ASP SEQRES 19 B 461 HIS ALA SER SER MET PRO ASN ALA GLU SER TRP PRO VAL SEQRES 20 B 461 VAL GLY GLN PHE SER SER VAL GLY SER LEU GLY ALA ASP SEQRES 21 B 461 GLU SER LYS TRP LEU CYS SER GLU PHE LYS GLU SER MET SEQRES 22 B 461 LEU THR LEU GLY LYS GLU SER LYS THR PRO GLY LYS SER SEQRES 23 B 461 SER VAL PRO LEU TYR LEU ILE TYR PRO SER VAL GLU ASN SEQRES 24 B 461 VAL ARG THR SER LEU GLU GLY TYR PRO ALA GLY GLY SER SEQRES 25 B 461 LEU PRO TYR SER ILE GLN THR ALA GLU LYS GLN ASN TRP SEQRES 26 B 461 LEU HIS SER TYR PHE HIS LYS TRP SER ALA GLU THR SER SEQRES 27 B 461 GLY ARG SER ASN ALA MET PRO HIS ILE LYS THR TYR MET SEQRES 28 B 461 ARG PRO SER PRO ASP PHE SER LYS ILE ALA TRP PHE LEU SEQRES 29 B 461 VAL THR SER ALA ASN LEU SER LYS ALA ALA TRP GLY ALA SEQRES 30 B 461 LEU GLU LYS ASN GLY THR GLN LEU MET ILE ARG SER TYR SEQRES 31 B 461 GLU LEU GLY VAL LEU PHE LEU PRO SER ALA PHE GLY LEU SEQRES 32 B 461 ASP SER PHE LYS VAL LYS GLN LYS PHE PHE ALA GLY SER SEQRES 33 B 461 GLN GLU PRO MET ALA THR PHE PRO VAL PRO TYR ASP LEU SEQRES 34 B 461 PRO PRO GLU LEU TYR GLY SER LYS ASP ARG PRO TRP ILE SEQRES 35 B 461 TRP ASN ILE PRO TYR VAL LYS ALA PRO ASP THR HIS GLY SEQRES 36 B 461 ASN MET TRP VAL PRO SER HET XK6 A 701 18 HET XK6 A 702 17 HET XK6 A 703 17 HET EDO A 704 4 HET XK6 B 701 18 HET XK6 B 702 17 HET XK6 B 703 17 HET XK6 B 704 18 HET EDO B 705 4 HETNAM XK6 8-(FLUOROSULFONYL)-4-OXO-1,4-DIHYDROQUINOLINE-3- HETNAM 2 XK6 CARBOXYLIC ACID HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 XK6 7(C10 H6 F N O5 S) FORMUL 6 EDO 2(C2 H6 O2) FORMUL 12 HOH *571(H2 O) HELIX 1 AA1 LYS A 175 ASN A 179 5 5 HELIX 2 AA2 HIS A 184 LEU A 189 1 6 HELIX 3 AA3 SER A 190 GLY A 194 5 5 HELIX 4 AA4 ASP A 207 TYR A 215 1 9 HELIX 5 AA5 PRO A 216 ARG A 220 5 5 HELIX 6 AA6 LYS A 231 LYS A 243 1 13 HELIX 7 AA7 ILE A 285 HIS A 290 5 6 HELIX 8 AA8 HIS A 318 ALA A 329 1 12 HELIX 9 AA9 ALA A 332 LYS A 344 1 13 HELIX 10 AB1 SER A 365 ASN A 369 5 5 HELIX 11 AB2 TRP A 370 ALA A 383 1 14 HELIX 12 AB3 ASN A 388 TRP A 392 5 5 HELIX 13 AB4 GLU A 415 THR A 422 1 8 HELIX 14 AB5 SER A 443 THR A 449 1 7 HELIX 15 AB6 GLY A 453 LEU A 460 5 8 HELIX 16 AB7 SER A 463 GLU A 468 1 6 HELIX 17 AB8 LYS A 469 SER A 475 5 7 HELIX 18 AB9 ALA A 482 GLY A 486 5 5 HELIX 19 AC1 SER A 518 GLY A 523 1 6 HELIX 20 AC2 LEU A 544 GLY A 549 5 6 HELIX 21 AC3 LYS B 175 ASN B 179 5 5 HELIX 22 AC4 HIS B 184 LEU B 189 1 6 HELIX 23 AC5 SER B 190 GLY B 194 5 5 HELIX 24 AC6 ASP B 207 TYR B 215 1 9 HELIX 25 AC7 PRO B 216 ARG B 220 5 5 HELIX 26 AC8 LYS B 231 LYS B 243 1 13 HELIX 27 AC9 ILE B 285 HIS B 290 5 6 HELIX 28 AD1 HIS B 318 ALA B 329 1 12 HELIX 29 AD2 ALA B 332 LYS B 344 1 13 HELIX 30 AD3 SER B 365 ASN B 369 5 5 HELIX 31 AD4 TRP B 370 ALA B 383 1 14 HELIX 32 AD5 ASN B 388 TRP B 392 5 5 HELIX 33 AD6 GLU B 415 THR B 422 1 8 HELIX 34 AD7 SER B 443 THR B 449 1 7 HELIX 35 AD8 GLY B 453 LEU B 460 5 8 HELIX 36 AD9 SER B 463 GLU B 468 1 6 HELIX 37 AE1 LYS B 469 SER B 475 5 7 HELIX 38 AE2 ALA B 482 GLY B 486 5 5 HELIX 39 AE3 SER