2Q0F - Header Asymmetric Unit

HEADER TRANSFERASE 21-MAY-07 2Q0F

TITLE TERMINAL URIDYLYL TRANSFERASE 4 FROM TRYPANOSOMA BRUCEI TITLE 2 WITH BOUND UTP AND UMP

COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA URIDYLYL TRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: RNA URIDYLYLTRANSFERASE 4; COMPND 5 EC: 2.7.7.52; COMPND 6 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 GENE: TUT4; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B

KEYWDS TUTASE, TRYPANOSOMA, NUCLEOTIDYLTRANSFERASE, UTP-BINDING, KEYWDS 2 RNA-EDITING

EXPDTA X-RAY DIFFRACTION

AUTHOR J.STAGNO,H.LUECKE

REVDAT 3 24-FEB-09 2Q0F 1 VERSN REVDAT 2 09-OCT-07 2Q0F 1 JRNL REVDAT 1 28-AUG-07 2Q0F 0

JRNL AUTH J.STAGNO,I.APHASIZHEVA,R.APHASIZHEV,H.LUECKE JRNL TITL DUAL ROLE OF THE RNA SUBSTRATE IN SELECTIVITY AND JRNL TITL 2 CATALYSIS BY TERMINAL URIDYLYL TRANSFERASES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 14634 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17785418 JRNL DOI 10.1073/PNAS.0704259104

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 3 NUMBER OF REFLECTIONS : 26486 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : TEST SET TAKEN FROM 2IKF REMARK 3 R VALUE (WORKING + TEST SET) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.293 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1364 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1848 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 101 REMARK 3 BIN FREE R VALUE : 0.3620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5132 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 73 REMARK 3 SOLVENT ATOMS : 184 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.683 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.339 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.289 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.733 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.885 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5318 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7225 ; 1.553 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 636 ; 6.096 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 251 ;35.658 ;23.187 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 891 ;19.004 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 47 ;19.765 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 811 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4004 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2383 ; 0.224 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3555 ; 0.309 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 263 ; 0.171 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 63 ; 0.234 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.133 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3281 ; 0.654 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5180 ; 1.151 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2300 ; 1.436 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2045 ; 2.301 ; 4.500 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 : 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 : 1.20 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 REMARK 3 RIDING POSITIONS

REMARK 4 REMARK 4 2Q0F COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAY-07. REMARK 100 THE RCSB ID CODE IS RCSB042992.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL1-5 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 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 : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26495 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 41.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 200 DATA REDUNDANCY : 3.380 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.4000 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) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.48 REMARK 200 R MERGE FOR SHELL (I) : 0.47600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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: PDB ENTRY 2IKF REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CACODYLATE, 200 MM REMARK 280 CALCIUM ACETATE, 18% PEG-8000, 4 MM MGCL2, 50 UM UTP, CRYSTALS REMARK 280 SOAKED IN 10 MM UMP FOR 30 MINUTES, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 20.96200 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL

REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA.

REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS 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 SER 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 PRO A 2 REMARK 465 LYS A 22 REMARK 465 ASP A 23 REMARK 465 LEU A 24 REMARK 465 HIS A 25 REMARK 465 THR A 26 REMARK 465 ARG A 27 REMARK 465 VAL A 333 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS 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 SER 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 PRO B 2 REMARK 465 PRO B 45 REMARK 465 LEU B 46 REMARK 465 GLY B 82 REMARK 465 GLY B 83 REMARK 465 ASP B 84 REMARK 465 ALA B 85 REMARK 465 ALA B 86 REMARK 465 THR B 87 REMARK 465 GLN B 88 REMARK 465 VAL B 89 REMARK 465 ARG B 119 REMARK 465 THR B 120 REMARK 465 ARG B 121

