HEADER LYASE/RNA 16-APR-05 1ZE2 TITLE CONFORMATIONAL CHANGE OF PSEUDOURIDINE 55 SYNTHASE UPON ITS TITLE 2 ASSOCIATION WITH RNA SUBSTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*GP*GP*CP*CP*AP*CP*GP*GP*UP*(FHU) COMPND 3 P*CP*GP*AP*AP*UP*CP*CP*GP*UP*GP*GP*C)-3'; COMPND 4 CHAIN: C, D; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TRNA PSEUDOURIDINE SYNTHASE B; COMPND 8 CHAIN: A, B; COMPND 9 SYNONYM: TRNA PSEUDOURIDINE 55 SYNTHASE, PSI55 SYNTHASE, COMPND 10 PSEUDOURIDYLATE SYNTHASE, URACIL HYDROLYASE; COMPND 11 EC: 4.2.1.70; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 5 ORGANISM_TAXID: 2336; SOURCE 6 GENE: TRUB; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PLM1 KEYWDS PROTEIN-RNA COMPLEX, LYASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.PHANNACHET,R.H.HUANG REVDAT 3 14-FEB-24 1ZE2 1 LINK REVDAT 2 24-FEB-09 1ZE2 1 VERSN REVDAT 1 26-APR-05 1ZE2 0 JRNL AUTH K.PHANNACHET,R.H.HUANG JRNL TITL CONFORMATIONAL CHANGE OF PSEUDOURIDINE 55 SYNTHASE UPON ITS JRNL TITL 2 ASSOCIATION WITH RNA SUBSTRATE JRNL REF NUCLEIC ACIDS RES. V. 32 1422 2004 JRNL REFN ISSN 0305-1048 JRNL PMID 14990747 JRNL DOI 10.1093/NAR/GKH287 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 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 : 21028 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.261 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1844 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 : 4176 REMARK 3 NUCLEIC ACID ATOMS : 938 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 188 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ZE2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-APR-05. REMARK 100 THE DEPOSITION ID IS D_1000032615. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL; NULL REMARK 200 TEMPERATURE (KELVIN) : NULL; NULL REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; APS REMARK 200 BEAMLINE : 14-BM-C; 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793; 0.9797, 0.9800, 0.9574 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL; NULL REMARK 200 DETECTOR MANUFACTURER : NULL; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26335 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04600 REMARK 200 FOR THE DATA SET : 15.7000 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG6000, PH 8.0, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 278K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 69.76850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 67.48750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 67.48750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.88425 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 67.48750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 67.48750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 104.65275 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 67.48750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 