HEADER TRANSFERASE 04-FEB-07 2ORV TITLE HUMAN THYMIDINE KINASE 1 IN COMPLEX WITH TP4A COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDINE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.1.21; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TK1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(D3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS TK-1 (THYMIDINE KINASE 1), TP4A (P1-(5'-ADENOSYL)P4-(5'- KEYWDS 2 (2'DEOXYTHYMIDIL))TETRAPHOSPHATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.SEGURA-PENA,S.LUTZ,C.MONNERJAHN,M.KONRAD,A.LAVIE REVDAT 6 21-FEB-24 2ORV 1 REMARK REVDAT 5 20-OCT-21 2ORV 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2ORV 1 VERSN REVDAT 3 24-FEB-09 2ORV 1 VERSN REVDAT 2 22-MAY-07 2ORV 1 JRNL REVDAT 1 27-MAR-07 2ORV 0 JRNL AUTH D.SEGURA-PENA,S.LUTZ,C.MONNERJAHN,M.KONRAD,A.LAVIE JRNL TITL BINDING OF ATP TO TK1-LIKE ENZYMES IS ASSOCIATED WITH A JRNL TITL 2 CONFORMATIONAL CHANGE IN THE QUATERNARY STRUCTURE. JRNL REF J.MOL.BIOL. V. 369 129 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17407781 JRNL DOI 10.1016/J.JMB.2007.02.104 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 26191 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2604 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1768 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2840 REMARK 3 BIN FREE R VALUE SET COUNT : 184 REMARK 3 BIN FREE R VALUE : 0.3430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2479 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 49.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.13000 REMARK 3 B22 (A**2) : 4.13000 REMARK 3 B33 (A**2) : -6.19000 REMARK 3 B12 (A**2) : 2.06000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.219 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.203 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.168 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2583 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3493 ; 1.811 ; 2.008 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 319 ; 6.705 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 103 ;34.557 ;23.398 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 452 ;18.747 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;18.981 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 398 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1865 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1207 ; 0.234 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1751 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 148 ; 0.208 ; 0.200 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): 50 ; 0.309 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.225 ; 0.200 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): 1640 ; 0.938 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2554 ; 1.632 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1060 ; 2.127 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 939 ; 3.357 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER 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 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : B A REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 18 B 191 4 REMARK 3 1 A 18 A 191 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 B (A): 1228 ; 0.210 ; 0.500 REMARK 3 MEDIUM THERMAL 1 B (A**2): 1228 ; 0.740 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2ORV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000041508. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8 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) : 1.072 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 225 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE, XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34789 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.080 REMARK 200 RESOLUTION RANGE LOW (A) : 19.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.5400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 79.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.18 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.35400 REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.8 M NACL, 0.1M MES, 0.1M NAH2PO4, REMARK 280 0.1M KH2PO4, PH 4.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K 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 52.12000 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 104.24000 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 104.24000 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 52.12000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 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 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 104.24000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 MET A 1 REMARK 465 SER A 2 REMARK 465 CYS A 3 REMARK 465 ILE A 4 REMARK 465 ASN A 5 REMARK 465 LEU A 6 REMARK 465 PRO A 7 REMARK 465 THR A 8 REMARK 465 VAL A 9 REMARK 465 LEU A 10 REMARK 465 PRO A 11 REMARK 465 GLY A 12 REMARK 465 SER A 13 REMARK 465 PRO A 14 REMARK 465 SER A 15 REMARK 465 LYS A 16 REMARK 465 THR A 17 REMARK 465 SER A 62 REMARK 465 SER A 63 REMARK 465 SER A 64 REMARK 465 PHE A 65 REMARK 465 CYS A 66 REMARK 465 THR A 67 REMARK 465 HIS A 68 REMARK 465 ASP A 69 REMARK 465 ARG A 70 REMARK 465 ASN A 71 REMARK 465 THR A 72 REMARK 465 LYS A 192 REMARK 465 ALA A 193 REMARK 465 SER A 194 REMARK 465 GLY A 195 REMARK 465 GLN A 196 REMARK 465 PRO A 197 REMARK 465 ALA A 198 REMARK 465 GLY A 199 REMARK 465 PRO A 200 REMARK 465 ASP A 201 REMARK 465 ASN A 202 REMARK 465 ALA A 203 REMARK 465 ALA A 204 REMARK 465 ASN A 205 REMARK 465 CYS A 206 REMARK 465 PRO A 207 REMARK 465 VAL A 208 REMARK 465 PRO A 209 REMARK 465 GLY A 210 REMARK 465 LYS A 211 REMARK 465 PRO A 212 REMARK 465 GLY A 213 REMARK 465 GLU A 214 REMARK 465 ALA A 215 REMARK 465 VAL A 216 REMARK 465 ALA A 217 REMARK 465 ALA A 218 REMARK 465 ARG A 219 REMARK 465 LYS A 220 REMARK 465 LEU A 221 REMARK 465 PHE A 222 REMARK 465 ALA A 223 REMARK 465 PRO A 224 REMARK 465 GLN A 225 REMARK 465 GLN A 226 REMARK 465 ILE A 227 REMARK 465 LEU A 228 REMARK 465 GLN A 229 REMARK 465 CYS A 230 REMARK 465 SER A 231 REMARK 465 PRO A 232 REMARK 465 ALA A 233 REMARK 465 ASN A 234 