HEADER TRANSFERASE 22-AUG-14 4UXI TITLE LEISHMANIA MAJOR THYMIDINE KINASE IN COMPLEX WITH THYMIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDINE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 2-183; COMPND 5 EC: 2.7.1.21; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 5664; SOURCE 4 STRAIN: FRIEDLIN; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS TRANSFERASE, AP5DT EXPDTA X-RAY DIFFRACTION AUTHOR J.TIMM,C.BOSCH-NAVARRETE,E.RECIO,J.E.NETTLESHIP,H.RADA, AUTHOR 2 D.GONZALEZ-PACANOWSKA,K.S.WILSON REVDAT 2 02-MAR-16 4UXI 1 REMARK REVDAT 1 27-MAY-15 4UXI 0 JRNL AUTH J.TIMM,C.BOSCH-NAVARRETE,E.RECIO,J.E.NETTLESHIP,H.RADA, JRNL AUTH 2 D.GONZALEZ-PACANOWSKA,K.S.WILSON JRNL TITL STRUCTURAL AND KINETIC CHARACTERIZATION OF THYMIDINE KINASE JRNL TITL 2 FROM LEISHMANIA MAJOR. JRNL REF PLOS NEGL TROP DIS V. 9 3781 2015 JRNL REFN ISSN 1935-2727 JRNL PMID 25978379 JRNL DOI 10.1371/JOURNAL.PNTD.0003781 REMARK 2 REMARK 2 RESOLUTION. 2.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU, REMARK 3 STEINER,NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 104.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 96.01 REMARK 3 NUMBER OF REFLECTIONS : 12506 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.28353 REMARK 3 R VALUE (WORKING SET) : 0.28221 REMARK 3 FREE R VALUE : 0.31039 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.9 REMARK 3 FREE R VALUE TEST SET COUNT : 648 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.744 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.815 REMARK 3 REFLECTION IN BIN (WORKING SET) : 919 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.348 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.335 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2370 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 13 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 82.399 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.58 REMARK 3 B22 (A**2) : 0.58 REMARK 3 B33 (A**2) : -1.89 REMARK 3 B12 (A**2) : 0.29 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.745 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.387 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.348 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 33.220 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.900 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.868 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2459 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2225 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3337 ; 1.292 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5062 ; 0.868 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 320 ; 5.666 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 95 ;27.480 ;23.368 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 360 ;13.452 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;10.797 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 390 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2799 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 553 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1292 ; 1.961 ; 4.306 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1291 ; 1.961 ; 4.304 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1608 ; 3.272 ; 6.445 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1167 ; 2.864 ; 4.464 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 3 180 B 3 180 8009 0.10 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 181 REMARK 3 ORIGIN FOR THE GROUP (A): -24.8107 42.3481 4.0363 REMARK 3 T TENSOR REMARK 3 T11: 0.3040 T22: 0.4141 REMARK 3 T33: 0.1614 T12: -0.1277 REMARK 3 T13: -0.1423 T23: 0.0846 REMARK 3 L TENSOR REMARK 3 L11: 1.6987 L22: 2.9641 REMARK 3 L33: 3.4368 L12: 0.1910 REMARK 3 L13: 1.1408 L23: -1.1806 REMARK 3 S TENSOR REMARK 3 S11: 0.0087 S12: -0.0802 S13: 0.2628 REMARK 3 S21: 0.1936 S22: 0.0271 S23: -0.1987 REMARK 3 S31: 0.5291 S32: 0.1132 S33: -0.0358 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 180 REMARK 3 ORIGIN FOR THE GROUP (A): -39.1026 61.0724 3.2874 REMARK 3 T TENSOR REMARK 3 T11: 0.7937 T22: 0.7405 REMARK 3 T33: 0.1772 T12: 0.3897 REMARK 3 T13: -0.0830 T23: 0.1629 REMARK 3 L TENSOR REMARK 3 L11: 4.0539 L22: 1.0096 REMARK 3 L33: 3.5195 L12: 1.5068 REMARK 3 L13: 1.0957 L23: -0.5666 REMARK 3 S TENSOR REMARK 3 S11: -0.0455 S12: 0.1575 S13: -0.0923 REMARK 3 S21: 0.5722 S22: 0.4301 S23: -0.0722 REMARK 3 S31: -1.2124 S32: -1.2257 S33: -0.3846 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 4UXI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-AUG-14. REMARK 100 THE PDBE ID CODE IS EBI-61573. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.4 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 : CCD (QUANTUM 315) REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13223 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.74 REMARK 200 RESOLUTION RANGE LOW (A) : 52.46 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 20.5 REMARK 200 R MERGE (I) : 0.11 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.30 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 20.3 REMARK 200 R MERGE FOR SHELL (I) : 1.17 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.90 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: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4 M NA/K PO4 PH 5.4, 1 MM REMARK 280 DTHD, 1 MM APPNHP, 3 MM MGCL2 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 77.48000 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 38.74000 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 58.11000 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 19.37000 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 96.85000 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 77.48000 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 38.74000 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 19.37000 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 58.11000 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 96.85000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.9 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 350 BIOMT1 2 0.500000 0.866025 0.000000 -60.57450 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 104.91811 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -19.37000 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 