HEADER TRANSFERASE 06-NOV-02 1N5K TITLE CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE TITLE 2 CRYSTALLIZED IN SODIUM MALONATE (RESOLUTION 2.1 A) COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDYLATE KINASE; COMPND 3 CHAIN: A, B; 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, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.FIORAVANTI,A.HAOUZ,T.URSBY,H.MUNIER-LEHMANN,M.DELARUE,D.BOURGEOIS REVDAT 4 14-FEB-24 1N5K 1 REMARK LINK REVDAT 3 31-JAN-18 1N5K 1 REMARK REVDAT 2 24-FEB-09 1N5K 1 VERSN REVDAT 1 15-APR-03 1N5K 0 JRNL AUTH E.FIORAVANTI,A.HAOUZ,T.URSBY,H.MUNIER-LEHMANN,M.DELARUE, JRNL AUTH 2 D.BOURGEOIS JRNL TITL MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE: STRUCTURAL JRNL TITL 2 STUDIES OF INTERMEDIATES ALONG THE REACTION PATHWAY JRNL REF J.MOL.BIOL. V. 375 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,D.BOURGEOIS REMARK 1 TITL CRYO-PHOTOLYSIS OF CAGED COMPOUNDS: A TECHNIQUE FOR TRAPPING REMARK 1 TITL 2 INTERMEDIATE STATES IN PROTEIN 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,O.BARZU, REMARK 1 AUTH 2 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 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,O.BARZU, REMARK 1 AUTH 2 M.DELARUE REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF THE REMARK 1 TITL 2 THYMIDYLATE KINASE FROM MYCOBACTERIUM 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. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1897368.070 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 27887 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 : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1353 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4394 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 228 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2915 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 237 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.64000 REMARK 3 B22 (A**2) : 3.64000 REMARK 3 B33 (A**2) : -7.27000 REMARK 3 B12 (A**2) : 3.05000 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) : 0.24 REMARK 3 ESD FROM SIGMAA (A) : 0.12 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) : 0.28 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.17 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.990 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) : 3.430 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 5.230 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.880 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.050 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 63.23 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 : ACT.PAR REMARK 3 PARAMETER FILE 5 : TMP.PAR REMARK 3 PARAMETER FILE 6 : 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 : ACT.TOP REMARK 3 TOPOLOGY FILE 5 : TMP.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: MONOMER A CONTAINS THE TMP COMPLEX. REMARK 3 MONOMER B CONTAINS THE TMP-MG++ COMPLEX. REMARK 4 REMARK 4 1N5K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-02. REMARK 100 THE DEPOSITION ID IS D_1000017545. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.936 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27942 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 19.730 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.29700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 1.0 REMARK 200 STARTING MODEL: PDB ENTRY 1GSI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4 M SODIUM MALONATE, 2% PEG 2000, REMARK 280 0.1 M MES PH 6.0, 2 MM B-MERCAPTOETHANOL, 25 MM MAGNESIUM REMARK 280 ACETATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 65.16133 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 130.32267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 130.32267 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 65.16133 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 ASYMMETRIC UNIT CONTAINS THE FUNCTIONAL DIMER. 