HEADER TRANSFERASE 06-NOV-02 1N5J TITLE CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE TITLE 2 KINASE COMPLEXED WITH THYMIDINE DIPHOSPHATE (TDP) AND TITLE 3 THYMIDINE TRIPHOSPHATE (TTP) AT PH 5.4 (1.85 A RESOLUTION) COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDYLATE KINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.4.9; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS TRANSFERASE (ATP:TMP PHOSPHOTRANSFERASE), KINASE EXPDTA X-RAY DIFFRACTION AUTHOR E.FIORAVANTI,A.HAOUZ,T.URSBY,H.MUNIER-LEHMANN,M.DELARUE, AUTHOR 2 D.BOURGEOIS REVDAT 2 24-FEB-09 1N5J 1 VERSN REVDAT 1 15-APR-03 1N5J 0 JRNL AUTH E.FIORAVANTI,A.HAOUZ,T.URSBY,H.MUNIER-LEHMANN, JRNL AUTH 2 M.DELARUE,D.BOURGEOIS JRNL TITL MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE: JRNL TITL 2 STRUCTURAL STUDIES OF INTERMEDIATES ALONG THE JRNL TITL 3 REACTION PATHWAY JRNL REF J.MOL.BIOL. V. 327 1077 2003 JRNL REFN ISSN 0022-2836 JRNL PMID 12662932 JRNL DOI 10.1016/S0022-2836(03)00202-X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.URSBY,M.WEIK,E.FIORAVANTI,M.DELARUE,M.GOELDNER, REMARK 1 AUTH 2 D.BOURGEOIS REMARK 1 TITL CRYO-PHOTOLYSIS OF CAGED COMPOUNDS: A TECHNIQUE REMARK 1 TITL 2 FOR TRAPPING INTERMEDIATE STATES IN PROTEIN REMARK 1 TITL 3 CRYSTALS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 58 607 2002 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444902002135 REMARK 1 REFERENCE 2 REMARK 1 AUTH I.LI DE LA SIERRA,H.MUNIER-LEHMANN,A.M.GILLES, REMARK 1 AUTH 2 O.BARZU,M.DELARUE REMARK 1 TITL X-RAY STRUCTURE OF TMP KINASE FROM MYCOBACTERIUM REMARK 1 TITL 2 TUBERCULOSIS COMPLEXED WITH TMP AT 1.95 A REMARK 1 TITL 3 RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 311 87 2001 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.2001.4843 REMARK 1 REFERENCE 3 REMARK 1 AUTH I.LI DE LA SIERRA,H.MUNIER-LEHMANN,A.M.GILLES, REMARK 1 AUTH 2 O.BARZU,M.DELARUE REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF REMARK 1 TITL 2 THE THYMIDYLATE KINASE FROM MYCOBACTERIUM REMARK 1 TITL 3 TUBERCULOSIS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 56 226 2000 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444999016212 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2014027.220 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 19047 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 SET) : 0.215 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 929 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3026 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 152 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.022 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1546 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 156 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.88000 REMARK 3 B22 (A**2) : 1.88000 REMARK 3 B33 (A**2) : -3.77000 REMARK 3 B12 (A**2) : 2.08000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.14 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.10 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.73 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.040 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.500 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.890 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.660 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 45.94 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : TMP_TDP_TTP_MOD.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : TMP_TDP_TTP_MOD.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE CONTAINS TWO REMARK 3 CONFORMATIONS: CONFORMATION A CORRESPONDS TO THE TYD-BOUND REMARK 3 STATE. CONFORMATION B CORRESPONDS TO THE TTP-BOUND STATE. REMARK 4 REMARK 4 1N5J COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-02. REMARK 100 THE RCSB ID CODE IS RCSB017544. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-01 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 : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19063 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 24.