0 REMARK 465 PRO A 1 REMARK 465 LYS A 42 REMARK 465 ASP A 43 REMARK 465 THR A 44 REMARK 465 ARG A 45 REMARK 465 TYR A 46 REMARK 465 ASP A 47 REMARK 465 GLU A 48 REMARK 465 HIS A 49 REMARK 465 ASN A 50 REMARK 465 VAL A 51 REMARK 465 ALA A 52 REMARK 465 SER A 53 REMARK 465 HIS A 54 REMARK 465 ASP A 55 REMARK 465 GLN A 56 REMARK 465 LEU A 57 REMARK 465 LEU A 182 REMARK 465 PRO A 183 REMARK 465 GLY B 0 REMARK 465 PRO B 1 REMARK 465 PHE B 2 REMARK 465 LYS B 42 REMARK 465 ASP B 43 REMARK 465 THR B 44 REMARK 465 ARG B 45 REMARK 465 TYR B 46 REMARK 465 ASP B 47 REMARK 465 GLU B 48 REMARK 465 HIS B 49 REMARK 465 ASN B 50 REMARK 465 VAL B 51 REMARK 465 ALA B 52 REMARK 465 SER B 53 REMARK 465 HIS B 54 REMARK 465 ASP B 55 REMARK 465 GLN B 56 REMARK 465 LEU B 57 REMARK 465 MET B 58 REMARK 465 LEU B 59 REMARK 465 GLN B 181 REMARK 465 LEU B 182 REMARK 465 PRO B 183 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 ARG A 3 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 26 CG CD CE NZ REMARK 470 ARG A 32 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 33 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 39 CG CD CE NZ REMARK 470 MET A 58 CG SD CE REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 62 CG CD OE1 NE2 REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 76 CG CD CE NZ REMARK 470 MET A 107 CE REMARK 470 LYS A 118 CG CD CE NZ REMARK 470 THR A 137 CG2 REMARK 470 MET A 141 CG SD CE REMARK 470 HIS A 144 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 152 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 158 CG CD OE1 OE2 REMARK 470 ASP A 167 CG OD1 OD2 REMARK 470 GLU A 175 CG CD OE1 OE2 REMARK 470 SER A 178 OG REMARK 470 GLN A 180 CG CD OE1 NE2 REMARK 470 GLN A 181 CG CD OE1 NE2 REMARK 470 ARG B 3 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 26 CG CD CE NZ REMARK 470 ARG B 32 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 33 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 39 CG CD CE NZ REMARK 470 ARG B 60 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 62 CG CD OE1 NE2 REMARK 470 ARG B 72 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 73 CG OD1 OD2 REMARK 470 LYS B 76 CG CD CE NZ REMARK 470 ARG B 77 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 94 CG OD1 OD2 REMARK 470 THR B 98 OG1 CG2 REMARK 470 MET B 107 CE REMARK 470 ARG B 116 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 118 CG CD CE NZ REMARK 470 HIS B 144 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 145 CG CD OE1 OE2 REMARK 470 ARG B 152 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 156 CG OD1 ND2 REMARK 470 VAL B 157 CG1 CG2 REMARK 470 GLU B 158 CG CD OE1 OE2 REMARK 470 GLN B 159 CG CD OE1 NE2 REMARK 470 ILE B 163 CG1 CG2 CD1 REMARK 470 ILE B 170 CG1 CG2 CD1 REMARK 470 GLU B 175 CG CD OE1 OE2 REMARK 470 GLN B 180 CG CD OE1 NE2 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 72 -121.14 48.10 REMARK 500 HIS A 144 19.79 53.64 REMARK 500 GLU A 145 38.05 -148.94 REMARK 500 ASN A 156 68.33 -105.66 REMARK 500 ARG B 72 -133.66 58.06 REMARK 500 MET B 142 -60.35 -94.48 REMARK 500 HIS B 144 19.82 52.83 REMARK 500 GLU B 145 36.14 -146.76 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 ZN A1184 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 143 SG REMARK 620 2 CYS A 176 SG 105.8 REMARK 620 3 CYS A 140 SG 104.4 94.3 REMARK 620 4 CYS A 173 SG 118.3 107.7 122.