HEADER TRANSFERASE 17-NOV-05 2F2T TITLE CRYSTAL STRUCTURE OF NUCLEOSIDE 2-DEOXYRIBOSYLTRANSFERASE FROM TITLE 2 TRYPANOSOMA BRUCEI AT 1.7 A RESOLUTION WITH 5-AMINOISOQUINOLINE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOSIDE 2-DEOXYRIBOSYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.4.2.6; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 GENE: TB05.30H13.400; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21STAR(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: T7 SYSTEM; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS SGPP, STRUCTURAL GENOMICS, PSI, PROTEIN STRUCTURE INITIATIVE NDRT, KEYWDS 2 NUCLEOSIDE 2-DEOXYRIBOSYLTRANSFERASE, TRYPANOSOMA BRUCEI, STRUCTURAL KEYWDS 3 GENOMICS OF PATHOGENIC PROTOZOA CONSORTIUM, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.BOSCH,M.A.ROBIEN,W.G.J.HOL,STRUCTURAL GENOMICS OF PATHOGENIC AUTHOR 2 PROTOZOA CONSORTIUM (SGPP) REVDAT 7 15-NOV-23 2F2T 1 REMARK REVDAT 6 23-AUG-23 2F2T 1 REMARK SEQADV LINK REVDAT 5 13-JUL-11 2F2T 1 VERSN REVDAT 4 24-FEB-09 2F2T 1 VERSN REVDAT 3 17-APR-07 2F2T 1 JRNL REVDAT 2 06-DEC-05 2F2T 1 COMPND TITLE REVDAT 1 22-NOV-05 2F2T 0 JRNL AUTH J.BOSCH,M.A.ROBIEN,C.MEHLIN,E.BONI,A.RIECHERS,F.S.BUCKNER, JRNL AUTH 2 W.C.VAN VOORHIS,P.J.MYLER,E.A.WORTHEY,G.DETITTA,J.R.LUFT, JRNL AUTH 3 A.LAURICELLA,S.GULDE,L.A.ANDERSON,O.KALYUZHNIY,H.M.NEELY, JRNL AUTH 4 J.ROSS,T.N.EARNEST,M.SOLTIS,L.SCHOENFELD,F.ZUCKER, JRNL AUTH 5 E.A.MERRITT,E.FAN,C.L.VERLINDE,W.G.J.HOL JRNL TITL USING FRAGMENT COCKTAIL CRYSTALLOGRAPHY TO ASSIST INHIBITOR JRNL TITL 2 DESIGN OF TRYPANOSOMA BRUCEI NUCLEOSIDE JRNL TITL 3 2-DEOXYRIBOSYLTRANSFERASE. JRNL REF J.MED.CHEM. V. 49 5939 2006 JRNL REFN ISSN 0022-2623 JRNL PMID 17004709 JRNL DOI 10.1021/JM060429M REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 36740 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1928 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3881 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 194 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2518 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 393 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 18.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.11000 REMARK 3 B33 (A**2) : 0.11000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.110 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.273 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2718 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3690 ; 0.863 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 346 ; 4.655 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;32.344 ;23.944 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 456 ;10.424 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;14.392 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 380 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2138 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1334 ; 0.181 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1860 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 311 ; 0.077 ; 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): 56 ; 0.129 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.229 ; 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): 1676 ; 1.155 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2624 ; 1.325 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1180 ; 1.735 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1050 ; 2.562 ;10.