HEADER FLAVOPROTEIN 18-SEP-17 6EI9 TITLE CRYSTAL STRUCTURE OF E. COLI TRNA-DIHYDROURIDINE SYNTHASE B (DUSB) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA-DIHYDROURIDINE SYNTHASE B; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.3.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: DUSB, Z4620, ECS4132; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET15B KEYWDS OXIDOREDUCTASE, TRNA MODIFICATION, RNA BINDING PROTEIN, FLAVOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.BOU-NADER,D.HAMDANE REVDAT 3 17-JAN-24 6EI9 1 REMARK REVDAT 2 28-FEB-18 6EI9 1 JRNL REVDAT 1 17-JAN-18 6EI9 0 JRNL AUTH C.BOU-NADER,H.MONTEMONT,V.GUERINEAU,O.JEAN-JEAN,D.BREGEON, JRNL AUTH 2 D.HAMDANE JRNL TITL UNVEILING STRUCTURAL AND FUNCTIONAL DIVERGENCES OF BACTERIAL JRNL TITL 2 TRNA DIHYDROURIDINE SYNTHASES: PERSPECTIVES ON THE EVOLUTION JRNL TITL 3 SCENARIO. JRNL REF NUCLEIC ACIDS RES. V. 46 1386 2018 JRNL REFN ESSN 1362-4962 JRNL PMID 29294097 JRNL DOI 10.1093/NAR/GKX1294 REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 26834 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1342 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.55 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.65 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 3011 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2650 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2861 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.98 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 150 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4589 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 129 REMARK 3 SOLVENT ATOMS : 140 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 94.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 92.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.50770 REMARK 3 B22 (A**2) : -1.50770 REMARK 3 B33 (A**2) : 3.01550 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.340 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.404 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.253 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.418 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.258 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4893 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6724 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1640 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 119 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 710 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4893 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 641 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 5589 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.23 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.81 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 21.43 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 21.4934 32.2128 -14.6212 REMARK 3 T TENSOR REMARK 3 T11: -0.0430 T22: -0.1277 REMARK 3 T33: -0.1554 T12: 0.1766 REMARK 3 T13: 0.0356 T23: 0.0193 REMARK 3 L TENSOR REMARK 3 L11: 3.2801 L22: 1.9186 REMARK 3 L33: 1.3678 L12: -0.9749 