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1183 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 143 SG REMARK 620 2 CYS B 140 SG 106.9 REMARK 620 3 CYS B 173 SG 119.1 119.3 REMARK 620 4 CYS B 176 SG 108.1 93.8 106.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A1182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B1181 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE THM A1183 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE THM B1182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1183 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1184 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4UXH RELATED DB: PDB REMARK 900 LEISHMANIA MAJOR THYMIDINE KINASE IN COMPLEX WITH AP5DT REMARK 900 RELATED ID: 4UXJ RELATED DB: PDB REMARK 900 LEISHMANIA MAJOR THYMIDINE KINASE IN COMPLEX WITH DTTP DBREF 4UXI A 2 183 UNP Q4QC75 Q4QC75_LEIMA 2 183 DBREF 4UXI B 2 183 UNP Q4QC75 Q4QC75_LEIMA 2 183 SEQADV 4UXI GLY A 0 UNP Q4QC75 EXPRESSION TAG SEQADV 4UXI PRO A 1 UNP Q4QC75 EXPRESSION TAG SEQADV 4UXI GLY B 0 UNP Q4QC75 EXPRESSION TAG SEQADV 4UXI PRO B 1 UNP Q4QC75 EXPRESSION TAG SEQRES 1 A 184 GLY PRO PHE ARG GLY ARG ILE GLU LEU ILE ILE GLY PRO SEQRES 2 A 184 MET PHE ALA GLY LYS THR THR GLU LEU MET ARG ARG VAL SEQRES 3 A 184 LYS ARG GLU ILE HIS ALA ARG ARG SER CYS PHE VAL ILE SEQRES 4 A 184 LYS TYR SER LYS ASP THR ARG TYR ASP GLU HIS ASN VAL SEQRES 5 A 184 ALA SER HIS ASP GLN LEU MET LEU ARG ALA GLN ALA ALA SEQRES 6 A 184 VAL SER GLN LEU THR GLU VAL ARG ASP THR TRP LYS ARG SEQRES 7 A 184 PHE ASP VAL LEU ALA ILE ASP GLU GLY GLN PHE PHE SER SEQRES 8 A 184 ASP LEU VAL ASP PHE CYS ASN THR ALA ALA ASP ALA GLY SEQRES 9 A 184 LYS VAL VAL MET VAL SER ALA LEU ASP GLY ASP TYR ARG SEQRES 10 A 184 ARG LYS PRO PHE GLY GLN ILE CYS GLU LEU VAL PRO TYR SEQRES 11 A 184 CYS GLU ALA VAL ASP LYS LEU THR ALA VAL CYS MET MET SEQRES 12 A 184 CYS HIS GLU GLN PRO ALA CYS PHE THR ARG ARG THR VAL SEQRES 13 A 184 ASN VAL GLU GLN GLN GLU LEU ILE GLY GLY ALA ASP MET SEQRES 14 A 184 TYR ILE ALA THR CYS ARG GLU CYS TYR SER LYS GLN GLN SEQRES 15 A 184 LEU PRO SEQRES 1 B 184 GLY PRO PHE ARG GLY ARG ILE GLU LEU ILE ILE GLY PRO SEQRES 2 B 184 MET PHE ALA GLY LYS THR THR GLU LEU MET ARG ARG VAL SEQRES 3 B 184 LYS ARG GLU ILE HIS ALA ARG ARG SER CYS PHE VAL ILE SEQRES 4 B 184 LYS TYR SER LYS ASP THR ARG TYR ASP GLU HIS ASN VAL SEQRES 5 B 184 ALA SER HIS ASP GLN LEU MET LEU ARG ALA GLN ALA ALA SEQRES 6 B 184 VAL SER GLN LEU THR GLU VAL ARG ASP THR TRP LYS ARG SEQRES 7 B 184 PHE ASP VAL LEU ALA ILE ASP GLU GLY GLN PHE PHE SER SEQRES 8 B 184 ASP LEU VAL ASP PHE CYS ASN THR ALA ALA ASP ALA GLY SEQRES 9 B 184 LYS VAL VAL MET VAL SER ALA LEU ASP GLY ASP TYR ARG SEQRES 10 B 184 ARG LYS PRO PHE GLY GLN ILE CYS GLU LEU VAL PRO TYR SEQRES 11 B 184 CYS GLU ALA VAL ASP LYS LEU THR ALA VAL CYS MET MET SEQRES 12 B 184 CYS HIS GLU GLN PRO ALA CYS PHE THR ARG ARG THR VAL SEQRES 13 B 184 ASN