10 20 30 40 50 60 70 80 1VZE - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER METHYLTRANSFERASE 18-SEP-96 1VZE
TITLE L. CASEI THYMIDYLATE SYNTHASE MUTANT E60Q TERNARY COMPLEX TITLE 2 WITH DUMP AND CB3717
COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDYLATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TS, LCTS; 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: THYMIDYLATE SYNTHASE; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: X(CHI)2913 THY-; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PSCTS13; SOURCE 9 EXPRESSION_SYSTEM_GENE: THYMIDYLATE SYNTHASE
KEYWDS METHYLTRANSFERASE, NUCLEOTIDE SYNTHASE
EXPDTA X-RAY DIFFRACTION
AUTHOR D.L.BIRDSALL,J.FINER-MOORE,R.M.STROUD
REVDAT 2 24-FEB-09 1VZE 1 VERSN REVDAT 1 12-MAR-97 1VZE 0
JRNL AUTH D.L.BIRDSALL,W.HUANG,D.V.SANTI,R.M.STROUD, JRNL AUTH 2 J.FINER-MOORE JRNL TITL THE SEPARATE EFFECTS OF E60Q IN LACTOBACILLUS JRNL TITL 2 CASEI THYMIDYLATE SYNTHASE DELINEATE BETWEEN JRNL TITL 3 MECHANISMS FOR FORMATION OF INTERMEDIATES IN JRNL TITL 4 CATALYSIS. JRNL REF PROTEIN ENG. V. 11 171 1998 JRNL REFN ISSN 0269-2139 JRNL PMID 9613841 JRNL DOI 10.1093/PROTEIN/11.3.171
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.FINER-MOORE,E.B.FAUMAN,P.G.FOSTER,K.M.PERRY, REMARK 1 AUTH 2 D.V.SANTI,R.M.STROUD REMARK 1 TITL REFINED STRUCTURES OF SUBSTRATE-BOUND AND REMARK 1 TITL 2 PHOSPHATE-BOUND THYMIDYLATE SYNTHASE FROM REMARK 1 TITL 3 LACTOBACILLUS CASEI REMARK 1 REF J.MOL.BIOL. V. 232 1101 1993 REMARK 1 REFN ISSN 0022-2836
REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 12343 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2590 REMARK 3 NUCLEIC ACID ATOMS : 20 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 238 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.021 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.34 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.80 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL 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 : PARAM19X.PRO REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPH19X.PRO REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1VZE COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-94 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROCESS REMARK 200 DATA SCALING SOFTWARE : PROCESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12632 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 54.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07520 REMARK 200 R SYM (I) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL
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 76.90000 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 153.80000 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 115.35000 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 192.25000 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 38.45000 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 76.90000 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 153.80000 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 192.25000 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 115.35000 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 38.45000 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 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 -115.35000