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 CYS B 3 REMARK 465 ILE B 4 REMARK 465 ASN B 5 REMARK 465 LEU B 6 REMARK 465 PRO B 7 REMARK 465 THR B 8 REMARK 465 VAL B 9 REMARK 465 LEU B 10 REMARK 465 PRO B 11 REMARK 465 GLY B 12 REMARK 465 SER B 13 REMARK 465 PRO B 14 REMARK 465 SER B 15 REMARK 465 LYS B 16 REMARK 465 THR B 17 REMARK 465 THR B 59 REMARK 465 ARG B 60 REMARK 465 TYR B 61 REMARK 465 SER B 62 REMARK 465 SER B 63 REMARK 465 SER B 64 REMARK 465 PHE B 65 REMARK 465 CYS B 66 REMARK 465 THR B 67 REMARK 465 HIS B 68 REMARK 465 ASP B 69 REMARK 465 ARG B 70 REMARK 465 ASN B 71 REMARK 465 THR B 72 REMARK 465 LYS B 192 REMARK 465 ALA B 193 REMARK 465 SER B 194 REMARK 465 GLY B 195 REMARK 465 GLN B 196 REMARK 465 PRO B 197 REMARK 465 ALA B 198 REMARK 465 GLY B 199 REMARK 465 PRO B 200 REMARK 465 ASP B 201 REMARK 465 ASN B 202 REMARK 465 ALA B 203 REMARK 465 ALA B 204 REMARK 465 ASN B 205 REMARK 465 CYS B 206 REMARK 465 PRO B 207 REMARK 465 VAL B 208 REMARK 465 PRO B 209 REMARK 465 GLY B 210 REMARK 465 LYS B 211 REMARK 465 PRO B 212 REMARK 465 GLY B 213 REMARK 465 GLU B 214 REMARK 465 ALA B 215 REMARK 465 VAL B 216 REMARK 465 ALA B 217 REMARK 465 ALA B 218 REMARK 465 ARG B 219 REMARK 465 LYS B 220 REMARK 465 LEU B 221 REMARK 465 PHE B 222 REMARK 465 ALA B 223 REMARK 465 PRO B 224 REMARK 465 GLN B 225 REMARK 465 GLN B 226 REMARK 465 ILE B 227 REMARK 465 LEU B 228 REMARK 465 GLN B 229 REMARK 465 CYS B 230 REMARK 465 SER B 231 REMARK 465 PRO B 232 REMARK 465 ALA B 233 REMARK 465 ASN B 234 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 LYS A 54 CG CD CE NZ REMARK 470 TYR A 61 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 82 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 54 CG CD CE NZ REMARK 470 ARG B 82 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 CG1 ILE B 105 O HOH B 865 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 109 CB CYS A 109 SG -0.110 REMARK 500 ASP B 104 CB ASP B 104 CG 0.150 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP B 104 CB - CG - OD2 ANGL. DEV. = 9.8 DEGREES REMARK 500 LEU B 124 CA - CB - CG ANGL. DEV. = 15.4 DEGREES REMARK 500 ARG B 130 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES 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 GLN A 47 33.98 75.42 REMARK 500 THR A 59 70.77 -118.22 REMARK 500 GLU A 98 47.50 38.28 REMARK 500 ALA A 123 148.10 -170.99 REMARK 500 THR A 127 -173.71 -68.40 REMARK 500 ILE B 45 -5.31 -59.25 REMARK 500 GLN B 47 33.50 80.55 REMARK 500 CYS B 156 -6.14 -147.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 4TA A 801 REMARK 610 4TA B 802 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 A 235 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 153 SG REMARK 620 2 CYS A 156 SG 112.4 REMARK 620 3 CYS A 185 SG 114.1 110.8 REMARK 620 4 CYS A 188 SG 98.2 114.5 106.