REMARK 3 L13: 0.5913 L23: -0.5171 REMARK 3 S TENSOR REMARK 3 S11: -0.0416 S12: 0.4030 S13: -0.0749 REMARK 3 S21: -0.0221 S22: -0.0667 S23: -0.1540 REMARK 3 S31: 0.3833 S32: 0.3090 S33: 0.1083 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): -6.5707 41.9103 2.4076 REMARK 3 T TENSOR REMARK 3 T11: 0.0058 T22: -0.3405 REMARK 3 T33: -0.1761 T12: -0.0520 REMARK 3 T13: 0.0408 T23: 0.0282 REMARK 3 L TENSOR REMARK 3 L11: 2.9739 L22: 2.6986 REMARK 3 L33: 3.1568 L12: 0.1944 REMARK 3 L13: -0.4703 L23: 1.1079 REMARK 3 S TENSOR REMARK 3 S11: -0.1550 S12: -0.3297 S13: -0.1421 REMARK 3 S21: 0.4319 S22: -0.0599 S23: 0.1479 REMARK 3 S31: 0.8294 S32: -0.2177 S33: 0.2149 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6EI9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1200006652. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26834 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 48.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05516 REMARK 200 FOR THE DATA SET : 18.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 1.75300 REMARK 200 FOR SHELL : 0.840 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: 4BFA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M LITHIUM SULFATE 100 MM HEPES, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 35.15500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 52.73250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 17.57750 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER 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 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 SER A 43 REMARK 465 SER A 44 REMARK 465 ASN A 45 REMARK 465 PRO A 46 REMARK 465 GLN A 47 REMARK 465 VAL A 48 REMARK 465 TRP A 49 REMARK 465 GLU A 50 REMARK 465 SER A 51 REMARK 465 ASP A 52 REMARK 465 LYS A 53 REMARK 465 SER A 54 REMARK 465 ARG A 55 REMARK 465 LEU A 56 REMARK 465 ARG A 57 REMARK 465 MET A 58 REMARK 465 VAL A 59 REMARK 465 HIS A 60 REMARK 465 ILE A 61 REMARK 465 MET B -18 REMARK 465 GLY B -17 REMARK 465 SER B -16 REMARK 465 SER 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 HIS B -9 REMARK 465 SER B -8 REMARK 465 SER B -7 REMARK 465 GLY B -6 REMARK 465 SER B 43 REMARK 465 SER B 44 REMARK 465 ASN B 45 REMARK 465 PRO B 46 REMARK 465 GLN B 47 REMARK 465 VAL B 48 REMARK 465 TRP B 49 REMARK 465 GLU B 50 REMARK 465 SER B 51 REMARK 465 ASP B 52 REMARK 465 LYS B 53 REMARK 465 SER B 54 REMARK 465 ARG B 55 REMARK 465 LEU B 56 REMARK 465 ARG B 57 REMARK 465 MET B 58 REMARK 465 VAL B 59 REMARK 465 HIS B 60 REMARK 465 ILE B 61 REMARK 465 PHE B 320 REMARK 465 ALA B 321 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A -2 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 2 CG CD NE CZ NH1 NH2 REMARK 470 THR A 21 CG2 REMARK 470 ARG A 23 CD NE CZ NH1 NH2 REMARK 470 THR A 68 CG2 REMARK 470 LYS A 77 CD CE NZ REMARK 470 THR A 126 CG2 REMARK 470 VAL A 128 CG2 REMARK 470 THR A 137 CG2 REMARK 470 THR A 142 CG2 REMARK 470 LYS A 192 CD CE NZ REMARK 470 VAL A 193 CG2 REMARK 470 THR A 216 CG2 REMARK 470 ARG A 277 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 280 