67.48750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 34.88425 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 67.48750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 67.48750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 104.65275 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 69.76850 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 LEU A 287 REMARK 465 GLU A 288 REMARK 465 THR A 289 REMARK 465 LEU A 290 REMARK 465 ARG A 291 REMARK 465 LYS A 292 REMARK 465 HIS A 293 REMARK 465 GLU A 294 REMARK 465 ARG A 309 REMARK 465 TRP B 68 REMARK 465 VAL B 69 REMARK 465 LYS B 70 REMARK 465 MET B 71 REMARK 465 ARG B 72 REMARK 465 LEU B 73 REMARK 465 GLY B 74 REMARK 465 LEU B 75 REMARK 465 ILE B 76 REMARK 465 THR B 77 REMARK 465 GLU B 78 REMARK 465 THR B 79 REMARK 465 PHE B 80 REMARK 465 ASP B 81 REMARK 465 ILE B 82 REMARK 465 THR B 83 REMARK 465 GLY B 84 REMARK 465 GLU B 85 REMARK 465 VAL B 86 REMARK 465 VAL B 87 REMARK 465 GLU B 88 REMARK 465 GLU B 89 REMARK 465 ARG B 90 REMARK 465 GLU B 91 REMARK 465 CYS B 92 REMARK 465 ASN B 93 REMARK 465 VAL B 94 REMARK 465 THR B 95 REMARK 465 GLU B 96 REMARK 465 GLU B 97 REMARK 465 GLU B 98 REMARK 465 ILE B 99 REMARK 465 ARG B 100 REMARK 465 GLU B 101 REMARK 465 ALA B 102 REMARK 465 ILE B 103 REMARK 465 PHE B 104 REMARK 465 SER B 105 REMARK 465 PHE B 106 REMARK 465 VAL B 107 REMARK 465 TRP B 150 REMARK 465 ASP B 151 REMARK 465 VAL B 152 REMARK 465 ASN B 153 REMARK 465 ILE B 154 REMARK 465 GLU B 155 REMARK 465 GLY B 156 REMARK 465 ARG B 157 REMARK 465 ASP B 158 REMARK 465 VAL B 159 REMARK 465 SER B 160 REMARK 465 PHE B 161 REMARK 465 SER B 173 REMARK 465 LEU B 174 REMARK 465 CYS B 175 REMARK 465 MET B 176 REMARK 465 ASP B 177 REMARK 465 ILE B 178 REMARK 465 GLY B 179 REMARK 465 TYR B 180 REMARK 465 LYS B 181 REMARK 465 LEU B 182 REMARK 465 GLY B 183 REMARK 465 CYS B 184 REMARK 465 GLY B 185 REMARK 465 ALA B 186 REMARK 465 THR B 187 REMARK 465 ALA B 188 REMARK 465 VAL B 189 REMARK 465 GLU B 190 REMARK 465 LEU B 191 REMARK 465 SER B 284 REMARK 465 SER B 285 REMARK 465 PHE B 286 REMARK 465 LEU B 287 REMARK 465 GLU B 288 REMARK 465 THR B 289 REMARK 465 LEU B 290 REMARK 465 ARG B 291 REMARK 465 LYS B 292 REMARK 465 HIS B 293 REMARK 465 GLU B 294 REMARK 465 ARG B 295 REMARK 465 GLN B 296 REMARK 465 GLU B 297 REMARK 465 ARG B 298 REMARK 465 VAL B 299 REMARK 465 LEU B 300 REMARK 465 THR B 301 REMARK 465 LEU B 302 REMARK 465 ARG B 309 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 O2' C D 16 OG1 THR B 54 2.14 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 U C 9 N1 - C1' - C2' ANGL. DEV. = 7.8 DEGREES REMARK 500 G C 12 N9 - C1' - C2' ANGL. DEV. = 8.3 DEGREES REMARK 500 A C 13 C4' - C3' - C2' ANGL. DEV. = 6.2 DEGREES REMARK 500 A C 14 C4' - C3' - O3' ANGL. DEV. = 12.3 DEGREES REMARK 500 A C 14 C4' - C3' - C2' ANGL. DEV. = 6.6 DEGREES REMARK 500 U C 15 C5' - C4' - C3' ANGL. DEV. = -9.3 DEGREES REMARK 500 G D 12 