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05500 REMARK 200 FOR THE DATA SET : 6.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.31600 REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: CNS 1.0 REMARK 200 STARTING MODEL: 1GSI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SOAKING IN 30MM ATP, 40% PEG 2000, REMARK 280 10 MM AMMONIUM SULPHATE, 0.1 M MES PH 5.4, 25 MM MAGNESIUM REMARK 280 ACETATE, 2 MM MERCAPTOETHANOL, 3 MM EDTA, 1.5 MM DTT, VAPOR REMARK 280 DIFFUSION, HANGING DROP + SOAKING, TEMPERATURE 293K 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 90.07600 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 45.03800 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 67.55700 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 22.51900 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 112.59500 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 90.07600 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 45.03800 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 22.51900 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 67.55700 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 112.59500 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: X-Y, -Y, -Z. 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 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 PRO A 209 REMARK 465 PRO A 210 REMARK 465 ASP A 211 REMARK 465 VAL A 212 REMARK 465 PRO A 213 REMARK 465 SER A 214 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 18 CG CD OE1 OE2 REMARK 470 LYS A 19 CD CE NZ REMARK 470 ARG A 29 NE CZ NH1 NH2 REMARK 470 ARG A 86 CD NE CZ NH1 NH2 REMARK 470 GLU A 144 CG CD OE1 OE2 REMARK 470 LEU A 145 CG CD1 CD2 REMARK 470 GLU A 148 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 ARG A 95 144.29 81.13 REMARK 500 TYR A 96 -151.58 -154.68 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 MG A 217 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 9 OD1 REMARK 620 2 ASP A 9 OD1 0.0 REMARK 620 3 GLU A 166 OE1 99.2 99.2 REMARK 620 4 GLU A 166 OE1 99.2 99.2 0.0 REMARK 620 5 HOH A1009 O 86.3 86.3 89.8 89.8 REMARK 620 6 TYD A 218 O2A 75.3 75.3 172.3 172.3 95.1 REMARK 620 7 TYD A 218 O2B 161.0 161.0 99.8 99.8 94.1 85.7 REMARK 620 8 HOH A1018 O 86.3 86.3 84.0 84.0 169.5 90.2 95.2 REMARK 620 9 TTP A 219 O2A 79.2 79.2 174.9 174.9 94.9 4.0 81.8 91.0 REMARK 620 10 TTP A 219 O2B 149.8 149.8 108.9 108.9 83.2 77.5 14.4 REMARK 620 106.8 73.6 REMARK 620 11 HOH A1009 O 79.0 79.0 81.0 81.0 12.6 102.9 104.4 REMARK 620 157.0 103.4 94.6 REMARK 620 12 HOH A1018 O 98.7 98.7 88.2 88.2 174.8 87.4 81.5 REMARK 620 13.9 87.2 93.0 168.4 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 9 10 11 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 217 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 215 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 216 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TTP A 219 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYD A 218 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GSI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE REMARK 900 KINASE COMPLEXED WITH THYMIDINE MONOPHOSPHATE (TMP) AND REMARK 900 MAGNESIUM (1.6 A RESOLUTION) REMARK 900 RELATED ID: 1G3U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE REMARK 900 KINASE COMPLEXED WITH THYMIDINE MONOPHOSPHATE (TMP) AND REMARK 900 MAGNESIUM (1.95 A RESOLUTION) REMARK 900 RELATED ID: 1N5K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE REMARK 900 KINASE CRYSTALLIZED IN SODIUM MALONATE (RESOLUTION 2.1 A) REMARK 900 RELATED ID: 1N5I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF INACTIVE MYCOBACTERIUM TUBERCULOSIS REMARK 900 THYMIDYLATE KINASE COMPLEXED WITH THYMIDINE MONOPHOSPHATE REMARK 900 (TMP) AT PH 4.6 (RESOLUTION 1.85 A) REMARK 900 RELATED ID: 1N5L RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE REMARK 900 KINASE CRYSTALLIZED IN SODIUM MALONATE, AFTER CATALYSIS IN REMARK 900 THE CRYSTAL (2.3 A RESOLUTION) DBREF 1N5J A 1 208 UNP O05891 KTHY_MYCTU 1 208 SEQRES 1 A 214 MET LEU ILE ALA ILE GLU GLY VAL ASP GLY ALA GLY LYS SEQRES 2 A 214 ARG THR LEU VAL GLU LYS LEU SER GLY ALA PHE ARG ALA SEQRES 3 A 214 ALA GLY ARG SER VAL ALA THR LEU ALA PHE PRO ARG TYR SEQRES 4 A 214 GLY GLN SER VAL ALA ALA ASP ILE ALA ALA GLU ALA LEU SEQRES 5 A 214 HIS GLY GLU HIS GLY ASP LEU ALA SER SER VAL TYR ALA SEQRES 6 A 214 MET ALA THR LEU PHE ALA LEU ASP ARG ALA GLY ALA VAL SEQRES 7 A 214 HIS THR ILE GLN GLY LEU CYS ARG GLY TYR ASP VAL VAL SEQRES 8 A 214 ILE LEU ASP ARG TYR VAL ALA SER ASN ALA ALA TYR SER SEQRES 9 A 214 ALA ALA ARG LEU HIS GLU ASN ALA ALA GLY LYS ALA ALA SEQRES 10 A 214 ALA TRP VAL GLN ARG ILE GLU PHE ALA ARG LEU GLY LEU SEQRES 11 A 214 PRO LYS PRO ASP TRP GLN VAL LEU LEU ALA VAL SER ALA SEQRES 12 A 214 GLU LEU ALA GLY GLU ARG SER ARG GLY ARG ALA GLN ARG SEQRES 13 A 214 ASP PRO GLY ARG ALA ARG ASP ASN TYR GLU ARG ASP ALA SEQRES 14 A 214 GLU LEU GLN GLN ARG THR GLY ALA VAL TYR ALA GLU LEU SEQRES 15 A 214 ALA ALA GLN GLY TRP GLY GLY ARG TRP LEU VAL VAL GLY SEQRES 16 A 214 ALA ASP VAL ASP PRO GLY ARG LEU ALA ALA THR LEU ALA SEQRES 17 A 214 PRO PRO ASP VAL PRO SER HET SO4 A 215 5 HET SO4 A 216 5 HET MG A 217 2 HET TYD A 218 25 HET TTP A 219 29 HETNAM SO4 SULFATE ION HETNAM MG MAGNESIUM ION HETNAM TYD THYMIDINE-5'-DIPHOSPHATE HETNAM TTP THYMIDINE-5'-TRIPHOSPHATE FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 MG MG 2+ FORMUL 5 TYD C10 H16 N2 O11 P2 FORMUL 6 TTP C10 H17 N2 O14 P3 FORMUL 7 HOH *154(H2 O) HELIX 1 1 GLY A 12 ALA A 27 1 16 HELIX 2 2 SER A 42 HIS A 53 1 12 HELIX 3 3 ASP A 58 SER A 61 5 4 HELIX 4 4 SER A 62 GLY A 76 1 15 HELIX 5 5 ALA A 77 TYR A 88 1 12 HELIX 6 6 TYR A 96 LEU A 108 1 13 HELIX 7 7 GLY A 114 PHE A 125 1 12 HELIX 8 8 SER A 142 ASP A 157 1 16 HELIX 9 9 PRO A 158 ALA A 161 5 4 HELIX 10 10 ASP A 168 GLY A 186 1 19 HELIX 11 11 ASP A 199 ALA A 208 1 10 SHEET 1 A 5 VAL A 31 ALA A 35 0 SHEET 2 A 5 VAL A 90 ASP A 94 1 O ILE A 92 N ALA A 32 SHEET 3 A 5 LEU A 2 GLU A 6 1 N ILE A 3 O LEU A 93 SHEET 4 A 5 TRP A 135 LEU A 139 1 O VAL A 137 N GLU A 6 SHEET 5 A 5 ARG A 190 VAL A 194 1 O LEU A 192 N LEU A 138 LINK OD1 ASP A 9 MG A MG A 217 1555 1555 2.40 LINK OD1 ASP A 9 MG B MG A 217 1555 1555 2.16 LINK OE1 GLU A 166 MG A MG A 217 1555 1555 2.22 LINK OE1 GLU A 166 MG B MG A 217 1555 1555 2.27 LINK MG A MG A 217 O AHOH A1009 1555 1555 1.95 LINK MG A MG A 217 O2AATYD A 218 1555 1555 2.09 LINK MG A MG A 217 O2BATYD A 218 1555 1555 1.96 LINK MG A MG A 217 O AHOH A1018 1555 1555 2.16 LINK MG B MG A 217 O2ABTTP A 219 1555 1555 2.43 LINK MG B MG A 217 O2BBTTP A 219 1555 1555 2.39 LINK MG B MG A 217 O BHOH A1009 1555 1555 2.55 LINK MG B MG A 217 O BHOH A1018 1555 1555 2.56 CISPEP 1 PHE A 36 PRO A 37 0 0.10 SITE 1 AC1 6 ASP A 9 GLU A 166 TYD A 218 TTP A 219 SITE 2 AC1 6 HOH A1009 HOH A1018 SITE 1 AC2 9 GLY A 10 GLY A 12 LYS A 13 ARG A 14 SITE 2 AC2 9 ARG A 153 HOH A1014 HOH A1027 HOH A1041 SITE 3 AC2 9 HOH A1140 SITE 1 AC3 4 ALA A 154 ARG A 162 ARG A 167 HOH A1030 SITE 1 AC4 21 ASP A 9 ARG A 14 PRO A 37 TYR A 39 SITE 2 AC4 21 PHE A 70 ARG A 74 ARG A 95 ASN A 100 SITE 3 AC4 21 TYR A 103 TYR A 165 MG A 217 HOH A1002 SITE 4 AC4 21 HOH A1009 HOH A1014 HOH A1018 HOH A1046 SITE 5 AC4 21 HOH A1119 HOH A1128 HOH A1140 HOH A1151 SITE 6 AC4 21 HOH A1234 SITE 1 AC5 17 ASP A 9 TYR A 39 PHE A 70 ARG A 74 SITE 2 AC5 17 ARG A 95 ASN A 100 TYR A 165 GLU A 166 SITE 3 AC5 17 MG A 217 HOH A1002 HOH A1009 HOH A1014 SITE 4 AC5 17 HOH A1018 HOH A1046 HOH A1119 HOH A1151 SITE 5 AC5 17 HOH A1234 CRYST1 76.248 76.248 135.114 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 0.013115 0.007572 0.000000 0.00000 SCALE2 0.000000 0.015144 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007401 0.00000 MASTER 393 0 5 11 5 0 17 6 0 0 0 17 END