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 GLN A 295 CG CD OE1 NE2 REMARK 470 ARG A 298 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 304 CG CD OE1 OE2 REMARK 470 GLU A 308 CG CD OE1 OE2 REMARK 470 LEU A 310 CG CD1 CD2 REMARK 470 ARG B -2 CG CD NE CZ NH1 NH2 REMARK 470 THR B 21 CG2 REMARK 470 MET B 42 CG SD CE REMARK 470 LYS B 77 CD CE NZ REMARK 470 ARG B 107 CG CD NE CZ NH1 NH2 REMARK 470 THR B 126 CG2 REMARK 470 VAL B 128 CG2 REMARK 470 THR B 137 CG2 REMARK 470 THR B 142 CG2 REMARK 470 LYS B 192 CD CE NZ REMARK 470 THR B 216 CG2 REMARK 470 LYS B 256 CD CE NZ REMARK 470 ARG B 257 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 264 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 274 CG CD CE NZ REMARK 470 TYR B 276 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG B 277 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 281 CG CD CE NZ REMARK 470 GLN B 288 CG CD OE1 NE2 REMARK 470 ASP B 294 CG OD1 OD2 REMARK 470 GLN B 295 CG CD OE1 NE2 REMARK 470 PHE B 296 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 297 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 298 CG CD NE CZ NH1 NH2 REMARK 470 PHE B 300 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 304 CG CD OE1 OE2 REMARK 470 LEU B 310 CG CD1 CD2 REMARK 470 TYR B 316 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE B 317 CG CD1 CD2 CE1 CE2 CZ 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 ALA A 174 CA - C - O ANGL. DEV. = 14.5 DEGREES REMARK 500 ALA A 174 CA - C - O ANGL. DEV. = 14.7 DEGREES REMARK 500 ALA B 174 CA - C - O ANGL. DEV. = 14.3 DEGREES REMARK 500 ALA B 174 CA - C - O ANGL. DEV. = 14.7 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 SER A 0 -157.40 54.77 REMARK 500 ALA A 102 45.34 -145.64 REMARK 500 ARG A 107 -11.11 69.99 REMARK 500 ALA A 110 -167.74 -126.01 REMARK 500 LEU A 176 -124.22 58.24 REMARK 500 TYR A 270 -4.89 77.37 REMARK 500 ALA A 291 69.48 -166.80 REMARK 500 ASN A 293 62.54 -101.93 REMARK 500 THR B 21 48.87 -77.01 REMARK 500 MET B 41 173.87 -51.24 REMARK 500 ARG B 107 -10.66 70.58 REMARK 500 ALA B 110 -164.04 -127.14 REMARK 500 LEU B 176 -123.42 58.26 REMARK 500 ALA B 291 68.78 -164.92 REMARK 500 PRO B 292 1.19 -64.87 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 FMN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE B 407 DBREF 6EI9 A 1 321 UNP P0ABT7 DUSB_ECO57 1 321 DBREF 6EI9 B 1 321 UNP P0ABT7 DUSB_ECO57 1 321 SEQADV 6EI9 MET A -18 UNP P0ABT7 INITIATING METHIONINE SEQADV 6EI9 GLY A -17 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER A -16 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER A -15 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS A -14 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS A -13 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS A -12 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS A -11 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS A -10 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS A -9 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER A -8 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER A -7 