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 LEU A 329 O HOH A 553 2.11 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 ALA A 132 30.61 37.15 REMARK 500 SER A 216 6.44 -59.59 REMARK 500 HIS A 224 150.31 -47.95 REMARK 500 PRO A 226 121.05 -35.17 REMARK 500 TRP A 274 68.00 -106.25 REMARK 500 ARG A 283 136.74 -170.34 REMARK 500 VAL B 36 -9.93 -150.66 REMARK 500 ASP B 79 53.50 -94.81 REMARK 500 ASP B 134 82.13 -69.23 REMARK 500 ASN B 158 78.74 -152.28 REMARK 500 ASN B 203 -0.10 76.49 REMARK 500 ASP B 232 20.47 -76.84 REMARK 500 TRP B 274 56.41 -103.10 REMARK 500 TRP B 293 83.64 -154.59 REMARK 500 TYR B 299 -34.04 -130.38 REMARK 500 ASN B 302 -3.38 81.00 REMARK 500 ALA B 328 64.64 32.61 REMARK 500 REMARK 500 REMARK: NULL

REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 68 OD2 REMARK 620 2 UTP A 501 O1B 98.1 REMARK 620 3 HOH A 574 O 73.9 76.8 REMARK 620 4 ASP A 66 OD2 101.1 133.1 68.4 REMARK 620 5 UTP A 501 O3G 164.7 74.0 91.3 76.4 REMARK 620 6 HOH A 503 O 90.2 149.5 133.6 72.7 103.2 REMARK 620 7 UTP A 501 O1A 118.7 86.4 160.6 119.4 74.6 64.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 503 O REMARK 620 2 UTP A 501 O1A 74.1 REMARK 620 3 HOH A 504 O 107.3 62.0 REMARK 620 4 HOH A 603 O 148.7 130.0 76.2 REMARK 620 5 HOH A 604 O 138.5 78.0 85.3 72.1 REMARK 620 6 U5P A 502 O3' 63.7 101.7 163.6 119.0 93.3 REMARK 620 N 1 2 3 4 5

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 401 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UTP A 501 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P A 502 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P B 503

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2IKF RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH BOUND UTP SUBSTRATE. REMARK 900 RELATED ID: 2NOM RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH BOUND DUTP SUBSTRATE. REMARK 900 RELATED ID: 2Q0C RELATED DB: PDB REMARK 900 RELATED ID: 2Q0D RELATED DB: PDB REMARK 900 RELATED ID: 2Q0E RELATED DB: PDB REMARK 900 RELATED ID: 2Q0G RELATED DB: PDB

DBREF 2Q0F A 1 333 UNP Q381M1 Q381M1_9TRYP 1 333 DBREF 2Q0F B 1 333 UNP Q381M1 Q381M1_9TRYP 1 333

SEQADV 2Q0F MET A -19 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F GLY A -18 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER A -17 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER A -16 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F HIS A -15 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS A -14 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS A -13 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS A -12 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS A -11 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS A -10 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F SER A -9 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER A -8 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F GLY A -7 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F LEU A -6 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F VAL A -5 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F PRO A -4 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F ARG A -3 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F GLY A -2 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER A -1 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F HIS A 0 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F MET B -19 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F GLY B -18 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER B -17 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER B -16 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F HIS B -15 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS B -14 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS B -13 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS B -12 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS B -11 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F HIS B -10 UNP Q381M1 EXPRESSION TAG SEQADV 2Q0F SER B -9 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER B -8 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F GLY B -7 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F LEU B -6 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F VAL B -5 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F PRO B -4 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F ARG B -3 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F GLY B -2 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F SER B -1 UNP Q381M1 CLONING ARTIFACT SEQADV 2Q0F HIS B 0 UNP Q381M1 CLONING ARTIFACT