C2' - C3' - O3' ANGL. DEV. = 9.8 DEGREES REMARK 500 A D 13 C2' - C3' - O3' ANGL. DEV. = 9.8 DEGREES REMARK 500 A D 13 C4' - C3' - C2' ANGL. DEV. = 6.4 DEGREES REMARK 500 A D 14 C2' - C3' - O3' ANGL. DEV. = 15.4 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 ASN A 51 -136.19 45.76 REMARK 500 GLN A 52 -11.97 -49.15 REMARK 500 LYS A 123 55.80 -146.02 REMARK 500 LEU A 222 -32.29 -34.27 REMARK 500 TRP A 228 -162.34 -72.41 REMARK 500 LEU A 229 137.20 67.56 REMARK 500 GLN A 236 -26.50 -35.10 REMARK 500 SER A 238 -8.39 -56.04 REMARK 500 LEU A 243 4.50 -63.92 REMARK 500 SER A 246 112.11 68.33 REMARK 500 TRP A 256 -73.83 -90.28 REMARK 500 ASP A 257 85.72 67.84 REMARK 500 LYS A 260 -145.82 -90.16 REMARK 500 LYS A 261 -96.93 -94.26 REMARK 500 GLU A 271 3.67 -68.33 REMARK 500 ARG A 282 -140.78 -143.50 REMARK 500 ASN A 283 -105.90 -116.92 REMARK 500 SER A 284 61.01 -166.08 REMARK 500 ARG A 298 109.33 -54.56 REMARK 500 LYS A 304 135.15 177.03 REMARK 500 GLN A 307 47.63 -104.54 REMARK 500 PRO B 11 163.39 -47.34 REMARK 500 ARG B 24 -9.37 -59.57 REMARK 500 LYS B 31 71.23 -65.48 REMARK 500 PRO B 40 -74.59 -61.40 REMARK 500 ASN B 51 -123.16 58.59 REMARK 500 ILE B 56 46.11 -96.38 REMARK 500 PHE B 59 9.11 -63.99 REMARK 500 LEU B 63 147.66 -38.96 REMARK 500 GLU B 109 33.27 -170.66 REMARK 500 TYR B 122 -49.48 -145.56 REMARK 500 LYS B 123 48.65 -145.19 REMARK 500 LYS B 135 99.21 -68.29 REMARK 500 ARG B 143 74.87 -66.98 REMARK 500 LYS B 148 151.90 178.78 REMARK 500 ARG B 193 95.03 -53.71 REMARK 500 SER B 195 115.99 -168.10 REMARK 500 HIS B 199 106.78 -55.03 REMARK 500 THR B 200 -138.58 -59.85 REMARK 500 SER B 204 -157.62 -61.24 REMARK 500 GLU B 209 -12.52 -143.58 REMARK 500 LEU B 226 85.80 61.94 REMARK 500 LEU B 229 115.30 70.48 REMARK 500 PRO B 230 168.99 -48.05 REMARK 500 GLN B 236 -4.70 -57.68 REMARK 500 MET B 241 -63.66 -103.87 REMARK 500 LEU B 243 45.44 -85.96 REMARK 500 ASN B 244 -6.83 -170.30 REMARK 500 SER B 246 -158.04 54.96 REMARK 500 MET B 252 -52.33 -135.05 REMARK 500 REMARK 500 THIS ENTRY HAS 55 RAMACHANDRAN OUTLIERS. 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 U D 9 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZE1 RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITHOUT RNA REMARK 999 REMARK 999 SEQUENCE REMARK 999 ACCORDING TO THE AUTHORS THE CONFLICTS AT RESIDUES REMARK 999 296 AND 307 ARE LIKELY DUE TO AN ERROR IN THE DATABASE REMARK 999 SEQUENCE. DBREF 1ZE2 A 1 309 UNP Q9WZW0 TRUB_THEMA 1 309 DBREF 1ZE2 B 1 309 UNP Q9WZW0 TRUB_THEMA 1 309 DBREF 1ZE2 C 1 22 PDB 1ZE2 1ZE2 1 22 DBREF 1ZE2 D 1 22 PDB 1ZE2 1ZE2 1 22 SEQADV 1ZE2 GLN A 296 UNP Q9WZW0 ASN 296 SEE REMARK 999 SEQADV 1ZE2 GLN A 307 UNP Q9WZW0 ASN 307 SEE REMARK 999 SEQADV 1ZE2 GLN B 296 UNP Q9WZW0 ASN 296 SEE REMARK 999 SEQADV 1ZE2 GLN B 307 UNP Q9WZW0 ASN 307 SEE REMARK 999 SEQRES 1 C 22 G G C C A C G G U FHU C G A SEQRES 2 C 22 A U C C G U G G C SEQRES 1 D 22 G G C C A C G G U FHU C G A SEQRES 