B 518 GLY B 523 1 6 HELIX 40 AE4 LEU B 544 GLY B 549 5 6 SHEET 1 AA1 7 PHE A 166 LEU A 168 0 SHEET 2 AA1 7 GLY A 295 LEU A 298 -1 O ILE A 296 N TYR A 167 SHEET 3 AA1 7 GLY A 274 HIS A 280 -1 N ILE A 279 O TRP A 297 SHEET 4 AA1 7 MET A 266 TYR A 271 -1 N TYR A 271 O GLY A 274 SHEET 5 AA1 7 LEU A 196 PHE A 202 -1 N VAL A 197 O LEU A 270 SHEET 6 AA1 7 ILE A 224 HIS A 228 1 O LEU A 225 N GLN A 201 SHEET 7 AA1 7 ILE A 248 GLN A 252 1 O CYS A 251 N LEU A 226 SHEET 1 AA2 2 LYS A 292 THR A 293 0 SHEET 2 AA2 2 MET A 491 PRO A 492 1 O MET A 491 N THR A 293 SHEET 1 AA3 7 TYR A 353 SER A 357 0 SHEET 2 AA3 7 GLU A 538 PHE A 543 -1 O LEU A 542 N TYR A 353 SHEET 3 AA3 7 LYS A 506 THR A 513 -1 N PHE A 510 O PHE A 543 SHEET 4 AA3 7 LYS A 495 PRO A 500 -1 N ARG A 499 O ALA A 508 SHEET 5 AA3 7 VAL A 394 GLN A 397 -1 N VAL A 395 O MET A 498 SHEET 6 AA3 7 LEU A 437 ILE A 440 1 O ILE A 440 N GLY A 396 SHEET 7 AA3 7 PHE A 477 HIS A 478 1 O HIS A 478 N LEU A 439 SHEET 1 AA4 4 TYR A 353 SER A 357 0 SHEET 2 AA4 4 GLU A 538 PHE A 543 -1 O LEU A 542 N TYR A 353 SHEET 3 AA4 4 LYS A 506 THR A 513 -1 N PHE A 510 O PHE A 543 SHEET 4 AA4 4 PHE A 553 LYS A 554 -1 O PHE A 553 N ILE A 507 SHEET 1 AA5 3 GLY A 360 GLN A 363 0 SHEET 2 AA5 3 GLN A 531 ILE A 534 -1 O LEU A 532 N PHE A 362 SHEET 3 AA5 3 ALA A 524 GLU A 526 -1 N GLU A 526 O GLN A 531 SHEET 1 AA6 7 PHE B 166 LEU B 168 0 SHEET 2 AA6 7 GLY B 295 LEU B 298 -1 O ILE B 296 N TYR B 167 SHEET 3 AA6 7 LEU B 275 HIS B 280 -1 N ILE B 279 O TRP B 297 SHEET 4 AA6 7 MET B 266 TYR B 271 -1 N LEU B 269 O ARG B 276 SHEET 5 AA6 7 LEU B 196 PHE B 202 -1 N VAL B 197 O LEU B 270 SHEET 6 AA6 7 ILE B 224 HIS B 228 1 O LEU B 225 N GLN B 201 SHEET 7 AA6 7 ILE B 248 GLN B 252 1 O CYS B 251 N LEU B 226 SHEET 1 AA7 7 TYR B 353 SER B 357 0 SHEET 2 AA7 7 GLU B 538 PHE B 543 -1 O LEU B 542 N TYR B 353 SHEET 3 AA7 7 LYS B 506 THR B 513 -1 N PHE B 510 O PHE B 543 SHEET 4 AA7 7 LYS B 495 PRO B 500 -1 N ARG B 499 O ALA B 508 SHEET 5 AA7 7 VAL B 394 GLN B 397 -1 N VAL B 395 O MET B 498 SHEET 6 AA7 7 LEU B 437 ILE B 440 1 O ILE B 440 N GLY B 396 SHEET 7 AA7 7 PHE B 477 HIS B 478 1 O HIS B 478 N LEU B 439 SHEET 1 AA8 4 TYR B 353 SER B 357 0 SHEET 2 AA8 4 GLU B 538 PHE B 543 -1 O LEU B 542 N TYR B 353 SHEET 3 AA8 4 LYS B 506 THR B 513 -1 N PHE B 510 O PHE B 543 SHEET 4 AA8 4 PHE B 553 LYS B 554 -1 O PHE B 553 N ILE B 507 SHEET 1 AA9 3 GLY B 360 GLN B 363 0 SHEET 2 AA9 3 GLN B 531 ILE B 534 -1 O LEU B 532 N PHE B 362 SHEET 3 AA9 3 ALA B 524 GLU B 526 -1 N GLU B 526 O GLN B 531 LINK OH TYR A 204 S09 XK6 A 702 1555 1555 1.47 LINK NE2 HIS A 310 S09 XK6 A 703 1555 1555 1.63 LINK OH TYR B 204 S09 XK6 B 703 1555 1555 1.47 LINK NE2 HIS B 310 S09 XK6 B 702 1555 1555 1.63 CISPEP 1 LEU A 576 PRO A 577 0 -5.53 CISPEP 2 LEU B 576 PRO B 577 0 -4.50 CRYST1 49.958 105.022 193.038 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.020017 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009522 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005180 0.00000