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, 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 150 REMARK 465 ARG A 151 REMARK 465 GLY A 152 REMARK 465 ARG A 153 REMARK 465 ALA A 154 REMARK 465 GLN A 155 REMARK 465 ARG A 156 REMARK 465 ASP A 157 REMARK 465 PRO A 158 REMARK 465 GLY A 159 REMARK 465 ARG A 160 REMARK 465 ALA A 161 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 465 ASP B 157 REMARK 465 PRO B 158 REMARK 465 GLY B 159 REMARK 465 ARG B 160 REMARK 465 PRO B 209 REMARK 465 PRO B 210 REMARK 465 ASP B 211 REMARK 465 VAL B 212 REMARK 465 PRO B 213 REMARK 465 SER B 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 ARG A 14 CD NE CZ NH1 NH2 REMARK 470 GLU A 18 CD OE1 OE2 REMARK 470 GLU A 144 CD OE1 OE2 REMARK 470 GLU A 148 CG CD OE1 OE2 REMARK 470 ARG A 167 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 170 CG CD OE1 OE2 REMARK 470 GLU A 181 CD OE1 OE2 REMARK 470 ARG A 190 CD NE CZ NH1 NH2 REMARK 470 ARG B 86 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 153 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 155 CG CD OE1 NE2 REMARK 470 ARG B 156 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 167 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 190 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 202 CG CD NE CZ NH1 NH2 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 N ASP A 163 OE2 GLU A 166 1.93 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 95 138.84 82.75 REMARK 500 TYR A 96 -152.47 -151.65 REMARK 500 ALA B 27 5.56 -67.81 REMARK 500 ARG B 95 139.01 83.30 REMARK 500 TYR B 96 -149.37 -151.25 REMARK 500 ASN B 111 -169.93 -114.78 REMARK 500 ARG B 153 24.78 -67.06 REMARK 500 ALA B 154 -43.68 -149.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN HOH MOLECULES 140 AND 141 WERE BOTH NAMED 140 IN THE REMARK 600 PAPER BECAUSE THEY OCCUPY THE SAME SITE IN THE 2 MONOMERS (A AND REMARK 600 B), IN ORDER TO MAKE AN EASIER COMPARISON OF THE ACTIVE SITES. 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 B 413 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 9 OD1 REMARK 620 2 TMP B 411 O3P 95.3 REMARK 620 3 HOH B 471 O 113.9 89.6 REMARK 620 4 HOH B 513 O 85.7 90.0 160.4 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 ACT A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TMP A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TMP B 411 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GSI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE REMARK 900 COMPLEXED WITH THYMIDINE MONOPHOSPHATE (TMP) AND MAGNESIUM (1.6 A REMARK 900 RESOLUTION) REMARK 900 RELATED ID: 1G3U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE REMARK 900 COMPLEXED WITH THYMIDINE MONOPHOSPHATE (TMP) AND MAGNESIUM (1.95 A REMARK 900 RESOLUTION) REMARK 900 RELATED ID: 1N5I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF INACTIVE MYCOBACTERIUM TUBERCULOSIS REMARK 900 THYMIDYLATE KINASE COMPLEXED WITH THYMIDINE MONOPHOSPHATE (TMP) AT REMARK 900 PH 4.6 (RESOLUTION 1.85 A) REMARK 900 RELATED ID: 1N5J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE REMARK 900 COMPLEXED WITH THYMIDINE DIPHOSPHATE (TDP) AND THYMIDINE REMARK 900 TRIPHOSPHATE (TTP) AT PH 5.4 (RESOLUTION 1.85 A) REMARK 900 RELATED ID: 1N5L RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE REMARK 900 CRYSTALLIZED IN SODIUM MALONATE, AFTER CATALYSIS IN THE CRYSTAL REMARK 900 (2.3 A RESOLUTION) DBREF 