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 235 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 153 SG REMARK 620 2 CYS B 156 SG 113.3 REMARK 620 3 CYS B 185 SG 111.9 116.4 REMARK 620 4 CYS B 188 SG 101.6 115.6 96.0 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 ZN A 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4TA A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4TA B 802 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ORW RELATED DB: PDB REMARK 900 THERMOTOGA MARITIMA THYMIDINE KINASE 1 LIKE ENZYME IN COMPLEX WITH REMARK 900 TP4A DBREF 2ORV A 1 234 UNP P04183 KITH_HUMAN 1 234 DBREF 2ORV B 1 234 UNP P04183 KITH_HUMAN 1 234 SEQADV 2ORV ALA A 203 UNP P04183 LYS 203 ENGINEERED MUTATION SEQADV 2ORV ALA A 204 UNP P04183 GLU 204 ENGINEERED MUTATION SEQADV 2ORV ALA B 203 UNP P04183 LYS 203 ENGINEERED MUTATION SEQADV 2ORV ALA B 204 UNP P04183 GLU 204 ENGINEERED MUTATION SEQRES 1 A 234 MET SER CYS ILE ASN LEU PRO THR VAL LEU PRO GLY SER SEQRES 2 A 234 PRO SER LYS THR ARG GLY GLN ILE GLN VAL ILE LEU GLY SEQRES 3 A 234 PRO MET PHE SER GLY LYS SER THR GLU LEU MET ARG ARG SEQRES 4 A 234 VAL ARG ARG PHE GLN ILE ALA GLN TYR LYS CYS LEU VAL SEQRES 5 A 234 ILE LYS TYR ALA LYS ASP THR ARG TYR SER SER SER PHE SEQRES 6 A 234 CYS THR HIS ASP ARG ASN THR MET GLU ALA LEU PRO ALA SEQRES 7 A 234 CYS LEU LEU ARG ASP VAL ALA GLN GLU ALA LEU GLY VAL SEQRES 8 A 234 ALA VAL ILE GLY ILE ASP GLU GLY GLN PHE PHE PRO ASP SEQRES 9 A 234 ILE VAL GLU PHE CYS GLU ALA MET ALA ASN ALA GLY LYS SEQRES 10 A 234 THR VAL ILE VAL ALA ALA LEU ASP GLY THR PHE GLN ARG SEQRES 11 A 234 LYS PRO PHE GLY ALA ILE LEU ASN LEU VAL PRO LEU ALA SEQRES 12 A 234 GLU SER VAL VAL LYS LEU THR ALA VAL CYS MET GLU CYS SEQRES 13 A 234 PHE ARG GLU ALA ALA TYR THR LYS ARG LEU GLY THR GLU SEQRES 14 A 234 LYS GLU VAL GLU VAL ILE GLY GLY ALA ASP LYS TYR HIS SEQRES 15 A 234 SER VAL CYS ARG LEU CYS TYR PHE LYS LYS ALA SER GLY SEQRES 16 A 234 GLN PRO ALA GLY PRO ASP ASN ALA ALA ASN CYS PRO VAL SEQRES 17 A 234 PRO GLY LYS PRO GLY GLU ALA VAL ALA ALA ARG LYS LEU SEQRES 18 A 234 PHE ALA PRO GLN GLN ILE LEU GLN CYS SER PRO ALA ASN SEQRES 1 B 234 MET SER CYS ILE ASN LEU PRO THR VAL LEU PRO GLY SER SEQRES 2 B 234 PRO SER LYS THR ARG GLY GLN ILE GLN VAL ILE LEU GLY SEQRES 3 B 234 PRO MET PHE SER GLY LYS SER THR GLU LEU MET ARG ARG SEQRES 4 B 234 VAL ARG ARG PHE GLN ILE ALA GLN TYR LYS CYS LEU VAL SEQRES 5 B 234 ILE LYS TYR ALA LYS ASP THR ARG TYR SER SER SER PHE SEQRES 6 B 234 CYS THR HIS ASP ARG ASN THR MET GLU ALA LEU PRO ALA SEQRES 7 B 234 CYS LEU LEU ARG ASP VAL ALA GLN GLU ALA LEU GLY VAL SEQRES 8 B 234 ALA VAL ILE GLY ILE ASP GLU GLY GLN PHE PHE PRO ASP SEQRES 9 B 234 ILE VAL GLU PHE CYS GLU ALA MET ALA ASN ALA GLY LYS SEQRES 10 B 234 THR VAL ILE VAL ALA ALA LEU ASP GLY THR PHE GLN ARG SEQRES 11 B 234 LYS PRO PHE GLY ALA ILE LEU ASN LEU VAL PRO LEU ALA SEQRES 12 B 234 GLU SER VAL VAL LYS LEU THR ALA VAL CYS MET GLU CYS SEQRES 13 B 234 PHE ARG GLU ALA ALA TYR THR LYS ARG LEU GLY THR GLU SEQRES 14 B 234 LYS GLU VAL GLU VAL ILE GLY GLY ALA ASP LYS TYR HIS SEQRES 15 B 234 SER VAL CYS ARG LEU CYS TYR PHE LYS LYS ALA SER GLY SEQRES 16 B 234 GLN PRO ALA GLY PRO ASP ASN ALA ALA ASN CYS PRO VAL SEQRES 17 B 234 PRO GLY LYS PRO GLY GLU ALA VAL ALA ALA ARG LYS LEU SEQRES 18 B 234 PHE ALA PRO GLN GLN ILE LEU GLN CYS SER PRO ALA ASN HET ZN A 235 1 HET 4TA A 801 33 HET ZN B 235 1 HET 4TA B 802 33 