HEADER TRANSFERASE 02-MAR-06 2G89 TITLE L. CASEI THYMIDYLATE SYNTHASE Y261A IN COMPLEX WITH SUBSTRATE, DUMP 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; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOBACILLUS CASEI; SOURCE 3 ORGANISM_TAXID: 1582; SOURCE 4 GENE: THYA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: CHI2913RECA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSCTS9 KEYWDS ALPHA/BETA PROTEIN, BETA SHEET, DUMP-BINDING RESIDUE, DUMP COMPLEX, KEYWDS 2 ACTIVE SITE MUTATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.S.FINER-MOORE,R.M.STROUD REVDAT 6 14-FEB-24 2G89 1 REMARK REVDAT 5 20-OCT-21 2G89 1 REMARK SEQADV REVDAT 4 18-OCT-17 2G89 1 REMARK REVDAT 3 13-JUL-11 2G89 1 VERSN REVDAT 2 20-MAY-08 2G89 1 JRNL VERSN REVDAT 1 14-MAR-06 2G89 0 JRNL AUTH Z.NEWBY,T.T.LEE,R.J.MORSE,Y.LIU,L.LIU,P.VENKATRAMAN, JRNL AUTH 2 D.V.SANTI,J.S.FINER-MOORE,R.M.STROUD JRNL TITL THE ROLE OF PROTEIN DYNAMICS IN THYMIDYLATE SYNTHASE JRNL TITL 2 CATALYSIS: VARIANTS OF CONSERVED 2'-DEOXYURIDINE JRNL TITL 3 5'-MONOPHOSPHATE (DUMP)-BINDING TYR-261 JRNL REF BIOCHEMISTRY V. 45 7415 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 16768437 JRNL DOI 10.1021/BI060152S REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2448052.230 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 79.8 REMARK 3 NUMBER OF REFLECTIONS : 12873 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) : 0.182 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1320 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1583 REMARK 3 BIN R VALUE (WORKING SET) : 0.3350 REMARK 3 BIN FREE R VALUE : 0.3630 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 180 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.027 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2586 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 65 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.48000 REMARK 3 B22 (A**2) : -1.48000 REMARK 3 B33 (A**2) : 2.96000 REMARK 3 B12 (A**2) : -0.12000 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) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.48 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) : 0.38 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.60 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.026 REMARK 3 BOND ANGLES (DEGREES) : 2.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.150 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.400 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.420 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.980 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.330 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 61.94 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : PARAMED.LIG REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : UMP_PO4.TOPO REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESTRAINED REFINEMENT WITH CNS, FINAL REMARK 3 ROUND OF RESTRAINED REFINEMENT WITH REFMAC5 REMARK 4 REMARK 4 2G89 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000036812. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-96 REMARK 200 TEMPERATURE (KELVIN) : 295.0 REMARK 200 PH : 7.00 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) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS REMARK 200 DATA SCALING SOFTWARE : CCP4 (TRUNCATE) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14146 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 39.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 78.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.2 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN IN 20MM KPO4 BUFFER WITH 15 REMARK 280 -20MM AMMONIUM SULFATE, DTT AND 38MM DUMP, AGAINST 20MM KPO4 REMARK 280 BUFFER ALONE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K, REMARK 280 PH 7.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 80.32333 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 160.64667 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 120.48500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 200.80833 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 40.16167 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 80.32333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 160.64667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 200.80833 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 120.48500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 40.16167 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER, GENERATED BY APPLYING REMARK 300 THE TRANSFORMATION Y-X,Y,-1/2-Z TO THE FRACTIONAL COORDINATES IN REMARK 300 THE ASSYMETRIC UNIT, OR BY TRANSFORMING THE ORTHOGONAL COORDINATES REMARK 300 (IN ANGSTROMS) ACCORDING TO -X,Y,-121.0-Z REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 5810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 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 -120.48500 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 PHE A 114 N ALA A 116 2.18 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 198 CB CYS A 198 SG 0.104 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 37 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 HIS A 97 O - C - N ANGL. DEV. = -10.4 DEGREES REMARK 500 ASP A 162 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 208 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 221 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 LEU A 235 CB - CG - CD1 ANGL. DEV. = -11.1 DEGREES REMARK 500 GLY A 256 N - CA - C ANGL. DEV. = -15.8 DEGREES REMARK 500 ARG A 274 NE - CZ - NH2 ANGL. DEV. = 3.5 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 ASP A 15 77.98 -111.31 REMARK 500 GLU A 16 -29.62 164.42 REMARK 500 ASP A 22 -151.98 -158.48 REMARK 500 PRO A 45 46.45 -76.74 REMARK 500 LYS A 50 123.34 175.10 REMARK 500 ASP A 100 -47.15 -20.14 REMARK 500 LYS A 110 -78.75 -84.57 REMARK 500 PHE A 114 -63.41 -96.86 REMARK 500 ALA A 115 -6.11 -31.36 REMARK 500 ALA A 152 60.03 -158.32 REMARK 500 LYS A 157 33.56 -86.18 REMARK 500 ASP A 159 -151.79 -95.45 REMARK 500 ASP A 162 78.83 -101.16 REMARK 500 LEU A 180 85.39 -69.82 REMARK 500 PRO A 276 144.12 -35.47 REMARK 500 MET A 296 -62.68 -13.78 