HEADER TRANSFERASE/TRANSFERASE INHIBITOR 02-MAY-12 4EZ8 TITLE CRYSTAL STRUCTURE OF MOUSE THYMIDYLATE SYTHASE IN TERNARY COMPLEX WITH TITLE 2 N(4)-HYDROXY-2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE AND THE COFACTOR TITLE 3 PRODUCT, DIHYDROFOLATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDYLATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TS, TSASE; COMPND 5 EC: 2.1.1.45; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: TYMS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TX61-; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPIGDM4 KEYWDS METHYLTRANSFERASE, TERNARY COMPLEX, DIHYDROFOLIC ACID, TRANSFERASE- KEYWDS 2 TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.DOWIERCIAL,A.JARMULA,W.RYPNIEWSKI,P.WILK,B.KIERDASZUK,K.BANASZAK, AUTHOR 2 K.GORECKA,W.RODE REVDAT 2 28-FEB-24 4EZ8 1 REMARK REVDAT 1 08-MAY-13 4EZ8 0 JRNL AUTH A.DOWIERCIAL,A.JARMULA,W.RYPNIEWSKI,P.WILK,B.KIERDASZUK, JRNL AUTH 2 K.BANASZAK,K.GORECKA,W.RODE JRNL TITL CRYSTAL STRUCTURES OF COMPLEXES OF MOUSE THYMIDYLATE JRNL TITL 2 SYNTHASE CRYSTALLIZED WITH N4-OH-DCMP ALONE OR IN THE JRNL TITL 3 PRESENCE OF N5,10-METHYLENETETRAHYDROFOLATE JRNL REF PTERIDINES 2013 JRNL REFN ISSN 0933-4807 REMARK 2 REMARK 2 RESOLUTION. 1.17 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.17 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 117324 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) : 0.108 REMARK 3 R VALUE (WORKING SET) : 0.107 REMARK 3 FREE R VALUE : 0.130 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5872 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) : 1.17 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.20 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7588 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 410 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2319 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 478 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.01000 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): 0.025 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.026 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.015 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.702 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.985 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.980 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2756 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1953 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3763 ; 2.013 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4760 ; 1.032 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 350 ; 6.294 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 139 ;38.057 ;23.741 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 493 ;12.120 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;18.325 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 380 ; 0.132 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3173 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 599 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1606 ; 2.341 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 641 ; 0.794 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2632 ; 3.388 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1150 ; 4.888 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1120 ; 6.785 ; 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): 4709 ; 2.114 ; 3.000 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 : NULL 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 : 1.40 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 U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 4EZ8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000072254. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-DEC-11 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 117370 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.170 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.17 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.48800 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES, PEG 8K, MGACETATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 280K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z 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 44.14850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.14850 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.56050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 56.02250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.56050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.02250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.14850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.56050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 56.02250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 44.14850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.56050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 56.02250 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: 7150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 605 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 717 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 744 LIES ON A SPECIAL POSITION. 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 LEU A 2 REMARK 465 VAL A 3 REMARK 465 VAL A 4 REMARK 465 GLY A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 LEU A 8 REMARK 465 GLN A 9 REMARK 465 SER A 10 REMARK 465 ASP A 11 REMARK 465 ALA A 12 REMARK 465 GLN A 13 REMARK 465 GLN A 14 REMARK 465 LEU A 15 REMARK 465 SER A 16 REMARK 465 ALA A 17 REMARK 465 GLU A 18 REMARK 465 ALA A 19 REMARK 465 PRO A 20 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 OE1 GLU A 64 O HOH A 833 1.77 REMARK 500 O HOH A 895 O HOH A 912 1.79 REMARK 500 SG CYS A 189 C6 NOH A 401 1.87 REMARK 500 NZ LYS A 272 O HOH A 889 1.99 REMARK 500 O HOH A 528 O HOH A 845 2.03 REMARK 500 O HOH A 601 O HOH A 849 2.06 REMARK 500 O HOH A 530 O HOH A 896 2.09 REMARK 500 OE1 GLU A 122 O HOH A 755 2.10 REMARK 500 O HOH A 647 O HOH A 972 2.11 REMARK 500 O HOH A 857 O HOH A 858 2.11 REMARK 500 O HOH A 740 O HOH A 876 2.13 REMARK 500 O HOH A 781 O HOH A 859 2.14 REMARK 500 O HOH A 857 O HOH A 901 2.14 REMARK 500 CD LYS A 302 O HOH A 920 2.14 REMARK 500 O HOH A 927 O HOH A 972 2.17 REMARK 500 O HOH A 695 O HOH A 954 2.17 REMARK 500 O HOH A 504 O HOH A 844 2.18 REMARK 500 O HOH A 652 O HOH A 737 2.18 REMARK 500 CD ARG A 120 O HOH A 567 2.18 REMARK 500 O HOH A 601 O HOH A 925 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 NH2 ARG A 36 O HOH A 678 3655 1.73 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 GLU A 64 CD GLU A 64 OE1 -0.095 REMARK 500 GLU A 122 CD GLU A 122 OE2 -0.087 REMARK 500 GLU A 288 CD GLU A 288 OE2 0.066 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 36 NE - CZ - NH1 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG A 268 NE - CZ - NH1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 277 NE - CZ - NH2 ANGL. DEV. = 3.6 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 PHE A 117 53.78 -102.23 REMARK 500 VAL A 128 -156.19 -97.42 REMARK 500 HIS A 135 32.95 -144.40 REMARK 500 HIS A 135 32.95 -144.75 REMARK 500 LYS A 141 -79.45 -118.33 REMARK 500 LYS A 141 -80.42 -118.15 REMARK 500 LEU A 215 -64.94 -97.