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 HIS A 253 NE2 HIS A 253 CD2 -0.079 REMARK 500 HIS A 259 NE2 HIS A 259 CD2 -0.076 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 GLU A 3 CA - CB - CG ANGL. DEV. = 13.5 DEGREES REMARK 500 TYR A 6 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 LEU A 9 CA - CB - CG ANGL. DEV. = 16.4 DEGREES REMARK 500 ARG A 23 CA - CB - CG ANGL. DEV. = 22.3 DEGREES REMARK 500 THR A 24 CA - C - N ANGL. DEV. = -15.6 DEGREES REMARK 500 THR A 26 N - CA - C ANGL. DEV. = -16.7 DEGREES REMARK 500 TYR A 29 CB - CG - CD1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 37 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 TRP A 63 CD1 - CG - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 TRP A 63 CE2 - CD2 - CG ANGL. DEV. = -6.7 DEGREES REMARK 500 TRP A 82 CD1 - CG - CD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 TRP A 82 CE2 - CD2 - CG ANGL. DEV. = -5.7 DEGREES REMARK 500 TRP A 85 CD1 - CG - CD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TRP A 85 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 TRP A 90 CD1 - CG - CD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 TRP A 90 CE2 - CD2 - CG ANGL. DEV. = -5.1 DEGREES REMARK 500 SER A 93 CA - C - N ANGL. DEV. = -15.4 DEGREES REMARK 500 MET A 101 CG - SD - CE ANGL. DEV. = -10.4 DEGREES REMARK 500 ARG A 107 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ALA A 115 N - CA - C ANGL. DEV. = -25.1 DEGREES REMARK 500 MET A 122 CG - SD - CE ANGL. DEV. = -11.4 DEGREES REMARK 500 ASP A 126 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 VAL A 129 CG1 - CB - CG2 ANGL. DEV. = -10.7 DEGREES REMARK 500 ASP A 132 CA - C - N ANGL. DEV. = -13.5 DEGREES REMARK 500 VAL A 145 CA - CB - CG2 ANGL. DEV. = -9.3 DEGREES REMARK 500 TRP A 150 CD1 - CG - CD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 TRP A 150 CE2 - CD2 - CG ANGL. DEV. = -4.8 DEGREES REMARK 500 TRP A 153 CD1 - CG - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 TRP A 153 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 TRP A 185 CD1 - CG - CD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 TRP A 185 CE2 - CD2 - CG ANGL. DEV. = -5.3 DEGREES REMARK 500 LEU A 201 CB - CA - C ANGL. DEV. = -11.4 DEGREES REMARK 500 LEU A 201 CA - CB - CG ANGL. DEV. = 21.7 DEGREES REMARK 500 TYR A 216 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 VAL A 226 CG1 - CB - CG2 ANGL. DEV. = -14.5 DEGREES REMARK 500 TYR A 261 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 277 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 LEU A 282 CA - CB - CG ANGL. DEV. = 14.8 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 PRO A 5 -58.68 -15.56 REMARK 500 ASP A 15 -70.42 -99.62 REMARK 500 PRO A 21 155.54 -29.54 REMARK 500 ARG A 23 -74.98 -42.29 REMARK 500 HIS A 25 65.65 -27.12 REMARK 500 HIS A 34 137.46 -174.45 REMARK 500 LEU A 40 14.16 -62.08 REMARK 500 PRO A 45 46.14 -73.56 REMARK 500 LYS A 50 138.72 -170.28 REMARK 500 ARG A 78 18.13 46.97 REMARK 500 LYS A 92 72.88 -115.25 REMARK 500 SER A 93 172.01 179.43 REMARK 500 ASP A 94 -54.56 -29.20 REMARK 500 TYR A 96 91.69 -49.94 REMARK 500 HIS A 97 73.29 -108.34 REMARK 500 