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 27 -11.13 REMARK 500 HIS A 97 -19.00 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 UMP A 317 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G86 RELATED DB: PDB REMARK 900 THYMIDYLATE SYNTHASE Y261F-DUMP COMPLEX REMARK 900 RELATED ID: 2G8A RELATED DB: PDB REMARK 900 RELATED ID: 2G8D RELATED DB: PDB REMARK 900 RELATED ID: 2G8M RELATED DB: PDB REMARK 900 RELATED ID: 2G8O RELATED DB: PDB DBREF 2G89 A 1 316 UNP P00469 TYSY_LACCA 1 316 SEQADV 2G89 ALA A 261 UNP P00469 TYR 261 ENGINEERED MUTATION SEQRES 1 A 316 MET LEU GLU GLN PRO TYR LEU ASP LEU ALA LYS LYS VAL SEQRES 2 A 316 LEU ASP GLU GLY HIS PHE LYS PRO ASP ARG THR HIS THR SEQRES 3 A 316 GLY THR TYR SER ILE PHE GLY HIS GLN MET ARG PHE ASP SEQRES 4 A 316 LEU SER LYS GLY PHE PRO LEU LEU THR THR LYS LYS VAL SEQRES 5 A 316 PRO PHE GLY LEU ILE LYS SER GLU LEU LEU TRP PHE LEU SEQRES 6 A 316 HIS GLY ASP THR ASN ILE ARG PHE LEU LEU GLN HIS ARG SEQRES 7 A 316 ASN HIS ILE TRP ASP GLU TRP ALA PHE GLU LYS TRP VAL SEQRES 8 A 316 LYS SER ASP GLU TYR HIS GLY PRO ASP MET THR ASP PHE SEQRES 9 A 316 GLY HIS ARG SER GLN LYS ASP PRO GLU PHE ALA ALA VAL SEQRES 10 A 316 TYR HIS GLU GLU MET ALA LYS PHE ASP ASP ARG VAL LEU SEQRES 11 A 316 HIS ASP ASP ALA PHE ALA ALA LYS TYR GLY ASP LEU GLY SEQRES 12 A 316 LEU VAL TYR GLY SER GLN TRP ARG ALA TRP HIS THR SER SEQRES 13 A 316 LYS GLY ASP THR ILE ASP GLN LEU GLY ASP VAL ILE GLU SEQRES 14 A 316 GLN ILE LYS THR HIS PRO TYR SER ARG ARG LEU ILE VAL SEQRES 15 A 316 SER ALA TRP ASN PRO GLU ASP VAL PRO THR MET ALA LEU SEQRES 16 A 316 PRO PRO CYS HIS THR LEU TYR GLN PHE TYR VAL ASN ASP SEQRES 17 A 316 GLY LYS LEU SER LEU GLN LEU TYR GLN ARG SER ALA ASP SEQRES 18 A 316 ILE PHE LEU GLY VAL PRO PHE ASN ILE ALA SER TYR ALA SEQRES 19 A 316 LEU LEU THR HIS LEU VAL ALA HIS GLU CYS GLY LEU GLU SEQRES 20 A 316 VAL GLY GLU PHE ILE HIS THR PHE GLY ASP ALA HIS LEU SEQRES 21 A 316 ALA VAL ASN HIS LEU ASP GLN ILE LYS GLU GLN LEU SER SEQRES 22 A 316 ARG THR PRO ARG PRO ALA PRO THR LEU GLN LEU ASN PRO SEQRES 23 A 316 ASP LYS HIS ASP ILE PHE ASP PHE ASP MET LYS ASP ILE SEQRES 24 A 316 LYS LEU LEU ASN TYR ASP PRO TYR PRO ALA ILE LYS ALA SEQRES 25 A 316 PRO VAL ALA VAL HET UMP A 317 20 HETNAM UMP 2'-DEOXYURIDINE 5'-MONOPHOSPHATE HETSYN UMP DUMP FORMUL 2 UMP C9 H13 N2 O8 P FORMUL 3 HOH *65(H2 O) HELIX 1 1 GLU A 3 ASP A 15 1 13 HELIX 2 2 PRO A 53 HIS A 66 1 14 HELIX 3 3 ILE A 71 GLN A 76 1 6 HELIX 4 4 TRP A 82 LYS A 92 1 11 HELIX 5 5 ASP A 103 ASP A 111 1 9 HELIX 6 6 VAL A 117 ASP A 132 1 16 HELIX 7 7 ASP A 132 GLY A 140 1 9 HELIX 8 8 VAL A 145 ALA A 152 1 8 HELIX 9 9 ASP A 162 HIS A 174 1 13 HELIX 10 10 ASP A 189 MET A 193 5 5 HELIX 11 11 GLY A 225 CYS A 244 1 20 HELIX 12 12 HIS A 264 SER A 273 1 10 HELIX 13 13 ASP A 290 PHE A 294 5 5 HELIX 14 14 ASP A 295 LYS A 297 5 3 SHEET 1 A 6 HIS A 18 LYS A 20 0 SHEET 2 A 6 THR A 28 ASP A 39 -1 O THR A 28 N LYS A 20 SHEET 3 A 6 GLU A 247 ALA A 261 -1 O PHE A 255 N HIS A 34 SHEET 4 A 6 LYS A 210 ASP A 221 1 N LEU A 213 O ILE A 252 SHEET 5 A 6 HIS A 199 ASN A 207 -1 N LEU A 201 O TYR A 216 SHEET 6 