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 9 REMARK 3 ORIGIN FOR THE GROUP (A): -29.1469 -13.8079 -6.6618 REMARK 3 T TENSOR REMARK 3 T11: 0.0504 T22: -0.0262 REMARK 3 T33: -0.0459 T12: -0.0321 REMARK 3 T13: 0.0136 T23: -0.0237 REMARK 3 L TENSOR REMARK 3 L11: 16.0008 L22: 11.0967 REMARK 3 L33: 3.0904 L12: 9.3660 REMARK 3 L13: -1.6478 L23: -0.4014 REMARK 3 S TENSOR REMARK 3 S11: 0.2725 S12: -0.5756 S13: 0.5505 REMARK 3 S21: 0.4569 S22: -0.1495 S23: 0.5138 REMARK 3 S31: 0.1194 S32: 0.0523 S33: -0.1230 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 10 A 47 REMARK 3 ORIGIN FOR THE GROUP (A): -5.8639 -9.9352 -12.5778 REMARK 3 T TENSOR REMARK 3 T11: 0.0223 T22: -0.0724 REMARK 3 T33: -0.0181 T12: -0.0245 REMARK 3 T13: -0.0160 T23: 0.0066 REMARK 3 L TENSOR REMARK 3 L11: 5.7907 L22: 1.0122 REMARK 3 L33: 3.9199 L12: 1.1843 REMARK 3 L13: -3.0224 L23: -0.5415 REMARK 3 S TENSOR REMARK 3 S11: -0.0052 S12: -0.0583 S13: -0.3850 REMARK 3 S21: 0.0115 S22: -0.1140 S23: -0.1191 REMARK 3 S31: 0.4003 S32: 0.0409 S33: 0.1191 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 48 A 69 REMARK 3 ORIGIN FOR THE GROUP (A): -12.3238 -5.9160 -25.1373 REMARK 3 T TENSOR REMARK 3 T11: 0.0116 T22: 0.0081 REMARK 3 T33: -0.0042 T12: -0.0222 REMARK 3 T13: -0.0132 T23: -0.0038 REMARK 3 L TENSOR REMARK 3 L11: 2.5031 L22: 1.5360 REMARK 3 L33: 4.5949 L12: -0.6293 REMARK 3 L13: -3.2660 L23: 1.4447 REMARK 3 S TENSOR REMARK 3 S11: -0.0432 S12: 0.0744 S13: -0.0743 REMARK 3 S21: -0.0519 S22: 0.0032 S23: 0.0853 REMARK 3 S31: 0.3487 S32: -0.1331 S33: 0.0400 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 70 A 160 REMARK 3 ORIGIN FOR THE GROUP (A): -2.2042 7.3289 -11.2582 REMARK 3 T TENSOR REMARK 3 T11: -0.0408 T22: -0.0320 REMARK 3 T33: -0.0456 T12: -0.0088 REMARK 3 T13: -0.0040 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.5415 L22: 1.1141 REMARK 3 L33: 0.7918 L12: 0.2846 REMARK 3 L13: -0.0640 L23: -0.0624 REMARK 3 S TENSOR REMARK 3 S11: 0.0642 S12: -0.0671 S13: -0.0057 REMARK 3 S21: 0.1109 S22: -0.0265 S23: -0.0401 REMARK 3 S31: -0.0089 S32: -0.0006 S33: -0.0377 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 7 REMARK 3 ORIGIN FOR THE GROUP (A): -31.6329 30.0241 -37.4576 REMARK 3 T TENSOR REMARK 3 T11: 0.0034 T22: -0.0590 REMARK 3 T33: -0.0909 T12: 0.0284 REMARK 3 T13: -0.0166 T23: -0.0465 REMARK 3 L TENSOR REMARK 3 L11: 17.1653 L22: 31.6076 REMARK 3 L33: 11.1047 L12: -8.4088 REMARK 3 L13: -0.5562 L23: -3.4554 REMARK 3 S TENSOR REMARK 3 S11: 0.7150 S12: 0.5400 S13: -0.7014 REMARK 3 S21: -1.6671 S22: -0.3916 S23: 1.2054 REMARK 3 S31: 0.3820 S32: 0.0809 S33: -0.3234 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 8 B 47 REMARK 3 ORIGIN FOR THE GROUP (A): -6.7487 24.8241 -30.7720 REMARK 3 T TENSOR REMARK 3 T11: 0.0140 T22: -0.0512 REMARK 3 T33: -0.0087 T12: 0.0210 REMARK 3 T13: 0.0149 T23: 0.0063 REMARK 3 L TENSOR REMARK 3 L11: 5.7691 L22: 0.9361 REMARK 3 L33: 2.3921 L12: -1.0935 REMARK 3 L13: 2.8313 L23: -0.4972 REMARK 3 S TENSOR REMARK 3 S11: -0.0003 S12: 0.0466 S13: 0.3992 REMARK 3 S21: -0.0037 S22: -0.1234 S23: -0.0692 REMARK 3 S31: -0.2457 S32: 0.0454 S33: 0.1236 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 48 B 61 REMARK 3 ORIGIN FOR THE GROUP (A): -9.6394 22.4974 -14.7044 REMARK 3 T TENSOR REMARK 3 T11: -0.0135 T22: -0.0333 REMARK 3 T33: -0.0280 T12: 0.0180 REMARK 3 T13: 0.0054 T23: -0.0070 REMARK 3 L TENSOR REMARK 3 L11: 2.1620 L22: 4.3514 REMARK 3 L33: 5.2316 L12: 0.9201 REMARK 3 L13: -0.8949 L23: -0.3578 REMARK 3 S TENSOR REMARK 3 S11: 0.0918 S12: 0.0024 S13: 0.2150 REMARK 3 S21: 0.0554 S22: -0.0079 S23: 0.0930 REMARK 3 S31: -0.3273 S32: -0.1488 S33: -0.0838 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 62 B 160 REMARK 3 ORIGIN FOR THE GROUP (A): -3.4096 8.4054 -31.2489 REMARK 3 T TENSOR REMARK 3 T11: -0.0376 T22: -0.0308 REMARK 3 T33: -0.0404 T12: 0.0120 REMARK 3 T13: 0.0085 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 0.5017 L22: 0.9487 REMARK 3 L33: 0.6994 L12: -0.2376 REMARK 3 L13: 0.0364 L23: 0.0666 REMARK 3 S TENSOR REMARK 3 S11: 0.0351 S12: 0.0512 S13: 0.0067 REMARK 3 S21: -0.0844 S22: -0.0177 S23: -0.0351 REMARK 3 S31: -0.0088 S32: 0.0015 S33: -0.0174 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 2F2T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 42 REMARK 42 MOLPROBITY STRUCTURE VALIDATION REMARK 42 PROGRAMS : MOLPROBITY (KING, REDUCE, AND PROBE) REMARK 42 AUTHORS : I.W.DAVIS,J.M.WORD REMARK 42 URL : HTTP://KINEMAGE.BIOCHEM.DUKE.EDU/MOLPROBITY/ REMARK 42 AUTHORS : J.S.RICHARDSON,W.B.ARENDALL,D.C.RICHARDSON REMARK 42 REFERENCE : NEW TOOLS AND DATA FOR IMPROVING REMARK 42 : STRUCTURES, USING ALL-ATOM CONTACTS REMARK 42 : METHODS IN ENZYMOLOGY. 