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 GLY A -6 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 LEU A -5 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 VAL A -4 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 PRO A -3 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 ARG A -2 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 GLY A -1 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER A 0 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 MET B -18 UNP P0ABT7 INITIATING METHIONINE SEQADV 6EI9 GLY B -17 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER B -16 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER B -15 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS B -14 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS B -13 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS B -12 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS B -11 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS B -10 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 HIS B -9 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER B -8 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER B -7 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 GLY B -6 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 LEU B -5 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 VAL B -4 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 PRO B -3 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 ARG B -2 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 GLY B -1 UNP P0ABT7 EXPRESSION TAG SEQADV 6EI9 SER B 0 UNP P0ABT7 EXPRESSION TAG SEQRES 1 A 340 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 340 LEU VAL PRO ARG GLY SER MET ARG ILE GLY GLN TYR GLN SEQRES 3 A 340 LEU ARG ASN ARG LEU ILE ALA ALA PRO MET ALA GLY ILE SEQRES 4 A 340 THR ASP ARG PRO PHE ARG THR LEU CYS TYR GLU MET GLY SEQRES 5 A 340 ALA GLY LEU THR VAL SER GLU MET MET SER SER ASN PRO SEQRES 6 A 340 GLN VAL TRP GLU SER ASP LYS SER ARG LEU ARG MET VAL SEQRES 7 A 340 HIS ILE ASP GLU PRO GLY ILE ARG THR VAL GLN ILE ALA SEQRES 8 A 340 GLY SER ASP PRO LYS GLU MET ALA ASP ALA ALA ARG ILE SEQRES 9 A 340 ASN VAL GLU SER GLY ALA GLN ILE ILE ASP ILE ASN MET SEQRES 10 A 340 GLY CYS PRO ALA LYS LYS VAL ASN ARG LYS LEU ALA GLY SEQRES 11 A 340 SER ALA LEU LEU GLN TYR PRO ASP VAL VAL LYS SER ILE SEQRES 12 A 340 LEU THR GLU VAL VAL ASN ALA VAL ASP VAL PRO VAL THR SEQRES 13 A 340 LEU LYS ILE ARG THR GLY TRP ALA PRO GLU HIS ARG ASN SEQRES 14 A 340 CYS GLU GLU ILE ALA GLN LEU ALA GLU ASP CYS GLY ILE SEQRES 15 A 340 GLN ALA LEU THR ILE HIS GLY ARG THR ARG ALA CYS LEU SEQRES 16 A 340 PHE ASN GLY GLU ALA GLU TYR ASP SER ILE ARG ALA VAL SEQRES 17 A 340 LYS GLN LYS VAL SER ILE PRO VAL ILE ALA ASN GLY ASP SEQRES 18 A 340 ILE THR ASP PRO LEU LYS ALA ARG ALA VAL LEU ASP TYR SEQRES 19 A 340 THR GLY ALA ASP ALA LEU MET ILE GLY ARG ALA ALA GLN SEQRES 20 A 340 GLY ARG PRO TRP ILE PHE ARG GLU ILE GLN HIS TYR LEU SEQRES 21 A 340 ASP THR GLY GLU LEU LEU PRO PRO LEU PRO LEU ALA GLU SEQRES 22 A 340 VAL LYS ARG LEU LEU CYS ALA HIS VAL ARG GLU LEU HIS SEQRES 23 