2 D 22 A U C C G U G G C SEQRES 1 A 309 MET LYS HIS GLY ILE LEU VAL ALA TYR LYS PRO LYS GLY SEQRES 2 A 309 PRO THR SER HIS ASP VAL VAL ASP GLU VAL ARG LYS LYS SEQRES 3 A 309 LEU LYS THR ARG LYS VAL GLY HIS GLY GLY THR LEU ASP SEQRES 4 A 309 PRO PHE ALA CYS GLY VAL LEU ILE ILE GLY VAL ASN GLN SEQRES 5 A 309 GLY THR ARG ILE LEU GLU PHE TYR LYS ASP LEU LYS LYS SEQRES 6 A 309 VAL TYR TRP VAL LYS MET ARG LEU GLY LEU ILE THR GLU SEQRES 7 A 309 THR PHE ASP ILE THR GLY GLU VAL VAL GLU GLU ARG GLU SEQRES 8 A 309 CYS ASN VAL THR GLU GLU GLU ILE ARG GLU ALA ILE PHE SEQRES 9 A 309 SER PHE VAL GLY GLU TYR ASP GLN VAL PRO PRO ALA TYR SEQRES 10 A 309 SER ALA LYS LYS TYR LYS GLY GLU ARG LEU TYR LYS LEU SEQRES 11 A 309 ALA ARG GLU GLY LYS ILE ILE ASN LEU PRO PRO LYS ARG SEQRES 12 A 309 VAL LYS ILE PHE LYS ILE TRP ASP VAL ASN ILE GLU GLY SEQRES 13 A 309 ARG ASP VAL SER PHE ARG VAL GLU VAL SER PRO GLY THR SEQRES 14 A 309 TYR ILE ARG SER LEU CYS MET ASP ILE GLY TYR LYS LEU SEQRES 15 A 309 GLY CYS GLY ALA THR ALA VAL GLU LEU VAL ARG GLU SER SEQRES 16 A 309 VAL GLY PRO HIS THR ILE GLU GLU SER LEU ASN VAL PHE SEQRES 17 A 309 GLU ALA ALA PRO GLU GLU ILE GLU ASN ARG ILE ILE PRO SEQRES 18 A 309 LEU GLU LYS CYS LEU GLU TRP LEU PRO ARG VAL VAL VAL SEQRES 19 A 309 HIS GLN GLU SER THR LYS MET ILE LEU ASN GLY SER GLN SEQRES 20 A 309 ILE HIS LEU GLU MET LEU LYS GLU TRP ASP GLY PHE LYS SEQRES 21 A 309 LYS GLY GLU VAL VAL ARG VAL PHE ASN GLU GLU GLY ARG SEQRES 22 A 309 LEU LEU ALA LEU ALA GLU ALA GLU ARG ASN SER SER PHE SEQRES 23 A 309 LEU GLU THR LEU ARG LYS HIS GLU ARG GLN GLU ARG VAL SEQRES 24 A 309 LEU THR LEU ARG LYS VAL PHE GLN THR ARG SEQRES 1 B 309 MET LYS HIS GLY ILE LEU VAL ALA TYR LYS PRO LYS GLY SEQRES 2 B 309 PRO THR SER HIS ASP VAL VAL ASP GLU VAL ARG LYS LYS SEQRES 3 B 309 LEU LYS THR ARG LYS VAL GLY HIS GLY GLY THR LEU ASP SEQRES 4 B 309 PRO PHE ALA CYS GLY VAL LEU ILE ILE GLY VAL ASN GLN SEQRES 5 B 309 GLY THR ARG ILE LEU GLU PHE TYR LYS ASP LEU LYS LYS SEQRES 6 B 309 VAL TYR TRP VAL LYS MET ARG LEU GLY LEU ILE THR GLU SEQRES 7 B 309 THR PHE ASP ILE THR GLY GLU VAL VAL GLU GLU ARG GLU SEQRES 8 B 309 CYS ASN VAL THR GLU GLU GLU ILE ARG GLU ALA ILE PHE SEQRES 9 B 309 SER PHE VAL GLY GLU TYR ASP GLN VAL PRO PRO ALA TYR SEQRES 10 B 309 SER ALA LYS LYS TYR LYS GLY GLU ARG LEU TYR LYS LEU SEQRES 11 B 309 ALA ARG GLU GLY LYS ILE ILE ASN LEU PRO PRO LYS ARG SEQRES 12 B 309 VAL LYS ILE PHE LYS ILE TRP ASP VAL ASN ILE GLU GLY SEQRES 13 B 309 ARG ASP VAL SER PHE ARG VAL GLU VAL SER PRO GLY THR SEQRES 14 B 309 TYR ILE ARG SER LEU CYS MET ASP ILE GLY TYR LYS LEU SEQRES 15 B 309 GLY CYS GLY ALA THR ALA VAL GLU LEU VAL ARG GLU SER SEQRES 16 B 309 VAL GLY PRO HIS THR ILE GLU GLU SER LEU ASN VAL PHE SEQRES 17 B 309 GLU ALA ALA PRO GLU GLU ILE GLU ASN ARG ILE ILE PRO SEQRES 18 B 309 LEU GLU LYS CYS LEU GLU TRP LEU PRO ARG VAL VAL VAL SEQRES 19 B 309 HIS GLN GLU SER THR LYS MET ILE LEU ASN GLY SER GLN