HETNAM ZN ZINC ION HETNAM 4TA P1-(5'-ADENOSYL)P4-(5'-(2'-DEOXY-THYMIDYL)) HETNAM 2 4TA TETRAPHOSPHATE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 4TA 2(C20 H25 N7 O20 P4 4-) FORMUL 7 HOH *160(H2 O) HELIX 1 1 GLY A 31 ILE A 45 1 15 HELIX 2 2 LEU A 80 ASP A 83 5 4 HELIX 3 3 VAL A 84 LEU A 89 1 6 HELIX 4 4 GLU A 98 PHE A 102 5 5 HELIX 5 5 ASP A 104 ALA A 115 1 12 HELIX 6 6 ALA A 135 ALA A 143 5 9 HELIX 7 7 CYS A 185 LYS A 191 1 7 HELIX 8 8 GLY B 31 ILE B 45 1 15 HELIX 9 9 LEU B 80 ASP B 83 5 4 HELIX 10 10 VAL B 84 LEU B 89 1 6 HELIX 11 11 GLU B 98 PHE B 102 5 5 HELIX 12 12 ASP B 104 ALA B 115 1 12 HELIX 13 13 ALA B 135 ALA B 143 5 9 HELIX 14 14 CYS B 185 PHE B 190 1 6 SHEET 1 A 6 GLU A 74 ALA A 78 0 SHEET 2 A 6 CYS A 50 TYR A 55 1 N VAL A 52 O GLU A 74 SHEET 3 A 6 VAL A 93 ILE A 96 1 O GLY A 95 N LEU A 51 SHEET 4 A 6 THR A 118 ALA A 122 1 O ILE A 120 N ILE A 96 SHEET 5 A 6 GLN A 20 LEU A 25 1 N ILE A 24 O VAL A 121 SHEET 6 A 6 SER A 145 LYS A 148 1 O VAL A 147 N LEU A 25 SHEET 1 B 2 ALA A 151 VAL A 152 0 SHEET 2 B 2 GLU A 159 ALA A 160 -1 O ALA A 160 N ALA A 151 SHEET 1 C 2 TYR A 162 ARG A 165 0 SHEET 2 C 2 TYR A 181 VAL A 184 -1 O VAL A 184 N TYR A 162 SHEET 1 D 6 GLU B 74 ALA B 78 0 SHEET 2 D 6 CYS B 50 TYR B 55 1 N LYS B 54 O LEU B 76 SHEET 3 D 6 VAL B 93 ILE B 96 1 O GLY B 95 N ILE B 53 SHEET 4 D 6 THR B 118 ALA B 122 1 O ALA B 122 N ILE B 96 SHEET 5 D 6 GLN B 20 LEU B 25 1 N ILE B 24 O VAL B 121 SHEET 6 D 6 SER B 145 LYS B 148 1 O SER B 145 N VAL B 23 SHEET 1 E 2 ALA B 151 VAL B 152 0 SHEET 2 E 2 GLU B 159 ALA B 160 -1 O ALA B 160 N ALA B 151 SHEET 1 F 2 TYR B 162 ARG B 165 0 SHEET 2 F 2 TYR B 181 VAL B 184 -1 O HIS B 182 N LYS B 164 LINK SG CYS A 153 ZN ZN A 235 1555 1555 2.45 LINK SG CYS A 156 ZN ZN A 235 1555 1555 2.01 LINK SG CYS A 185 ZN ZN A 235 1555 1555 2.49 LINK SG CYS A 188 ZN ZN A 235 1555 1555 2.30 LINK SG CYS B 153 ZN ZN B 235 1555 1555 2.39 LINK SG CYS B 156 ZN ZN B 235 1555 1555 2.26 LINK SG CYS B 185 ZN ZN B 235 1555 1555 2.48 LINK SG CYS B 188 ZN ZN B 235 1555 1555 2.43 SITE 1 AC1 4 CYS A 153 CYS A 156 CYS A 185 CYS A 188 SITE 1 AC2 4 CYS B 153 CYS B 156 CYS B 185 CYS B 188 SITE 1 AC3 30 MET A 28 PHE A 29 SER A 30 GLY A 31 SITE 2 AC3 30 LYS A 32 SER A 33 ASP A 58 ARG A 60 SITE 3 AC3 30 ASP A 97 GLU A 98 GLN A 100 PHE A 101 SITE 4 AC3 30 LEU A 124 THR A 127 PHE A 128 PHE A 133 SITE 5 AC3 30 VAL A 172 GLU A 173 VAL A 174 ILE A 175 SITE 6 AC3 30 GLY A 176 TYR A 181 HOH A 806 HOH A 810 SITE 7 AC3 30 HOH A 823 HOH A 831 HOH A 846 HOH A 863 SITE 8 AC3 30 HOH A 868 HOH A 880 SITE 1 AC4 27 MET B 28 PHE B 29 SER B 30 GLY B 31 SITE 2 AC4 27 LYS B 32 SER B 33 ASP B 58 ASP B 97 SITE 3 AC4 27 GLU B 98 GLN B 100 PHE B 101 LEU B 124 SITE 4 AC4 27 THR B 127 PHE B 128 PHE B 133 THR B 163 SITE 5 AC4 27 ARG B 165 VAL B 172 GLU B 173 VAL B 174 SITE 6 AC4 27 ILE B 175 GLY B 176 TYR B 181 HOH B 808 SITE 7 AC4 27 HOH B 821 HOH B 834 HOH B 872 CRYST1 80.980 80.980 156.360 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 0.012349 0.007130 0.000000 0.00000 SCALE2 0.000000 0.014259 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006395 0.00000