VAL GLU GLN GLN GLU LEU ILE GLY GLY ALA ASP MET SEQRES 14 B 184 TYR ILE ALA THR CYS ARG GLU CYS TYR SER LYS GLN GLN SEQRES 15 B 184 LEU PRO HET PO4 A1182 5 HET PO4 B1181 5 HET THM A1183 17 HET THM B1182 17 HET ZN B1183 1 HET ZN A1184 1 HETNAM THM THYMIDINE HETNAM PO4 PHOSPHATE ION HETNAM ZN ZINC ION HETSYN THM DEOXYTHYMIDINE FORMUL 3 THM 2(C10 H14 N2 O5) FORMUL 4 PO4 2(O4 P 3-) FORMUL 5 ZN 2(ZN 2+) FORMUL 6 HOH *13(H2 O) HELIX 1 1 GLY A 16 ALA A 31 1 16 HELIX 2 2 GLN A 67 ARG A 72 5 6 HELIX 3 3 ASP A 73 PHE A 78 5 6 HELIX 4 4 GLY A 86 PHE A 89 5 4 HELIX 5 5 ASP A 91 ALA A 102 1 12 HELIX 6 6 GLN A 122 VAL A 127 1 6 HELIX 7 7 PRO A 128 CYS A 130 5 3 HELIX 8 8 CYS A 173 LYS A 179 1 7 HELIX 9 9 GLY B 16 ALA B 31 1 16 HELIX 10 10 GLN B 67 ARG B 72 5 6 HELIX 11 11 ASP B 73 PHE B 78 5 6 HELIX 12 12 GLY B 86 PHE B 89 5 4 HELIX 13 13 ASP B 91 ALA B 102 1 12 HELIX 14 14 GLN B 122 VAL B 127 1 6 HELIX 15 15 PRO B 128 CYS B 130 5 3 HELIX 16 16 CYS B 173 LYS B 179 1 7 SHEET 1 AA 6 ARG A 60 VAL A 65 0 SHEET 2 AA 6 CYS A 35 TYR A 40 1 O CYS A 35 N ALA A 61 SHEET 3 AA 6 VAL A 80 ASP A 84 1 O VAL A 80 N PHE A 36 SHEET 4 AA 6 VAL A 105 SER A 109 1 O VAL A 105 N LEU A 81 SHEET 5 AA 6 ARG A 5 ILE A 10 1 O ARG A 5 N VAL A 106 SHEET 6 AA 6 ALA A 132 LYS A 135 1 O ALA A 132 N LEU A 8 SHEET 1 AB 2 ALA A 138 VAL A 139 0 SHEET 2 AB 2 PRO A 147 ALA A 148 -1 O ALA A 148 N ALA A 138 SHEET 1 AC 2 PHE A 150 ARG A 153 0 SHEET 2 AC 2 TYR A 169 THR A 172 -1 O ILE A 170 N ARG A 152 SHEET 1 BA 6 ALA B 61 VAL B 65 0 SHEET 2 BA 6 CYS B 35 TYR B 40 1 O CYS B 35 N ALA B 61 SHEET 3 BA 6 VAL B 80 ASP B 84 1 O VAL B 80 N PHE B 36 SHEET 4 BA 6 VAL B 105 SER B 109 1 O VAL B 105 N LEU B 81 SHEET 5 BA 6 ARG B 5 ILE B 10 1 O ARG B 5 N VAL B 106 SHEET 6 BA 6 ALA B 132 LYS B 135 1 O ALA B 132 N LEU B 8 SHEET 1 BB 2 ALA B 138 VAL B 139 0 SHEET 2 BB 2 PRO B 147 ALA B 148 -1 O ALA B 148 N ALA B 138 SHEET 1 BC 2 PHE B 150 ARG B 153 0 SHEET 2 BC 2 TYR B 169 THR B 172 -1 O ILE B 170 N ARG B 152 LINK ZN ZN A1184 SG CYS A 143 1555 1555 2.36 LINK ZN ZN A1184 SG CYS A 176 1555 1555 2.33 LINK ZN ZN A1184 SG CYS A 140 1555 1555 2.32 LINK ZN ZN A1184 SG CYS A 173 1555 1555 2.31 LINK ZN ZN B1183 SG CYS B 140 1555 1555 2.33 LINK ZN ZN B1183 SG CYS B 173 1555 1555 2.35 LINK ZN ZN B1183 SG CYS B 176 1555 1555 2.33 LINK ZN ZN B1183 SG CYS B 143 1555 1555 2.31 SITE 1 AC1 6 MET A 13 PHE A 14 ALA A 15 GLY A 16 SITE 2 AC1 6 LYS A 17 THR A 18 SITE 1 AC2 6 MET B 13 PHE B 14 ALA B 15 GLY B 16 SITE 2 AC2 6 LYS B 17 THR B 18 SITE 1 AC3 12 GLU A 85 LEU A 111 ASP A 114 TYR A 115 SITE 2 AC3 12 PHE A 120 THR A 151 GLN A 160 GLU A 161 SITE 3 AC3 12 LEU A 162 ILE A 163 GLY A 164 TYR A 169 SITE 1 AC4 12 GLU B 85 PHE B 88 LEU B 111 ASP B 114 SITE 2 AC4 12 TYR B 115 PHE B 120 THR B 151 GLN B 160 SITE 3 AC4 12 GLU B 161 LEU B 162 GLY B 164 TYR B 169 SITE 1 AC5 4 CYS B 140 CYS B 143 CYS B 173 CYS B 176 SITE 1 AC6 4 CYS A 140 CYS A 143 CYS A 173 CYS A 176 CRYST1 121.149 121.149 116.220 90.00 90.00 120.00 P 65 2 2 24 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 0.008254 0.004766 0.000000 0.00000 SCALE2 0.000000 0.009531 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008604 0.00000