A 340 ASP PHE TYR GLY PRO ALA LYS GLY TYR ARG ILE ALA ARG SEQRES 24 A 340 LYS HIS VAL SER TRP TYR LEU GLN GLU HIS ALA PRO ASN SEQRES 25 A 340 ASP GLN PHE ARG ARG THR PHE ASN ALA ILE GLU ASP ALA SEQRES 26 A 340 SER GLU GLN LEU GLU ALA LEU GLU ALA TYR PHE GLU ASN SEQRES 27 A 340 PHE ALA SEQRES 1 B 340 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 340 LEU VAL PRO ARG GLY SER MET ARG ILE GLY GLN TYR GLN SEQRES 3 B 340 LEU ARG ASN ARG LEU ILE ALA ALA PRO MET ALA GLY ILE SEQRES 4 B 340 THR ASP ARG PRO PHE ARG THR LEU CYS TYR GLU MET GLY SEQRES 5 B 340 ALA GLY LEU THR VAL SER GLU MET MET SER SER ASN PRO SEQRES 6 B 340 GLN VAL TRP GLU SER ASP LYS SER ARG LEU ARG MET VAL SEQRES 7 B 340 HIS ILE ASP GLU PRO GLY ILE ARG THR VAL GLN ILE ALA SEQRES 8 B 340 GLY SER ASP PRO LYS GLU MET ALA ASP ALA ALA ARG ILE SEQRES 9 B 340 ASN VAL GLU SER GLY ALA GLN ILE ILE ASP ILE ASN MET SEQRES 10 B 340 GLY CYS PRO ALA LYS LYS VAL ASN ARG LYS LEU ALA GLY SEQRES 11 B 340 SER ALA LEU LEU GLN TYR PRO ASP VAL VAL LYS SER ILE SEQRES 12 B 340 LEU THR GLU VAL VAL ASN ALA VAL ASP VAL PRO VAL THR SEQRES 13 B 340 LEU LYS ILE ARG THR GLY TRP ALA PRO GLU HIS ARG ASN SEQRES 14 B 340 CYS GLU GLU ILE ALA GLN LEU ALA GLU ASP CYS GLY ILE SEQRES 15 B 340 GLN ALA LEU THR ILE HIS GLY ARG THR ARG ALA CYS LEU SEQRES 16 B 340 PHE ASN GLY GLU ALA GLU TYR ASP SER ILE ARG ALA VAL SEQRES 17 B 340 LYS GLN LYS VAL SER ILE PRO VAL ILE ALA ASN GLY ASP SEQRES 18 B 340 ILE THR ASP PRO LEU LYS ALA ARG ALA VAL LEU ASP TYR SEQRES 19 B 340 THR GLY ALA ASP ALA LEU MET ILE GLY ARG ALA ALA GLN SEQRES 20 B 340 GLY ARG PRO TRP ILE PHE ARG GLU ILE GLN HIS TYR LEU SEQRES 21 B 340 ASP THR GLY GLU LEU LEU PRO PRO LEU PRO LEU ALA GLU SEQRES 22 B 340 VAL LYS ARG LEU LEU CYS ALA HIS VAL ARG GLU LEU HIS SEQRES 23 B 340 ASP PHE TYR GLY PRO ALA LYS GLY TYR ARG ILE ALA ARG SEQRES 24 B 340 LYS HIS VAL SER TRP TYR LEU GLN GLU HIS ALA PRO ASN SEQRES 25 B 340 ASP GLN PHE ARG ARG THR PHE ASN ALA ILE GLU ASP ALA SEQRES 26 B 340 SER GLU GLN LEU GLU ALA LEU GLU ALA TYR PHE GLU ASN SEQRES 27 B 340 PHE ALA HET FMN A 401 50 HET GOL A 402 14 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HET SO4 A 406 5 HET FMN B 401 50 HET GOL B 402 14 HET SO4 B 403 5 HET SO4 B 404 5 HET SO4 B 405 5 HET SO4 B 406 5 HET EPE B 407 32 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EPE HEPES FORMUL 3 FMN 2(C17 H21 N4 O9 P) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 5 SO4 8(O4 S 2-) FORMUL 15 EPE C8 H18 N2 O4 S FORMUL 16 HOH *140(H2 O) HELIX 1 AA1 ASP A 22 MET A 32 1 11 HELIX 2 AA2 ASP A 75 SER A 89 1 15 HELIX 3 AA3 GLY A 111 GLN A 116 5 6 HELIX 4 AA4 TYR A 117 ASN A 130 1 14 HELIX 5 AA5 ASN A 150 GLY A 162 1 13 HELIX 6 AA6 THR A 172 LEU A 176 5 5 HELIX 7 AA7 TYR A 183 VAL A 193 1 11 HELIX 8 AA8 ASP A 205 GLY A 217 1 13 HELIX 9 AA9 GLY A 224 GLN A 228 5 5 HELIX 10 AB1 TRP A 232 GLY A 244 1 13 HELIX 11 AB2 PRO A 251 PHE A 269 1 19 HELIX 12 AB3 TYR A 270 ALA A 291 1 22 HELIX 13 AB4 ASP A 294 ILE A 303 1 10 HELIX 14 AB5 ASP A 305 GLU A 318 1 14 HELIX 15 AB6 ASP B 22 MET B 32 1 11 HELIX 16 AB7 ASP B 75 SER B 89 1 15 HELIX 17 AB8 