ASP A 100 78.65 26.39 REMARK 500 PHE A 104 -31.58 -20.21 REMARK 500 GLN A 109 -85.23 -70.33 REMARK 500 LYS A 110 55.43 -94.50 REMARK 500 PRO A 112 -111.75 -84.67 REMARK 500 ALA A 115 -97.79 -106.80 REMARK 500 VAL A 117 -56.29 74.53 REMARK 500 ALA A 137 -54.89 -11.18 REMARK 500 TYR A 146 -30.70 -29.88 REMARK 500 LYS A 157 43.17 -82.26 REMARK 500 ASP A 159 153.62 -49.67 REMARK 500 TYR A 176 5.93 -69.33 REMARK 500 ASN A 207 -117.05 -85.54 REMARK 500 ASP A 290 103.37 126.18 REMARK 500 MET A 296 -57.26 -22.44 REMARK 500 ASP A 298 2.58 -68.38 REMARK 500 ASN A 303 42.02 74.81 REMARK 500 PRO A 308 146.29 -36.43 REMARK 500 PRO A 313 109.13 -43.49 REMARK 500 VAL A 314 -146.79 -65.31 REMARK 500 ALA A 315 -112.72 -117.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 312 PRO A 313 147.00 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 HIS A 154 0.09 SIDE_CHAIN REMARK 500 TYR A 205 0.07 SIDE_CHAIN REMARK 500 TYR A 216 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 328 DISTANCE = 12.70 ANGSTROMS REMARK 525 HOH A 335 DISTANCE = 7.06 ANGSTROMS REMARK 525 HOH A 339 DISTANCE = 5.38 ANGSTROMS REMARK 525 HOH A 340 DISTANCE = 8.93 ANGSTROMS REMARK 525 HOH A 346 DISTANCE = 12.19 ANGSTROMS REMARK 525 HOH A 347 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH A 348 DISTANCE = 13.61 ANGSTROMS REMARK 525 HOH A 349 DISTANCE = 13.99 ANGSTROMS REMARK 525 HOH A 350 DISTANCE = 20.48 ANGSTROMS REMARK 525 HOH A 351 DISTANCE = 37.08 ANGSTROMS REMARK 525 HOH A 352 DISTANCE = 16.38 ANGSTROMS REMARK 525 HOH A 353 DISTANCE = 11.38 ANGSTROMS REMARK 525 HOH A 354 DISTANCE = 5.24 ANGSTROMS REMARK 525 HOH A 357 DISTANCE = 5.48 ANGSTROMS REMARK 525 HOH A 361 DISTANCE = 9.30 ANGSTROMS REMARK 525 HOH A 362 DISTANCE = 14.84 ANGSTROMS REMARK 525 HOH A 363 DISTANCE = 10.40 ANGSTROMS REMARK 525 HOH A 365 DISTANCE = 10.05 ANGSTROMS REMARK 525 HOH A 369 DISTANCE = 6.86 ANGSTROMS REMARK 525 HOH A 370 DISTANCE = 16.54 ANGSTROMS REMARK 525 HOH A 373 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A 378 DISTANCE = 7.23 ANGSTROMS REMARK 525 HOH A 379 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH A 380 DISTANCE = 8.92 ANGSTROMS REMARK 525 HOH A 382 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A 385 DISTANCE = 9.36 ANGSTROMS REMARK 525 HOH A 386 DISTANCE = 9.51 ANGSTROMS REMARK 525 HOH A 387 DISTANCE = 11.56 ANGSTROMS REMARK 525 HOH A 388 DISTANCE = 8.88 ANGSTROMS REMARK 525 HOH A 389 DISTANCE = 19.92 ANGSTROMS REMARK 525 HOH A 395 DISTANCE = 9.38 ANGSTROMS REMARK 525 HOH A 397 DISTANCE = 13.71 ANGSTROMS REMARK 525 HOH A 399 DISTANCE = 7.79 ANGSTROMS REMARK 525 HOH A 401 DISTANCE = 8.60 ANGSTROMS REMARK 525 HOH A 405 DISTANCE = 5.64 ANGSTROMS REMARK 525 HOH A 406 DISTANCE = 13.95 ANGSTROMS REMARK 525 HOH A 407 DISTANCE = 8.06 ANGSTROMS REMARK 525 HOH A 408 DISTANCE = 14.45 ANGSTROMS REMARK 525 HOH A 411 DISTANCE = 9.42 ANGSTROMS REMARK 525 HOH A 412 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH A 415 DISTANCE = 17.59 ANGSTROMS REMARK 525 HOH A 421 DISTANCE = 8.67 ANGSTROMS REMARK 525 HOH A 423 DISTANCE = 5.76 ANGSTROMS REMARK 525 HOH A 425 DISTANCE = 5.23 ANGSTROMS REMARK 525 HOH A 427 DISTANCE = 5.31 ANGSTROMS REMARK 525 HOH A 432 DISTANCE = 11.56 ANGSTROMS REMARK 525 HOH A 433 