SEQRES 20 B 309 ILE HIS LEU GLU MET LEU LYS GLU TRP ASP GLY PHE LYS SEQRES 21 B 309 LYS GLY GLU VAL VAL ARG VAL PHE ASN GLU GLU GLY ARG SEQRES 22 B 309 LEU LEU ALA LEU ALA GLU ALA GLU ARG ASN SER SER PHE SEQRES 23 B 309 LEU GLU THR LEU ARG LYS HIS GLU ARG GLN GLU ARG VAL SEQRES 24 B 309 LEU THR LEU ARG LYS VAL PHE GLN THR ARG MODRES 1ZE2 FHU C 10 U MODRES 1ZE2 FHU D 10 U HET FHU C 10 22 HET FHU D 10 22 HETNAM FHU (5S,6R)-5-FLUORO-6-HYDROXY-PSEUDOURIDINE-5'- HETNAM 2 FHU MONOPHOSPHATE FORMUL 1 FHU 2(C9 H14 F N2 O10 P) FORMUL 5 HOH *188(H2 O) HELIX 1 1 THR A 15 LEU A 27 1 13 HELIX 2 2 GLN A 52 TYR A 60 5 9 HELIX 3 3 THR A 95 SER A 105 1 11 HELIX 4 4 ARG A 126 GLU A 133 1 8 HELIX 5 5 TYR A 170 LEU A 182 1 13 HELIX 6 6 ALA A 211 ARG A 218 1 8 HELIX 7 7 SER A 238 LEU A 243 1 6 HELIX 8 8 THR B 15 LEU B 27 1 13 HELIX 9 9 ASN B 51 ILE B 56 1 6 HELIX 10 10 LEU B 57 LYS B 61 5 5 HELIX 11 11 ARG B 126 GLY B 134 1 9 HELIX 12 12 ALA B 211 ARG B 218 1 8 HELIX 13 13 GLU B 237 GLY B 245 5 9 SHEET 1 A 4 VAL A 32 HIS A 34 0 SHEET 2 A 4 CYS A 43 VAL A 50 -1 O GLY A 49 N GLY A 33 SHEET 3 A 4 ALA A 186 VAL A 196 1 O ARG A 193 N VAL A 45 SHEET 4 A 4 HIS A 199 THR A 200 -1 O HIS A 199 N VAL A 196 SHEET 1 B 8 GLY A 108 GLN A 112 0 SHEET 2 B 8 LYS A 142 GLU A 155 -1 O ILE A 146 N GLY A 108 SHEET 3 B 8 ASP A 158 VAL A 165 -1 O SER A 160 N ASN A 153 SHEET 4 B 8 LYS A 65 LEU A 73 -1 N VAL A 69 O PHE A 161 SHEET 5 B 8 ALA A 186 VAL A 196 -1 O THR A 187 N ARG A 72 SHEET 6 B 8 CYS A 43 VAL A 50 1 N VAL A 45 O ARG A 193 SHEET 7 B 8 GLY A 4 LYS A 10 -1 N GLY A 4 O VAL A 50 SHEET 8 B 8 ILE A 220 PRO A 221 -1 O ILE A 220 N ILE A 5 SHEET 1 C 2 LEU A 75 ILE A 76 0 SHEET 2 C 2 GLU A 88 GLU A 89 -1 O GLU A 88 N ILE A 76 SHEET 1 D 6 ILE A 248 HIS A 249 0 SHEET 2 D 6 ARG A 298 VAL A 305 -1 O LEU A 300 N ILE A 248 SHEET 3 D 6 LEU A 274 ALA A 280 -1 N GLU A 279 O THR A 301 SHEET 4 D 6 VAL A 264 PHE A 268 -1 N VAL A 267 O LEU A 275 SHEET 5 D 6 ARG A 231 VAL A 234 1 N VAL A 232 O PHE A 268 SHEET 6 D 6 LEU A 253 GLU A 255 -1 O LYS A 254 N VAL A 233 SHEET 1 E 3 GLY B 4 ILE B 5 0 SHEET 2 E 3 GLY B 49 VAL B 50 -1 O VAL B 50 N GLY B 4 SHEET 3 E 3 VAL B 32 GLY B 33 -1 N GLY B 33 O GLY B 49 SHEET 1 F 2 ALA B 8 TYR B 9 0 SHEET 2 F 2 VAL B 45 LEU B 46 -1 O LEU B 46 N ALA B 8 SHEET 1 G 3 LYS B 65 VAL B 66 0 SHEET 2 G 3 GLU B 164 VAL B 165 -1 O VAL B 165 N LYS B 65 SHEET 3 G 3 ILE B 146 LYS B 148 -1 N LYS B 148 O GLU B 164 SHEET 1 H 2 VAL B 264 PHE B 268 0 SHEET 2 H 2 LEU B 274 GLU B 279 -1 O ALA B 278 N VAL B 265 LINK O3' U C 9 P FHU C 10 1555 1555 1.60 LINK O3' FHU C 10 P C C 11 1555 1555 1.61 LINK O3' U D 9 P FHU D 10 1555 1555 1.61 LINK O3' FHU D 10 P C D 11 1555 1555 1.61 CRYST1 134.975 134.975 139.537 90.00 90.00 90.00 P 41 21 2 16 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 0.007409 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007409 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007167 0.00000