1N5K A 1 214 UNP O05891 KTHY_MYCTU 1 214 DBREF 1N5K B 1 214 UNP O05891 KTHY_MYCTU 1 214 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 SEQRES 1 B 214 MET LEU ILE ALA ILE GLU GLY VAL ASP GLY ALA GLY LYS SEQRES 2 B 214 ARG THR LEU VAL GLU LYS LEU SER GLY ALA PHE ARG ALA SEQRES 3 B 214 ALA GLY ARG SER VAL ALA THR LEU ALA PHE PRO ARG TYR SEQRES 4 B 214 GLY GLN SER VAL ALA ALA ASP ILE ALA ALA GLU ALA LEU SEQRES 5 B 214 HIS GLY GLU HIS GLY ASP LEU ALA SER SER VAL TYR ALA SEQRES 6 B 214 MET ALA THR LEU PHE ALA LEU ASP ARG ALA GLY ALA VAL SEQRES 7 B 214 HIS THR ILE GLN GLY LEU CYS ARG GLY TYR ASP VAL VAL SEQRES 8 B 214 ILE LEU ASP ARG TYR VAL ALA SER ASN ALA ALA TYR SER SEQRES 9 B 214 ALA ALA ARG LEU HIS GLU ASN ALA ALA GLY LYS ALA ALA SEQRES 10 B 214 ALA TRP VAL GLN ARG ILE GLU PHE ALA ARG LEU GLY LEU SEQRES 11 B 214 PRO LYS PRO ASP TRP GLN VAL LEU LEU ALA VAL SER ALA SEQRES 12 B 214 GLU LEU ALA GLY GLU ARG SER ARG GLY ARG ALA GLN ARG SEQRES 13 B 214 ASP PRO GLY ARG ALA ARG ASP ASN TYR GLU ARG ASP ALA SEQRES 14 B 214 GLU LEU GLN GLN ARG THR GLY ALA VAL TYR ALA GLU LEU SEQRES 15 B 214 ALA ALA GLN GLY TRP GLY GLY ARG TRP LEU VAL VAL GLY SEQRES 16 B 214 ALA ASP VAL ASP PRO GLY ARG LEU ALA ALA THR LEU ALA SEQRES 17 B 214 PRO PRO ASP VAL PRO SER HET ACT A 410 4 HET ACT A 414 4 HET TMP A 409 21 HET ACT B 412 4 HET MG B 413 1 HET TMP B 411 21 HETNAM ACT ACETATE ION HETNAM TMP THYMIDINE-5'-PHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 ACT 3(C2 H3 O2 1-) FORMUL 5 TMP 2(C10 H15 N2 O8 P) FORMUL 7 MG MG 2+ FORMUL 9 HOH *237(H2 O) HELIX 1 1 GLY A 12 ALA A 27 1 16 HELIX 2 2 SER A 42 LEU A 52 1 11 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 ARG A 149 1 8 HELIX 9 9 ASP A 163 ASP A 168 1 6 HELIX 10 10 ASP A 168 GLN A 185 1 18 HELIX 11 11 ASP A 199 LEU A 207 1 9 HELIX 12 12 GLY B 12 ALA B 27 1 16 HELIX 13 13 SER B 42 LEU B 52 1 11 HELIX 14 14 ASP B 58 SER B 61 5 4 HELIX 15 15 SER B 62 GLY B 76 1 15 HELIX 16 16 ALA B 77 TYR B 88 1 12 HELIX 17 17 TYR B 96 LEU B 108 1 13 HELIX 18 18 GLY B 114 PHE B 125 1 12 HELIX 19 19 SER B 142 ARG B 156 1 15 HELIX 20 20 ASP B 168 GLY B 186 1 19 HELIX 21 21 ASP B 199 ALA B 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 5 O LEU A 93 SHEET 4 A 5 TRP A 135 LEU A 139 1 O VAL A 137 N ALA A 4 SHEET 5 A 5 TRP A 191 VAL A 194 1 O VAL A 194 N LEU A 138 SHEET 1 B 5 VAL B 31 ALA B 35 0 SHEET 2 B 5 VAL B 90 ASP B 94 1 O ILE B 92 N ALA B 32 SHEET 3 B 5 LEU B 2 GLU B 6 1 N ILE B 3 O VAL B 91 SHEET 4 B 5 TRP B 135 LEU B 139 1 O VAL B 137 N GLU B 6 SHEET 5 B 5 ARG B 190 VAL B 194 1 O VAL B 194 N LEU B 138 LINK OD1 ASP B 9 MG MG B 413 1555 1555 2.25 LINK O3P TMP B 411 MG MG B 413 1555 1555 1.82 LINK MG MG B 413 O HOH B 471 1555 1555 2.56 LINK MG MG B 413 O HOH B 513 1555 1555 2.02 CISPEP 1 PHE A 36 PRO A 37 0 0.00 CISPEP 2 PHE B 36 PRO B 37 0 0.01 SITE 1 AC1 4 GLY A 10 ALA A 11 GLY A 12 LYS A 13 SITE 1 AC2 5 GLY B 10 ALA B 11 GLY B 12 LYS B 13 SITE 2 AC2 5 ARG B 14 SITE 1 AC3 4 ARG A 122 ILE A 123 ARG A 127 ASN B 111 SITE 1 AC4 4 ASP B 9 TMP B 411 HOH B 471 HOH B 513 SITE 1 AC5 12 ASP A 9 PRO A 37 TYR A 39 PHE A 70 SITE 2 AC5 12 ARG A 74 ARG A 95 ASN A 100 TYR A 103 SITE 3 AC5 12 TYR A 165 HOH A 435 HOH A 498 HOH A 516 SITE 1 AC6 17 ASP B 9 PHE B 36 PRO B 37 TYR B 39 SITE 2 AC6 17 LEU B 52 PHE B 70 ARG B 74 ARG B 95 SITE 3 AC6 17 ASN B 100 TYR B 103 TYR B 165 MG B 413 SITE 4 AC6 17 HOH B 414 HOH B 470 HOH B 474 HOH B 512 SITE 5 AC6 17 HOH B 513 CRYST1 64.254 64.254 195.484 90.00 90.00 120.00 P 31 2 1 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 0.015563 0.008986 0.000000 0.00000 SCALE2 0.000000 0.017971 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005116 0.00000