DISTANCE = 13.20 ANGSTROMS REMARK 525 HOH A 436 DISTANCE = 7.92 ANGSTROMS REMARK 525 HOH A 437 DISTANCE = 10.35 ANGSTROMS REMARK 525 HOH A 438 DISTANCE = 10.92 ANGSTROMS REMARK 525 HOH A 439 DISTANCE = 9.99 ANGSTROMS REMARK 525 HOH A 442 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH A 443 DISTANCE = 18.54 ANGSTROMS REMARK 525 HOH A 445 DISTANCE = 14.88 ANGSTROMS REMARK 525 HOH A 446 DISTANCE = 12.39 ANGSTROMS REMARK 525 HOH A 447 DISTANCE = 5.27 ANGSTROMS REMARK 525 HOH A 448 DISTANCE = 12.29 ANGSTROMS REMARK 525 HOH A 449 DISTANCE = 19.35 ANGSTROMS REMARK 525 HOH A 450 DISTANCE = 26.58 ANGSTROMS REMARK 525 HOH A 451 DISTANCE = 7.65 ANGSTROMS REMARK 525 HOH A 452 DISTANCE = 9.46 ANGSTROMS REMARK 525 HOH A 453 DISTANCE = 22.14 ANGSTROMS REMARK 525 HOH A 454 DISTANCE = 23.42 ANGSTROMS REMARK 525 HOH A 455 DISTANCE = 25.83 ANGSTROMS REMARK 525 HOH A 456 DISTANCE = 31.68 ANGSTROMS REMARK 525 HOH A 457 DISTANCE = 40.64 ANGSTROMS REMARK 525 HOH A 461 DISTANCE = 5.02 ANGSTROMS REMARK 525 HOH A 462 DISTANCE = 21.53 ANGSTROMS REMARK 525 HOH A 463 DISTANCE = 20.52 ANGSTROMS REMARK 525 HOH A 464 DISTANCE = 30.28 ANGSTROMS REMARK 525 HOH A 465 DISTANCE = 31.74 ANGSTROMS REMARK 525 HOH A 466 DISTANCE = 37.08 ANGSTROMS REMARK 525 HOH A 467 DISTANCE = 25.62 ANGSTROMS REMARK 525 HOH A 468 DISTANCE = 31.39 ANGSTROMS REMARK 525 HOH A 469 DISTANCE = 10.07 ANGSTROMS REMARK 525 HOH A 470 DISTANCE = 17.43 ANGSTROMS REMARK 525 HOH A 471 DISTANCE = 24.50 ANGSTROMS REMARK 525 HOH A 472 DISTANCE = 45.11 ANGSTROMS REMARK 525 HOH A 473 DISTANCE = 34.10 ANGSTROMS REMARK 525 HOH A 474 DISTANCE = 43.12 ANGSTROMS REMARK 525 HOH A 475 DISTANCE = 17.20 ANGSTROMS REMARK 525 HOH A 476 DISTANCE = 19.48 ANGSTROMS REMARK 525 HOH A 477 DISTANCE = 18.55 ANGSTROMS REMARK 525 HOH A 478 DISTANCE = 11.06 ANGSTROMS REMARK 525 HOH A 479 DISTANCE = 11.81 ANGSTROMS REMARK 525 HOH A 480 DISTANCE = 8.44 ANGSTROMS REMARK 525 HOH A 481 DISTANCE = 17.95 ANGSTROMS REMARK 525 HOH A 483 DISTANCE = 15.48 ANGSTROMS REMARK 525 HOH A 484 DISTANCE = 13.92 ANGSTROMS REMARK 525 HOH A 487 DISTANCE = 15.28 ANGSTROMS REMARK 525 HOH A 488 DISTANCE = 15.19 ANGSTROMS REMARK 525 HOH A 489 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A 490 DISTANCE = 15.22 ANGSTROMS REMARK 525 HOH A 491 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A 492 DISTANCE = 17.28 ANGSTROMS REMARK 525 HOH A 493 DISTANCE = 11.45 ANGSTROMS REMARK 525 HOH A 494 DISTANCE = 17.22 ANGSTROMS REMARK 525 HOH A 496 DISTANCE = 15.68 ANGSTROMS REMARK 525 HOH A 497 DISTANCE = 11.86 ANGSTROMS REMARK 525 HOH A 498 DISTANCE = 10.22 ANGSTROMS REMARK 525 HOH A 499 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH A 500 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH A 502 DISTANCE = 6.55 ANGSTROMS REMARK 525 HOH A 504 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH A 506 DISTANCE = 8.62 ANGSTROMS REMARK 525 HOH A 507 DISTANCE = 12.91 ANGSTROMS REMARK 525 HOH A 509 DISTANCE = 8.11 ANGSTROMS REMARK 525 HOH A 511 DISTANCE = 19.11 ANGSTROMS REMARK 525 HOH A 512 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A 517 DISTANCE = 14.71 ANGSTROMS REMARK 525 HOH A 518 DISTANCE = 7.80 ANGSTROMS REMARK 525 HOH A 523 DISTANCE = 31.60 ANGSTROMS REMARK 525 