SEQRES 1 A 353 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 353 LEU VAL PRO ARG GLY SER HIS MET PRO PRO SER PRO ALA SEQRES 3 A 353 VAL VAL GLY ARG SER LEU VAL ASN SER PHE LYS GLN PHE SEQRES 4 A 353 VAL SER LYS ASP LEU HIS THR ARG HIS VAL ASP ALA THR SEQRES 5 A 353 TYR ARG LEU VAL LEU ASP CYS VAL ALA ALA VAL ASP PRO SEQRES 6 A 353 LEU MET ARG LEU TYR THR PHE GLY SER THR VAL VAL TYR SEQRES 7 A 353 GLY VAL HIS GLU LYS GLY SER ASP VAL ASP PHE VAL VAL SEQRES 8 A 353 LEU ASN LYS THR ASP VAL GLU ASP GLY LYS GLY GLY ASP SEQRES 9 A 353 ALA ALA THR GLN VAL ALA LYS GLY LEU GLN ALA ASP ILE SEQRES 10 A 353 LEU ALA LYS LEU ALA ARG VAL ILE ARG GLN LYS HIS LEU SEQRES 11 A 353 SER TRP ASN VAL GLU GLU VAL ARG ARG THR ARG VAL PRO SEQRES 12 A 353 VAL VAL ARG VAL LYS GLY GLY GLY ALA VAL ASP PHE ASP SEQRES 13 A 353 ILE THR ALA TYR ARG ARG ASN GLY VAL ARG ASN SER ALA SEQRES 14 A 353 LEU LEU ARG ALA TYR PHE GLU GLN ASN PRO PRO CYS ARG SEQRES 15 A 353 TRP LEU SER MET SER ILE LYS ARG TRP SER LYS GLN THR SEQRES 16 A 353 GLY LEU ASN ALA SER VAL ILE GLY GLY SER ILE THR SER SEQRES 17 A 353 TYR GLY PHE ASN LEU MET VAL VAL TYR TYR LEU LEU GLN SEQRES 18 A 353 ARG ASN HIS LEU GLN PHE VAL PRO PRO SER THR ILE ASP SEQRES 19 A 353 VAL SER ARG VAL GLU PRO LEU PRO PRO HIS LEU PRO LEU SEQRES 20 A 353 GLU GLU PRO ALA ASP GLU GLY LEU GLU LEU GLY THR GLN SEQRES 21 A 353 VAL LEU ASP PHE LEU HIS PHE PHE LEU HIS GLU PHE ASP SEQRES 22 A 353 SER ASP LYS GLN VAL ILE SER LEU ASN ARG PRO GLY ILE SEQRES 23 A 353 THR THR LYS GLU GLU LEU ASP TRP THR LYS SER ALA GLU SEQRES 24 A 353 ASP PHE ALA ARG MET ASN GLY GLU LYS VAL HIS TYR GLN SEQRES 25 A 353 TRP CYS ILE GLU ASP PRO TYR GLU LEU ASN LEU ASN VAL SEQRES 26 A 353 GLY ARG ASN VAL THR PRO LEU LYS ARG ASP PHE LEU ARG SEQRES 27 A 353 ARG HIS LEU GLU LYS ALA ARG ASP THR ALA LEU LEU THR SEQRES 28 A 353 ILE VAL SEQRES 1 B 353 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 353 LEU VAL PRO ARG GLY SER HIS MET PRO PRO SER PRO ALA SEQRES 3 B 353 VAL VAL GLY ARG SER LEU VAL ASN SER PHE LYS GLN PHE SEQRES 4 B 353 VAL SER LYS ASP LEU HIS THR ARG HIS VAL ASP ALA THR SEQRES 5 B 353 TYR ARG LEU VAL LEU ASP CYS VAL ALA ALA VAL ASP PRO SEQRES 6 B 353 LEU MET ARG LEU TYR THR PHE GLY SER THR VAL VAL TYR SEQRES 7 B 353 GLY VAL HIS GLU LYS GLY SER ASP VAL ASP PHE VAL VAL SEQRES 8 B 353 LEU ASN LYS THR ASP VAL GLU ASP GLY LYS GLY GLY ASP SEQRES 9 B 353 ALA ALA THR GLN VAL ALA LYS GLY LEU GLN ALA ASP ILE SEQRES 10 B 353 LEU ALA LYS LEU ALA ARG VAL ILE ARG GLN LYS HIS LEU SEQRES 11 B 353 SER TRP ASN VAL GLU GLU VAL ARG ARG THR ARG VAL PRO SEQRES 12 B 353 VAL VAL ARG VAL LYS GLY GLY GLY ALA VAL ASP PHE ASP SEQRES 13 B 353 ILE THR ALA TYR ARG ARG ASN GLY VAL ARG ASN SER ALA SEQRES 14 B 353 LEU LEU ARG ALA TYR PHE GLU GLN ASN PRO PRO CYS ARG SEQRES 15 B 353 TRP LEU SER MET SER ILE LYS ARG TRP SER LYS GLN THR SEQRES 16 B 353 GLY LEU ASN ALA SER VAL ILE GLY GLY SER ILE THR SER SEQRES 17 B 353 TYR GLY PHE ASN LEU MET VAL VAL TYR TYR LEU LEU GLN SEQRES 18 B 353 ARG ASN HIS LEU GLN PHE VAL PRO PRO SER THR ILE ASP SEQRES 19 B 353 VAL SER ARG VAL GLU PRO LEU PRO PRO HIS LEU PRO LEU SEQRES 20 B 353 GLU GLU PRO ALA ASP GLU GLY LEU GLU LEU GLY THR GLN SEQRES 21 B 353 VAL LEU ASP PHE LEU HIS PHE PHE LEU HIS GLU PHE ASP SEQRES 22 B 353 SER ASP LYS GLN VAL ILE SER LEU ASN ARG PRO GLY ILE SEQRES 23 B 353 THR THR LYS GLU GLU LEU ASP TRP THR LYS SER ALA GLU SEQRES 24 B 353 ASP PHE ALA ARG MET ASN GLY GLU LYS VAL HIS TYR GLN SEQRES 25 B 353 TRP CYS ILE GLU ASP PRO TYR GLU LEU ASN LEU ASN VAL SEQRES 26 B 353 GLY ARG ASN VAL THR PRO LEU LYS ARG ASP PHE LEU ARG SEQRES 27 B 353 ARG HIS LEU GLU LYS ALA ARG ASP THR ALA LEU LEU THR SEQRES 28 B 353 ILE VAL