A 6 ILE A 181 SER A 183 -1 N VAL A 182 O TYR A 202 SHEET 1 B 2 TRP A 153 HIS A 154 0 SHEET 2 B 2 THR A 160 ILE A 161 -1 O ILE A 161 N TRP A 153 SHEET 1 C 2 THR A 281 LEU A 284 0 SHEET 2 C 2 ILE A 299 LEU A 302 -1 O LYS A 300 N GLN A 283 SITE 1 AC1 12 ARG A 23 ARG A 178 ARG A 179 HIS A 199 SITE 2 AC1 12 ARG A 218 SER A 219 ALA A 220 ASP A 221 SITE 3 AC1 12 GLY A 225 ASN A 229 HIS A 259 HOH A 355 CRYST1 78.610 78.610 240.970 90.00 90.00 120.00 P 61 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.012721 0.007344 0.000000 0.00000 SCALE2 0.000000 0.014689 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004150 0.00000 TER 2587 VAL A 316 HETATM 2588 N1 UMP A 317 14.826 48.686 -53.527 1.00 99.12 N HETATM 2589 C2 UMP A 317 14.053 47.550 -53.133 1.00100.13 C HETATM 2590 N3 UMP A 317 13.237 47.673 -52.016 1.00102.22 N HETATM 2591 C4 UMP A 317 13.177 48.864 -51.274 1.00101.36 C HETATM 2592 C5 UMP A 317 13.949 49.976 -51.667 1.00101.61 C HETATM 2593 C6 UMP A 317 14.778 49.858 -52.785 1.00100.89 C HETATM 2594 O2 UMP A 317 14.010 46.444 -53.695 1.00 98.46 O HETATM 2595 O4 UMP A 317 12.444 48.938 -50.274 1.00 99.38 O HETATM 2596 C1' UMP A 317 15.776 48.727 -54.673 1.00 96.79 C HETATM 2597 C2' UMP A 317 15.292 48.162 -55.998 1.00 93.19 C HETATM 2598 C3' UMP A 317 16.504 48.586 -56.832 1.00 90.53 C HETATM 2599 C4' UMP A 317 16.809 50.019 -56.349 1.00 87.24 C HETATM 2600 O3' UMP A 317 17.609 47.703 -56.618 1.00 86.80 O HETATM 2601 O4' UMP A 317 16.330 50.021 -54.998 1.00 92.76 O HETATM 2602 C5' UMP A 317 16.114 51.112 -57.224 1.00 77.27 C HETATM 2603 O5' UMP A 317 16.727 51.397 -58.516 1.00 61.60 O HETATM 2604 P UMP A 317 15.830 51.664 -59.841 1.00 44.09 P HETATM 2605 OP1 UMP A 317 16.573 51.872 -61.107 1.00 42.53 O HETATM 2606 OP2 UMP A 317 14.971 50.452 -59.759 1.00 44.07 O HETATM 2607 OP3 UMP A 317 15.135 52.962 -59.713 1.00 41.94 O HETATM 2608 O HOH A 318 8.537 59.808 -45.712 1.00 31.48 O HETATM 2609 O HOH A 319 7.115 62.657 -37.176 1.00 29.54 O HETATM 2610 O HOH A 321 7.554 52.142 -49.032 1.00 25.19 O HETATM 2611 O HOH A 322 -17.098 44.673 -57.442 1.00 26.47 O HETATM 2612 O HOH A 323 6.593 60.622 -57.359 1.00 22.88 O HETATM 2613 O HOH A 324 -13.277 47.340 -52.027 1.00 44.48 O HETATM 2614 O HOH A 325 3.534 53.707 -51.513 1.00 32.73 O HETATM 2615 O HOH A 326 9.866 48.610 -47.047 1.00 27.64 O HETATM 2616 O HOH A 327 6.391 63.060 -56.104 1.00 33.22 O HETATM 2617 O HOH A 328 6.056 33.589 -55.294 1.00 29.46 O HETATM 2618 O HOH A 329 -10.474 49.631 -54.478 1.00 26.71 O HETATM 2619 O HOH A 330 18.821 35.036 -34.814 1.00 35.53 O HETATM 2620 O HOH A 331 16.550 41.709 -45.925 1.00 22.63 O HETATM 2621 O HOH A 332 9.693 39.633 -43.926 1.00 30.16 O HETATM 2622 O HOH A 333 11.533 52.396 -48.469 1.00 28.07 O HETATM 2623 O HOH A 334 -1.186 66.177 -59.107 1.00 35.10 O HETATM 2624 O HOH A 335 6.694 31.722 -42.224 1.00 40.95 O HETATM 2625 O HOH A 336 26.529 53.684 -61.935 1.00 37.13 O HETATM 2626 O HOH A 337 5.127 67.731 -56.506 1.00 26.13 O HETATM 2627 O HOH A 339 -6.189 45.861 -35.033 1.00 31.43 O HETATM 2628 O HOH A 340 18.508 47.433 -52.619 1.00 52.96 