HOH A 524 DISTANCE = 18.40 ANGSTROMS REMARK 525 HOH A 527 DISTANCE = 6.54 ANGSTROMS REMARK 525 HOH A 528 DISTANCE = 10.32 ANGSTROMS REMARK 525 HOH A 529 DISTANCE = 9.37 ANGSTROMS REMARK 525 HOH A 530 DISTANCE = 5.80 ANGSTROMS REMARK 525 HOH A 534 DISTANCE = 7.63 ANGSTROMS REMARK 525 HOH A 536 DISTANCE = 7.20 ANGSTROMS REMARK 525 HOH A 537 DISTANCE = 8.57 ANGSTROMS REMARK 525 HOH A 538 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A 542 DISTANCE = 9.23 ANGSTROMS REMARK 525 HOH A 543 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A 545 DISTANCE = 5.24 ANGSTROMS REMARK 525 HOH A 546 DISTANCE = 7.05 ANGSTROMS REMARK 525 HOH A 547 DISTANCE = 17.80 ANGSTROMS REMARK 525 HOH A 548 DISTANCE = 11.07 ANGSTROMS REMARK 525 HOH A 550 DISTANCE = 5.50 ANGSTROMS REMARK 525 HOH A 553 DISTANCE = 5.66 ANGSTROMS REMARK 525 HOH A 554 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH A 556 DISTANCE = 7.43 ANGSTROMS
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 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CB3 A 318
DBREF 1VZE A 1 316 UNP P00469 TYSY_LACCA 1 316
SEQADV 1VZE GLN A 60 UNP P00469 GLU 60 ENGINEERED SEQADV 1VZE ALA A 111 UNP P00469 ASP 111 CONFLICT
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 GLN 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 ALA 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 TYR 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 21 HET CB3 A 318 39
HETNAM UMP 2'-DEOXYURIDINE 5'-MONOPHOSPHATE HETNAM CB3 10-PROPARGYL-5,8-DIDEAZAFOLIC ACID
HETSYN UMP DUMP
FORMUL 2 UMP C9 H13 N2 O8 P FORMUL 3 CB3 C24 H23 N5 O6 FORMUL 4 HOH *238(H2 O)
HELIX 1 1 GLN A 4 GLU A 16 1 13 HELIX 2 2 PHE A 54 HIS A 66 1 13 HELIX 3 3 ILE A 71 HIS A 77 1 7 HELIX 4 4 ASP A 83 TRP A 90 1 8 HELIX 5 5 GLY A 105 GLN A 109 1 5 HELIX 6 6 TYR A 118 HIS A 131 1 14 HELIX 7 7 ASP A 133 TYR A 139 1 7 HELIX 8 8 TYR A 146 ARG A 151 1 6 HELIX 9 9 GLN A 163 THR A 173 1 11 HELIX 10 10 PRO A 187 VAL A 190 1 4 HELIX 11 11 VAL A 226 CYS A 244 1 19 HELIX 12 12 VAL A 262 SER A 273 5 12 HELIX 13 13 ILE A 291 ASP A 293 5 3 HELIX 14 14 MET A 296 ASP A 298 5 3
SHEET 1 A 4 HIS A 18 LYS A 20 0 SHEET 2 A 4 THR A 28 PHE A 32 -1 N SER A 30 O HIS A 18 SHEET 3 A 4 ASP A 257 TYR A 261 -1 N LEU A 260 O TYR A 29 SHEET 4 A 4 SER A 219 ASP A 221 1 N ALA A 220 O ASP A 257 SHEET 1 B 5 HIS A 34 ASP A 39 0 SHEET 2 B 5 GLU A 250 PHE A 255 -1 N PHE A 255 O HIS A 34 SHEET 3 B 5 LEU A 211 GLN A 217 1 N LEU A 213 O ILE A 252 SHEET 4 B 5 HIS A 199 VAL A 206 -1 N TYR A 205 O SER A 212 SHEET 5 B 5 ILE A 181 SER A 183 -1 N VAL A 182 O TYR A 202 SHEET 1 C 2 THR A 281 LEU A 284 0 SHEET 2 C 2 ILE A 299 LEU A 302 -1 N LEU A 302 O THR A 281
LINK SG CYS A 198 C6 UMP A 317 1555 1555 1.82
SITE 1 AC1 14 ARG A 23 ARG A 178 ARG A 179 LEU A 195 SITE 2 AC1 14 CYS A 198 HIS A 199 ARG A 218 SER A 219 SITE 3 AC1 14 HIS A 259 TYR A 261 CB3 A 318 HOH A 334 SITE 4 AC1 14 HOH A 417 HOH A 533 SITE 1 AC2 9 ARG A 23 LEU A 56 ILE A 81 ASP A 221 SITE 2 AC2 9 LEU A 224 ASN A 229 TYR A 261 UMP A 317 SITE 3 AC2 9 HOH A 532
CRYST1 78.900 78.900 230.700 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 0.012674 0.007317 0.000000 0.00000
SCALE2 0.000000 0.014635 0.000000 0.00000
SCALE3 0.000000 0.000000 0.004335 0.00000