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 268 0.07 SIDE CHAIN 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 NOH A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DHF A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4EIN RELATED DB: PDB DBREF 4EZ8 A 1 307 UNP P07607 TYSY_MOUSE 1 307 SEQRES 1 A 307 MET LEU VAL VAL GLY SER GLU LEU GLN SER ASP ALA GLN SEQRES 2 A 307 GLN LEU SER ALA GLU ALA PRO ARG HIS GLY GLU LEU GLN SEQRES 3 A 307 TYR LEU ARG GLN VAL GLU HIS ILE LEU ARG CYS GLY PHE SEQRES 4 A 307 LYS LYS GLU ASP ARG THR GLY THR GLY THR LEU SER VAL SEQRES 5 A 307 PHE GLY MET GLN ALA ARG TYR SER LEU ARG ASP GLU PHE SEQRES 6 A 307 PRO LEU LEU THR THR LYS ARG VAL PHE TRP LYS GLY VAL SEQRES 7 A 307 LEU GLU GLU LEU LEU TRP PHE ILE LYS GLY SER THR ASN SEQRES 8 A 307 ALA LYS GLU LEU SER SER LYS GLY VAL ARG ILE TRP ASP SEQRES 9 A 307 ALA ASN GLY SER ARG ASP PHE LEU ASP SER LEU GLY PHE SEQRES 10 A 307 SER ALA ARG GLN GLU GLY ASP LEU GLY PRO VAL TYR GLY SEQRES 11 A 307 PHE GLN TRP ARG HIS PHE GLY ALA GLU TYR LYS ASP MET SEQRES 12 A 307 ASP SER ASP TYR SER GLY GLN GLY VAL ASP GLN LEU GLN SEQRES 13 A 307 LYS VAL ILE ASP THR ILE LYS THR ASN PRO ASP ASP ARG SEQRES 14 A 307 ARG ILE ILE MET CYS ALA TRP ASN PRO LYS ASP LEU PRO SEQRES 15 A 307 LEU MET ALA LEU PRO PRO CYS HIS ALA LEU CYS GLN PHE SEQRES 16 A 307 TYR VAL VAL ASN GLY GLU LEU SER CYS GLN LEU TYR GLN SEQRES 17 A 307 ARG SER GLY ASP MET GLY LEU GLY VAL PRO PHE ASN ILE SEQRES 18 A 307 ALA SER TYR ALA LEU LEU THR TYR MET ILE ALA HIS ILE SEQRES 19 A 307 THR GLY LEU GLN PRO GLY ASP PHE VAL HIS THR LEU GLY SEQRES 20 A 307 ASP ALA HIS ILE TYR LEU ASN HIS ILE GLU PRO LEU LYS SEQRES 21 A 307 ILE GLN LEU GLN ARG GLU PRO ARG PRO PHE PRO LYS LEU SEQRES 22 A 307 LYS ILE LEU ARG LYS VAL GLU THR ILE ASP ASP PHE LYS SEQRES 23 A 307 VAL GLU ASP PHE GLN ILE GLU GLY TYR ASN PRO HIS PRO SEQRES 24 A 307 THR ILE LYS MET GLU MET ALA VAL HET NOH A 401 21 HET DHF A 402 32 HET GOL A 403 6 HET GOL A 404 6 HETNAM NOH 2'-DEOXY-N-HYDROXYCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) HETNAM DHF DIHYDROFOLIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NOH C9 H14 N3 O8 P FORMUL 3 DHF C19 H21 N7 O6 FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 HOH *478(H2 O) HELIX 1 1 GLY A 23 GLY A 38 1 16 HELIX 2 2 PHE A 74 LYS A 87 1 14 HELIX 3 3 ASN A 91 SER A 97 1 7 HELIX 4 4 SER A 108 LEU A 115 1 8 HELIX 5 5 VAL A 128 PHE A 136 1 9 HELIX 6 6 ASP A 153 ASN A 165 1 13 HELIX 7 7 ASP A 180 MET A 184 5 5 HELIX 8 8 LEU A 215 GLY A 236 1 22 HELIX 9 9 HIS A 255 GLN A 264 1 10 HELIX 10 10 THR A 281 PHE A 285 5 5 HELIX 11 11 LYS A 286 GLU A 288 5 3 SHEET 1 A 6 PHE A 39 LYS A 41 0 SHEET 2 A 6 THR A 49 SER A 60 -1 O SER A 51 N PHE A 39 SHEET 3 A 6 GLN A 238 TYR A 252 -1 O PHE A 242 N TYR A 59 SHEET 4 A 6 GLU A 201 ASP A 212 1 N LEU A 202 O GLY A 240 SHEET 5 A 6 HIS A 190 VAL A 198 -1 N TYR A 196 O SER A 203 SHEET 6 A 6 ILE A 172 CYS A 174 -1 N MET A 173 O CYS A 193 SHEET 1 B 2 LYS A 272 ILE A 275 0 SHEET 2 B 2 PHE A 290 GLU A 293 -1 O GLN A 291 N LYS A 274 SITE 1 AC1 20 ARG A 44 TRP A 103 ARG A 169 ARG A 170 SITE 2 AC1 20 LEU A 186 CYS A 189 HIS A 190 GLN A 208 SITE 3 AC1 20 ARG A 209 SER A 210 GLY A 211 ASP A 212 SITE 4 AC1 20 ASN A 220 HIS A 250 TYR A 252 DHF A 402 SITE 5 AC1 20 HOH A 510 HOH A 534 HOH A 564 HOH A 692 SITE 1 AC2 23 PHE A 74 ILE A 102 TRP A 103 ASN A 106 SITE 2 AC2 23 ASP A 212 LEU A 215 GLY A 216 MET A 305 SITE 3 AC2 23 ALA A 306 NOH A 401 HOH A 515 HOH A 540 SITE 4 AC2 23 HOH A 559 HOH A 564 HOH A 609 HOH A 633 SITE 5 AC2 23 HOH A 652 HOH A 692 HOH A 838 HOH A 898 SITE 6 AC2 23 HOH A 936 HOH A 957 HOH A 958 SITE 1 AC3 9 LYS A 41 GLU A 42 ASP A 167 VAL A 198 SITE 2 AC3 9 ASN A 199 HOH A 525 HOH A 636 HOH A 721 SITE 3 AC3 9 HOH A 978 SITE 1 AC4 5 TYR A 295 HOH A 539 HOH A 614 HOH A 695 SITE 2 AC4 5 HOH A 850 CRYST1 71.121 112.045 88.297 90.00 90.00 90.00 C 2 2 21 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 0.014061 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008925 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011325 0.00000