HEADER TRANSFERASE 20-JAN-11 3QEJ TITLE S74E-DCK MUTANT IN COMPLEX WITH UDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYCYTIDINE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DCK; COMPND 5 EC: 2.7.1.74; COMPND 6 ENGINEERED: YES; COMPND 7 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: DCK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA/BETA, PHOSPHORYL TRANSFER, ATP BINDING, PHOSPHORYLATION, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.HAZRA,A.LAVIE REVDAT 4 21-FEB-24 3QEJ 1 REMARK SEQADV REVDAT 3 08-MAY-13 3QEJ 1 COMPND VERSN REVDAT 2 20-APR-11 3QEJ 1 JRNL REVDAT 1 16-MAR-11 3QEJ 0 JRNL AUTH S.HAZRA,A.SZEWCZAK,S.ORT,M.KONRAD,A.LAVIE JRNL TITL POST-TRANSLATIONAL PHOSPHORYLATION OF SERINE 74 OF HUMAN JRNL TITL 2 DEOXYCYTIDINE KINASE FAVORS THE ENZYME ADOPTING THE OPEN JRNL TITL 3 CONFORMATION MAKING IT COMPETENT FOR NUCLEOSIDE BINDING AND JRNL TITL 4 RELEASE. JRNL REF BIOCHEMISTRY V. 50 2870 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21351740 JRNL DOI 10.1021/BI2001032 REMARK 2 REMARK 2 RESOLUTION. 2.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0053 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) : 2.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 16284 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) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1900 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) : 2.49 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1256 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 151 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3891 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 90 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.24000 REMARK 3 B22 (A**2) : -2.24000 REMARK 3 B33 (A**2) : 4.48000 REMARK 3 B12 (A**2) : 0.00000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.064 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.131 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.010 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4035 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5471 ; 1.387 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 464 ; 5.747 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 206 ;43.732 ;24.757 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 719 ;18.753 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;20.962 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 586 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3042 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2334 ; 0.532 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3775 ; 1.016 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1701 ; 1.534 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1696 ; 2.432 ; 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 : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 19 A 260 1 REMARK 3 1 B 19 B 260 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 1928 ; 0.05 ; 0.05 REMARK 3 TIGHT THERMAL 1 B (A**2): 1928 ; 0.08 ; 0.50 REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.498 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -H, K, -L REMARK 3 TWIN FRACTION : 0.502 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 3QEJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063544. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18394 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15 MG/ML PROTEIN MIXED WITH 0.9-1.5M REMARK 280 TRISODIUM CITRATE DI-HYDRATE AND 100 MM TRIS, PH 7.5, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.18500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 30.09250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 90.27750 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 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 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 PRO A 4 REMARK 465 PRO A 5 REMARK 465 LYS A 6 REMARK 465 ARG A 7 REMARK 465 SER A 8 REMARK 465 SER A 9 REMARK 465 PRO A 10 REMARK 465 SER A 11 REMARK 465 PHE A 12 REMARK 465 SER A 13 REMARK 465 ALA A 14 REMARK 465 SER A 15 REMARK 465 SER A 16 REMARK 465 GLU A 17 REMARK 465 GLY A 18 REMARK 465 GLN A 62 REMARK 465 SER A 63 REMARK 465 THR A 64 REMARK 465 GLN A 65 REMARK 465 ASP A 66 REMARK 465 GLU A 67 REMARK 465 PHE A 68 REMARK 465 GLU A 69 REMARK 465 MET B -18 REMARK 465 GLY B -17 REMARK 465 SER B -16 REMARK 465 SER B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 THR B 3 REMARK 465 PRO B 4 REMARK 465 PRO B 5 REMARK 465 LYS B 6 REMARK 465 ARG B 7 REMARK 465 SER B 8 REMARK 465 SER B 9 REMARK 465 PRO B 10 REMARK 465 SER B 11 REMARK 465 PHE B 12 REMARK 465 SER B 13 REMARK 465 ALA B 14 REMARK 465 SER B 15 REMARK 465 SER B 16 REMARK 465 GLU B 17 REMARK 465 GLY B 18 REMARK 465 SER B 63 REMARK 465 THR B 64 REMARK 465 GLN B 65 REMARK 465 ASP B 66 REMARK 465 GLU B 67 REMARK 465 PHE B 68 REMARK 465 GLU B 69 REMARK 465 GLU B 70 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 57 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 61 CG1 CG2 REMARK 470 GLU A 70 CG CD OE1 OE2 REMARK 470 ARG B 57 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 62 CG CD OE1 NE2 REMARK 470 LEU B 71 CG CD1 CD2 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 O SER A 45 O HOH A 284 2.06 REMARK 500 O ALA A 107 O HOH A 281 2.08 REMARK 500 OE1 GLU B 127 O HOH B 295 2.09 REMARK 500 O TRP A 48 O HOH A 284 2.11 REMARK 500 O THR B 36 O HOH B 282 2.17 REMARK 500 OE2 GLU B 53 O HOH B 277 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 265 O HOH A 286 4454 2.13 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 ARG A 104 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG B 104 NE - CZ - NH2 ANGL. DEV. = 3.9 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 LYS A 42 -50.94 -27.74 REMARK 500 LEU A 71 -67.14 -139.37 REMARK 500 THR A 72 129.20 27.25 REMARK 500 LYS A 88 76.21 -163.74 REMARK 500 LYS A 121 75.08 -112.78 REMARK 500 ARG A 128 -179.72 69.79 REMARK 500 ASN B 60 -170.35 -64.54 REMARK 500 VAL B 61 -95.99 -144.14 REMARK 500 LYS B 88 76.45 -164.98 REMARK 500 LYS B 121 73.42 -115.69 REMARK 500 ARG B 128 -176.58 65.11 REMARK 500 ASP B 241 139.84 -38.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B 402 DBREF 3QEJ A 1 260 UNP P27707 DCK_HUMAN 1 260 DBREF 3QEJ B 1 260 UNP P27707 DCK_HUMAN 1 260 SEQADV 3QEJ MET A -18 UNP P27707 EXPRESSION TAG SEQADV 3QEJ GLY A -17 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER A -16 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER A -15 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A -14 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A -13 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A -12 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A -11 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A -10 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A -9 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER A -8 UNP P27707 EXPRESSION TAG SEQADV 3QEJ GLY A -7 UNP P27707 EXPRESSION TAG SEQADV 3QEJ LEU