O HETATM 2629 O HOH A 341 14.950 74.940 -45.840 1.00 26.29 O HETATM 2630 O HOH A 342 -7.306 53.446 -21.425 1.00 44.01 O HETATM 2631 O HOH A 343 -2.982 35.964 -56.763 1.00 43.43 O HETATM 2632 O HOH A 344 -1.551 64.064 -38.968 1.00 34.69 O HETATM 2633 O HOH A 345 20.524 49.727 -57.804 1.00 58.50 O HETATM 2634 O HOH A 347 -4.996 59.461 -55.146 1.00 39.07 O HETATM 2635 O HOH A 348 10.025 48.490 -29.524 1.00 54.15 O HETATM 2636 O HOH A 349 -14.199 58.560 -57.038 1.00 62.65 O HETATM 2637 O HOH A 350 14.611 45.736 -34.600 1.00 55.59 O HETATM 2638 O HOH A 351 -5.702 74.368 -61.322 1.00 49.53 O HETATM 2639 O HOH A 352 20.017 39.463 -42.304 1.00 43.84 O HETATM 2640 O HOH A 353 -11.219 59.249 -51.421 1.00 51.73 O HETATM 2641 O HOH A 354 28.915 48.733 -48.039 1.00 56.08 O HETATM 2642 O HOH A 355 16.201 52.061 -63.441 1.00 33.34 O HETATM 2643 O HOH A 358 -13.387 57.158 -36.367 1.00 61.18 O HETATM 2644 O HOH A 359 20.397 79.526 -46.750 1.00 37.29 O HETATM 2645 O HOH A 360 1.216 33.332 -52.799 1.00 42.69 O HETATM 2646 O HOH A 361 3.189 29.704 -41.375 1.00 53.15 O HETATM 2647 O HOH A 362 19.979 40.080 -45.417 1.00 35.60 O HETATM 2648 O HOH A 363 8.949 33.634 -35.745 1.00 53.01 O HETATM 2649 O HOH A 368 11.779 54.085 -53.025 1.00 44.66 O HETATM 2650 O HOH A 369 10.032 37.290 -66.491 1.00 57.02 O HETATM 2651 O HOH A 370 20.510 67.648 -28.071 1.00 63.98 O HETATM 2652 O HOH A 371 10.989 64.979 -37.993 1.00 33.56 O HETATM 2653 O HOH A 372 9.123 58.210 -52.267 1.00 48.03 O HETATM 2654 O HOH A 373 -13.216 56.084 -53.019 1.00 62.12 O HETATM 2655 O HOH A 374 12.621 71.471 -43.192 1.00 82.98 O HETATM 2656 O HOH A 375 26.781 35.314 -53.654 1.00 60.28 O HETATM 2657 O HOH A 377 20.269 51.721 -38.156 1.00 39.10 O HETATM 2658 O HOH A 379 6.856 34.755 -41.522 1.00 34.36 O HETATM 2659 O HOH A 382 37.209 57.134 -38.998 1.00 51.73 O HETATM 2660 O HOH A 383 -17.149 59.729 -51.131 1.00 45.30 O HETATM 2661 O HOH A 384 39.176 55.734 -52.213 1.00 37.90 O HETATM 2662 O HOH A 387 -10.457 57.545 -54.201 1.00 41.82 O HETATM 2663 O HOH A 388 20.591 67.012 -56.640 1.00 69.11 O HETATM 2664 O HOH A 389 11.535 57.241 -53.346 1.00 35.41 O HETATM 2665 O HOH A 390 12.033 60.732 -53.949 1.00 81.08 O HETATM 2666 O HOH A 391 8.606 50.281 -43.425 1.00 21.35 O HETATM 2667 O HOH A 392 9.713 51.234 -47.460 1.00 37.18 O HETATM 2668 O HOH A 393 13.236 51.147 -46.372 1.00 59.00 O HETATM 2669 O HOH A 394 18.283 42.099 -42.951 1.00 51.29 O HETATM 2670 O HOH A 395 -4.039 38.425 -37.920 1.00 49.49 O HETATM 2671 O HOH A 396 -0.565 39.227 -39.596 1.00 35.44 O HETATM 2672 O HOH A 397 -0.790 38.532 -36.941 1.00 43.48 O CONECT 2588 2589 2593 2596 CONECT 2589 2588 2590 2594 CONECT 2590 2589 2591 CONECT 2591 2590 2592 2595 CONECT 2592 2591 2593 CONECT 2593 2588 2592 CONECT 2594 2589 CONECT 2595 2591 CONECT 2596 2588 2597 2601 CONECT 2597 2596 2598 CONECT 2598 2597 2599 2600 CONECT 2599 2598 2601 2602 CONECT 2600 2598 CONECT 2601 2596 2599 CONECT 2602 2599 2603 CONECT 2603 2602 2604 CONECT 2604 2603 2605 2606 2607 CONECT 2605 2604 CONECT 2606 2604 CONECT 2607 2604 MASTER 377 0 1 14 10 0 3 6 2671 1 20 25 END