HET MG A 401 1 HET MG A 402 1 HET UTP A 501 29 HET U5P A 502 21 HET U5P B 503 21

HETNAM MG MAGNESIUM ION HETNAM UTP URIDINE 5'-TRIPHOSPHATE HETNAM U5P URIDINE-5'-MONOPHOSPHATE

FORMUL 3 MG 2(MG 2+) FORMUL 5 UTP C9 H15 N2 O15 P3 FORMUL 6 U5P 2(C9 H13 N2 O9 P) FORMUL 8 HOH *184(H2 O)

HELIX 1 1 SER A 4 PHE A 16 1 13 HELIX 2 2 VAL A 29 ASP A 44 1 16 HELIX 3 3 GLY A 53 GLY A 59 1 7 HELIX 4 4 ASN A 73 ASP A 79 1 7 HELIX 5 5 THR A 87 HIS A 109 1 23 HELIX 6 6 ARG A 142 ASN A 158 1 17 HELIX 7 7 PRO A 160 THR A 175 1 16 HELIX 8 8 THR A 187 ARG A 202 1 16 HELIX 9 9 PRO A 209 ILE A 213 5 5 HELIX 10 10 ASP A 214 VAL A 218 5 5 HELIX 11 11 GLY A 234 GLU A 251 1 18 HELIX 12 12 THR A 275 ALA A 282 1 8 HELIX 13 13 THR A 310 ALA A 324 1 15 HELIX 14 14 SER B 4 ASN B 14 1 11 HELIX 15 15 PHE B 16 LYS B 22 1 7 HELIX 16 16 THR B 26 ALA B 42 1 17 HELIX 17 17 GLY B 53 GLY B 59 1 7 HELIX 18 18 ASN B 73 GLU B 78 1 6 HELIX 19 19 GLN B 94 LYS B 100 1 7 HELIX 20 20 LEU B 101 HIS B 109 1 9 HELIX 21 21 ARG B 142 ASN B 158 1 17 HELIX 22 22 CYS B 161 GLY B 176 1 16 HELIX 23 23 THR B 187 ARG B 202 1 16 HELIX 24 24 PRO B 209 ILE B 213 5 5 HELIX 25 25 GLY B 234 GLU B 251 1 18 HELIX 26 26 GLU B 270 ASP B 273 5 4 HELIX 27 27 THR B 275 ASN B 285 1 11 HELIX 28 28 THR B 310 THR B 327 1 18