A -6 UNP P27707 EXPRESSION TAG SEQADV 3QEJ VAL A -5 UNP P27707 EXPRESSION TAG SEQADV 3QEJ PRO A -4 UNP P27707 EXPRESSION TAG SEQADV 3QEJ ARG A -3 UNP P27707 EXPRESSION TAG SEQADV 3QEJ GLY A -2 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER A -1 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS A 0 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER A 9 UNP P27707 CYS 9 VARIANT SEQADV 3QEJ SER A 45 UNP P27707 CYS 45 VARIANT SEQADV 3QEJ SER A 59 UNP P27707 CYS 59 VARIANT SEQADV 3QEJ GLU A 74 UNP P27707 SER 74 ENGINEERED MUTATION SEQADV 3QEJ SER A 146 UNP P27707 CYS 146 VARIANT SEQADV 3QEJ MET B -18 UNP P27707 EXPRESSION TAG SEQADV 3QEJ GLY B -17 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER B -16 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER B -15 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B -14 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B -13 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B -12 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B -11 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B -10 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B -9 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER B -8 UNP P27707 EXPRESSION TAG SEQADV 3QEJ GLY B -7 UNP P27707 EXPRESSION TAG SEQADV 3QEJ LEU B -6 UNP P27707 EXPRESSION TAG SEQADV 3QEJ VAL B -5 UNP P27707 EXPRESSION TAG SEQADV 3QEJ PRO B -4 UNP P27707 EXPRESSION TAG SEQADV 3QEJ ARG B -3 UNP P27707 EXPRESSION TAG SEQADV 3QEJ GLY B -2 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER B -1 UNP P27707 EXPRESSION TAG SEQADV 3QEJ HIS B 0 UNP P27707 EXPRESSION TAG SEQADV 3QEJ SER B 9 UNP P27707 CYS 9 VARIANT SEQADV 3QEJ SER B 45 UNP P27707 CYS 45 VARIANT SEQADV 3QEJ SER B 59 UNP P27707 CYS 59 VARIANT SEQADV 3QEJ GLU B 74 UNP P27707 SER 74 ENGINEERED MUTATION SEQADV 3QEJ SER B 146 UNP P27707 CYS 146 VARIANT SEQRES 1 A 279 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLY LEU SEQRES 2 A 279 VAL PRO ARG GLY SER HIS MET ALA THR PRO PRO LYS ARG SEQRES 3 A 279 SER SER PRO SER PHE SER ALA SER SER GLU GLY THR ARG SEQRES 4 A 279 ILE LYS LYS ILE SER ILE GLU GLY ASN ILE ALA ALA GLY SEQRES 5 A 279 LYS SER THR PHE VAL ASN ILE LEU LYS GLN LEU SER GLU SEQRES 6 A 279 ASP TRP GLU VAL VAL PRO GLU PRO VAL ALA ARG TRP SER SEQRES 7 A 279 ASN VAL GLN SER THR GLN ASP GLU PHE GLU GLU LEU THR SEQRES 8 A 279 MET GLU GLN LYS ASN GLY GLY ASN VAL LEU GLN MET MET SEQRES 9 A 279 TYR GLU LYS PRO GLU ARG TRP SER PHE THR PHE GLN THR SEQRES 10 A 279 TYR ALA CYS LEU SER ARG ILE ARG ALA GLN LEU ALA SER SEQRES 11 A 279 LEU ASN GLY LYS LEU LYS ASP ALA GLU LYS PRO VAL LEU SEQRES 12 A 279 PHE PHE GLU ARG SER VAL TYR SER ASP ARG TYR ILE PHE SEQRES 13 A 279 ALA SER ASN LEU TYR GLU SER GLU SER MET ASN GLU THR SEQRES 14 A 279 GLU TRP THR ILE TYR GLN ASP TRP HIS ASP TRP MET ASN SEQRES 15 A 279 ASN GLN PHE GLY GLN SER LEU GLU LEU ASP GLY ILE ILE SEQRES 16 A 279 TYR LEU GLN ALA THR PRO GLU THR CYS LEU HIS ARG ILE SEQRES 17 A 279 TYR LEU ARG GLY ARG ASN GLU GLU GLN GLY ILE PRO LEU SEQRES 18 A 279 GLU TYR LEU GLU LYS LEU HIS TYR LYS HIS GLU SER TRP SEQRES 19 A 279 LEU LEU HIS ARG THR LEU LYS THR ASN PHE ASP TYR LEU SEQRES 20 A 279 GLN GLU VAL PRO ILE LEU THR LEU ASP VAL ASN GLU ASP SEQRES 21 A 279 PHE LYS ASP LYS TYR GLU SER LEU VAL GLU LYS VAL LYS SEQRES 22 A 279 GLU PHE LEU SER THR LEU SEQRES 1 B 279 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLY LEU SEQRES 2 B 279 VAL PRO ARG GLY SER HIS MET ALA THR PRO PRO LYS ARG SEQRES 