GLY B 111 GLN B 116 5 6 HELIX 18 AB9 TYR B 117 ASN B 130 1 14 HELIX 19 AC1 ASN B 150 GLY B 162 1 13 HELIX 20 AC2 TYR B 183 VAL B 193 1 11 HELIX 21 AC3 ASP B 205 GLY B 217 1 13 HELIX 22 AC4 GLY B 224 GLN B 228 5 5 HELIX 23 AC5 TRP B 232 GLY B 244 1 13 HELIX 24 AC6 PRO B 251 PHE B 269 1 19 HELIX 25 AC7 LYS B 274 ALA B 291 1 18 HELIX 26 AC8 GLN B 295 ILE B 303 1 9 HELIX 27 AC9 ASP B 305 PHE B 317 1 13 SHEET 1 AA1 2 MET A 1 ILE A 3 0 SHEET 2 AA1 2 TYR A 6 LEU A 8 -1 O LEU A 8 N MET A 1 SHEET 1 AA2 9 LEU A 12 ALA A 14 0 SHEET 2 AA2 9 LEU A 36 GLU A 40 1 O LEU A 36 N ALA A 14 SHEET 3 AA2 9 THR A 68 ILE A 71 1 O GLN A 70 N SER A 39 SHEET 4 AA2 9 ILE A 93 MET A 98 1 O ASP A 95 N ILE A 71 SHEET 5 AA2 9 VAL A 136 ARG A 141 1 O LYS A 139 N ILE A 96 SHEET 6 AA2 9 LEU A 166 HIS A 169 1 O THR A 167 N ILE A 140 SHEET 7 AA2 9 VAL A 197 ASN A 200 1 O ILE A 198 N LEU A 166 SHEET 8 AA2 9 ALA A 220 ILE A 223 1 O MET A 222 N ALA A 199 SHEET 9 AA2 9 LEU A 12 ALA A 14 1 N ILE A 13 O LEU A 221 SHEET 1 AA3 2 LYS A 103 VAL A 105 0 SHEET 2 AA3 2 LYS A 108 ALA A 110 -1 O ALA A 110 N LYS A 103 SHEET 1 AA4 2 ARG B 2 ILE B 3 0 SHEET 2 AA4 2 TYR B 6 GLN B 7 -1 O TYR B 6 N ILE B 3 SHEET 1 AA5 9 LEU B 12 ALA B 14 0 SHEET 2 AA5 9 LEU B 36 GLU B 40 1 O LEU B 36 N ALA B 14 SHEET 3 AA5 9 THR B 68 ILE B 71 1 O GLN B 70 N SER B 39 SHEET 4 AA5 9 ILE B 93 MET B 98 1 O ASP B 95 N ILE B 71 SHEET 5 AA5 9 VAL B 136 ARG B 141 1 O LYS B 139 N ILE B 96 SHEET 6 AA5 9 LEU B 166 HIS B 169 1 O THR B 167 N ILE B 140 SHEET 7 AA5 9 VAL B 197 ASN B 200 1 O ILE B 198 N LEU B 166 SHEET 8 AA5 9 ALA B 220 ILE B 223 1 O MET B 222 N ALA B 199 SHEET 9 AA5 9 LEU B 12 ALA B 14 1 N ILE B 13 O LEU B 221 SHEET 1 AA6 2 LYS B 103 VAL B 105 0 SHEET 2 AA6 2 LYS B 108 ALA B 110 -1 O ALA B 110 N LYS B 103 SITE 1 AC1 16 ALA A 15 PRO A 16 MET A 17 ALA A 18 SITE 2 AC1 16 GLN A 70 ASN A 97 CYS A 100 LYS A 139 SITE 3 AC1 16 HIS A 169 ASN A 200 ASP A 202 GLY A 224 SITE 4 AC1 16 ARG A 225 GOL A 402 HOH A 506 HOH A 527 SITE 1 AC2 8 GLY A 99 CYS A 100 LYS A 139 ILE A 140 SITE 2 AC2 8 ARG A 141 HIS A 169 PHE A 177 FMN A 401 SITE 1 AC3 5 ARG A 149 GLU A 182 ASP A 184 HOH A 525 SITE 2 AC3 5 PRO B 249 SITE 1 AC4 5 GLU A 40 VAL A 69 ASN A 86 SER A 89 SITE 2 AC4 5 HOH A 509 SITE 1 AC5 4 PRO A -3 ARG A 210 LEU A 241 HOH B 524 SITE 1 AC6 1 TYR A 276 SITE 1 AC7 16 ALA B 15 PRO B 16 MET B 17 ALA B 18 SITE 2 AC7 16 GLN B 70 LYS B 139 PHE B 177 ASN B 200 SITE 3 AC7 16 GLY B 201 ASP B 202 GLY B 224 ARG B 225 SITE 4 AC7 16 SO4 B 403 SO4 B 406 HOH B 503 HOH B 534 SITE 1 AC8 7 ARG B 9 TYR B 30 GLU B 31 ARG B 187 SITE 2 AC8 7 GLN B 191 HOH B 537 HOH B 565 SITE 1 AC9 6 GLY B 99 CYS B 100 PRO B 101 ARG B 141 SITE 2 AC9 6 HIS B 169 FMN B 401 SITE 1 AD1 4 PRO B 146 GLU B 147 HIS B 148 ARG B 149 SITE 1 AD2 1 GLN B 238 SITE 1 AD3 4 CYS B 100 LYS B 103 FMN B 401 HOH B 511 SITE 1 AD4 3 ASP B 62 GLU B 63 SER B 89 CRYST1 108.480 108.480 70.310 90.00 90.00 90.00 P 43 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009218 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009218 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014223 0.00000