SHEET 1 A 5 ARG A 48 PHE A 52 0 SHEET 2 A 5 VAL A 67 LEU A 72 -1 O VAL A 70 N TYR A 50 SHEET 3 A 5 ASP A 134 ALA A 139 1 O ASP A 136 N PHE A 69 SHEET 4 A 5 VAL A 124 LYS A 128 -1 N VAL A 127 O PHE A 135 SHEET 5 A 5 ASN A 113 VAL A 117 -1 N ASN A 113 O LYS A 128 SHEET 1 B 3 THR A 267 THR A 268 0 SHEET 2 B 3 GLN A 257 SER A 260 -1 N VAL A 258 O THR A 267 SHEET 3 B 3 ILE A 295 GLU A 296 1 O GLU A 296 N ILE A 259 SHEET 1 C 5 ARG B 48 PHE B 52 0 SHEET 2 C 5 VAL B 67 LEU B 72 -1 O LEU B 72 N ARG B 48 SHEET 3 C 5 PHE B 135 ALA B 139 1 O ASP B 136 N VAL B 67 SHEET 4 C 5 VAL B 124 LYS B 128 -1 N VAL B 125 O ILE B 137 SHEET 5 C 5 ASN B 113 GLU B 116 -1 N ASN B 113 O LYS B 128 SHEET 1 D 2 GLN B 257 VAL B 258 0 SHEET 2 D 2 THR B 267 THR B 268 -1 O THR B 267 N VAL B 258

LINK MG MG A 401 OD2 ASP A 68 1555 1555 2.18 LINK MG MG A 401 O1B UTP A 501 1555 1555 2.11 LINK MG MG A 401 O HOH A 574 1555 1555 2.42 LINK MG MG A 401 OD2 ASP A 66 1555 1555 2.55 LINK MG MG A 401 O3G UTP A 501 1555 1555 2.54 LINK MG MG A 401 O HOH A 503 1555 1555 2.52 LINK MG MG A 401 O1A UTP A 501 1555 1555 2.85 LINK MG MG A 402 O HOH A 503 1555 1555 2.48 LINK MG MG A 402 O1A UTP A 501 1555 1555 2.26 LINK MG MG A 402 O HOH A 504 1555 1555 2.61 LINK MG MG A 402 O HOH A 603 1555 1555 2.74 LINK MG MG A 402 O HOH A 604 1555 1555 2.29 LINK MG MG A 402 O3' U5P A 502 1555 1555 2.57

SITE 1 AC1 5 ASP A 66 ASP A 68 UTP A 501 HOH A 503 SITE 2 AC1 5 HOH A 574 SITE 1 AC2 6 UTP A 501 U5P A 502 HOH A 503 HOH A 504 SITE 2 AC2 6 HOH A 603 HOH A 604 SITE 1 AC3 24 PHE A 52 GLY A 53 SER A 54 SER A 65 SITE 2 AC3 24 ASP A 66 ASP A 68 GLY A 144 ASN A 147 SITE 3 AC3 24 SER A 148 LYS A 169 LYS A 173 SER A 188 SITE 4 AC3 24 TYR A 189 MG A 401 MG A 402 U5P A 502 SITE 5 AC3 24 HOH A 503 HOH A 504 HOH A 516 HOH A 535 SITE 6 AC3 24 HOH A 574 HOH A 578 HOH A 580 HOH A 604 SITE 1 AC4 15 PHE A 52 ASP A 68 ARG A 121 VAL A 122 SITE 2 AC4 15 ARG A 126 ASP A 136 MG A 402 UTP A 501 SITE 3 AC4 15 HOH A 503 HOH A 508 HOH A 559 HOH A 577 SITE 4 AC4 15 HOH A 578 HOH A 603 HOH A 604 SITE 1 AC5 11 GLY B 53 SER B 54 ASP B 68 LEU B 151 SITE 2 AC5 11 LYS B 173 SER B 188 ASN B 192 HOH B 504 SITE 3 AC5 11 HOH B 528 HOH B 554 HOH B 565

CRYST1 80.620 41.924 106.017 90.00 94.37 90.00 P 1 21 1 4

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 0.012404 0.000000 0.000947 0.00000

SCALE2 0.000000 0.023853 0.000000 0.00000

SCALE3 0.000000 0.000000 0.009460 0.00000