3 B 279 SER SER PRO SER PHE SER ALA SER SER GLU GLY THR ARG SEQRES 4 B 279 ILE LYS LYS ILE SER ILE GLU GLY ASN ILE ALA ALA GLY SEQRES 5 B 279 LYS SER THR PHE VAL ASN ILE LEU LYS GLN LEU SER GLU SEQRES 6 B 279 ASP TRP GLU VAL VAL PRO GLU PRO VAL ALA ARG TRP SER SEQRES 7 B 279 ASN VAL GLN SER THR GLN ASP GLU PHE GLU GLU LEU THR SEQRES 8 B 279 MET GLU GLN LYS ASN GLY GLY ASN VAL LEU GLN MET MET SEQRES 9 B 279 TYR GLU LYS PRO GLU ARG TRP SER PHE THR PHE GLN THR SEQRES 10 B 279 TYR ALA CYS LEU SER ARG ILE ARG ALA GLN LEU ALA SER SEQRES 11 B 279 LEU ASN GLY LYS LEU LYS ASP ALA GLU LYS PRO VAL LEU SEQRES 12 B 279 PHE PHE GLU ARG SER VAL TYR SER ASP ARG TYR ILE PHE SEQRES 13 B 279 ALA SER ASN LEU TYR GLU SER GLU SER MET ASN GLU THR SEQRES 14 B 279 GLU TRP THR ILE TYR GLN ASP TRP HIS ASP TRP MET ASN SEQRES 15 B 279 ASN GLN PHE GLY GLN SER LEU GLU LEU ASP GLY ILE ILE SEQRES 16 B 279 TYR LEU GLN ALA THR PRO GLU THR CYS LEU HIS ARG ILE SEQRES 17 B 279 TYR LEU ARG GLY ARG ASN GLU GLU GLN GLY ILE PRO LEU SEQRES 18 B 279 GLU TYR LEU GLU LYS LEU HIS TYR LYS HIS GLU SER TRP SEQRES 19 B 279 LEU LEU HIS ARG THR LEU LYS THR ASN PHE ASP TYR LEU SEQRES 20 B 279 GLN GLU VAL PRO ILE LEU THR LEU ASP VAL ASN GLU ASP SEQRES 21 B 279 PHE LYS ASP LYS TYR GLU SER LEU VAL GLU LYS VAL LYS SEQRES 22 B 279 GLU PHE LEU SER THR LEU HET UDP A 401 25 HET UDP B 402 25 HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 3 UDP 2(C9 H14 N2 O12 P2) FORMUL 5 HOH *90(H2 O) HELIX 1 1 GLY A 33 SER A 45 1 13 HELIX 2 2 GLU A 53 ASN A 60 1 8 HELIX 3 3 THR A 72 LYS A 88 1 17 HELIX 4 4 LYS A 88 LYS A 115 1 28 HELIX 5 5 SER A 129 ILE A 136 1 8 HELIX 6 6 ILE A 136 SER A 144 1 9 HELIX 7 7 ASN A 148 GLY A 167 1 20 HELIX 8 8 GLN A 168 LEU A 170 5 3 HELIX 9 9 THR A 181 GLY A 193 1 13 HELIX 10 10 ARG A 194 GLN A 198 5 5 HELIX 11 11 PRO A 201 LEU A 217 1 17 HELIX 12 12 PHE A 225 GLU A 230 5 6 HELIX 13 13 TYR A 246 SER A 258 1 13 HELIX 14 14 GLY B 33 GLN B 43 1 11 HELIX 15 15 GLU B 53 SER B 59 1 7 HELIX 16 16 THR B 72 LYS B 88 1 17 HELIX 17 17 LYS B 88 LYS B 115 1 28 HELIX 18 18 SER B 129 ILE B 136 1 8 HELIX 19 19 ILE B 136 SER B 144 1 9 HELIX 20 20 ASN B 148 GLY B 167 1 20 HELIX 21 21 GLN B 168 LEU B 170 5 3 HELIX 22 22 THR B 181 GLY B 193 1 13 HELIX 23 23 ARG B 194 GLN B 198 5 5 HELIX 24 24 PRO B 201 LEU B 217 1 17 HELIX 25 25 PHE B 225 GLU B 230 5 6 HELIX 26 26 TYR B 246 SER B 258 1 13 SHEET 1 A 5 TRP A 48 VAL A 51 0 SHEET 2 A 5 VAL A 123 GLU A 127 1 O PHE A 125 N GLU A 49 SHEET 3 A 5 LYS A 22 GLU A 27 1 N LYS A 22 O LEU A 124 SHEET 4 A 5 GLY A 174 GLN A 179 1 O ILE A 176 N GLU A 27 SHEET 5 A 5 ILE A 233 ASP A 237 1 O LEU A 234 N TYR A 177 SHEET 1 B 5 TRP B 48 VAL B 51 0 SHEET 2 B 5 VAL B 123 GLU B 127 1 O PHE B 125 N GLU B 49 SHEET 3 B 5 LYS B 22 GLU B 27 1 N LYS B 22 O LEU B 124 SHEET 4 B 5 GLY B 174 GLN B 179 1 O ILE B 176 N GLU B 27 SHEET 5 B 5 ILE B 233 ASP B 237 1 O LEU B 234 N TYR B 177 SITE 1 AC1 12 ALA A 31 ALA A 32 GLY A 33 LYS A 34 SITE 2 AC1 12 SER A 35 THR A 36 ARG A 188 ARG A 192 SITE 3 AC1 12 ASP A 241 PHE A 242 LYS A 243 HOH A 296 SITE 1 AC2 15 ASN B 29 ALA B 31 ALA B 32 GLY B 33 SITE 2 AC2 15 LYS B 34 SER B 35 THR B 36 ARG B 188 SITE 3 AC2 15 ARG B 192 ASP B 241 PHE B 242 LYS B 243 SITE 4 AC2 15 HOH B 281 HOH B 286 HOH B 295 CRYST1 68.430 68.430 120.370 90.00 90.00 90.00 P 41 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014613 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014613 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008308 0.00000