2003;374:385-412. REMARK 42 MOLPROBITY OUTPUT SCORES: REMARK 42 ALL-ATOM CLASHSCORE : 2.64 (2.64 B<40) REMARK 42 BAD ROTAMERS : 1.1% 3/270 (TARGET 0-1%) REMARK 42 RAMACHANDRAN OUTLIERS : 0.0% 0/312 (TARGET 0.2%) REMARK 42 RAMACHANDRAN FAVORED : 99.0% 309/312 (TARGET 98.0%) REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035382. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92020 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36740 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06600 REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.21700 REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2A0K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 % PEG MME 2000 0.2 AMMONIUM SULFATE REMARK 280 0.1 SODIUM ACETATE TRIHYDRATE PH 4.6, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 29.48000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.74650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 29.48000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 37.74650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE MOLECULE IS A DIMER IN SOLUTION AND IN THE CRYSTAL, REMARK 300 OTHER NDRTS FORM A HEXAMER. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 718 LIES ON A SPECIAL POSITION. 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 MSE A 1 REMARK 465 ALA A 2 REMARK 465 LYS A 161 REMARK 465 MSE B 1 REMARK 465 ALA B 2 REMARK 465 LYS B 161 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 461 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 561 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5IQ A 463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5IQ B 563 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 462 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 562 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A0K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF NUCLEOSIDE 2-DEOXYRIBOSYLTRANSFERASE FROM REMARK 900 TRYPANOSOMA BRUCEI AT 1.8 A RESOLUTION REMARK 900 RELATED ID: TBRU015777AAA RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT THERE ARE TWO INDEPENDENT SEQUENCE REMARK 999 CONFIRMATIONS OF TWO DIFFERENT CLONES WHICH CLEARLY REMARK 999 SHOW THE SEQUENCE AS GIVEN. AUTHORS ALSO HAVE EXPRESSED REMARK 999 MULTIPLE CLONES AT DIFFERENT TIMES AND ALL OF THESE REMARK 999 BATCHES SHOW THE SAME ELECTRON DENSITY FOR THESE RESIDUES. DBREF 2F2T A 9 161 UNP Q57VC7 Q57VC7_9TRYP 1 153 DBREF 2F2T B 9 161 UNP Q57VC7 Q57VC7_9TRYP 1 153 SEQADV 2F2T MSE A 1 UNP Q57VC7 CLONING ARTIFACT SEQADV 2F2T ALA A 2 UNP Q57VC7 CLONING ARTIFACT SEQADV 2F2T HIS A 3 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS A 4 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS A 5 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS A 6 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS A 7 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS A 8 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T MSE A 9 UNP Q57VC7 MET 1 MODIFIED RESIDUE SEQADV 2F2T MSE A 24 UNP Q57VC7 MET 16 MODIFIED RESIDUE SEQADV 2F2T MSE A 42 UNP Q57VC7 MET 34 MODIFIED RESIDUE SEQADV 2F2T GLU A 53 UNP Q57VC7 GLY 45 SEE REMARK 999 SEQADV 2F2T MSE A 64 UNP Q57VC7 MET 56 MODIFIED RESIDUE SEQADV 2F2T CYS A 93 UNP Q57VC7 TYR 85 SEE REMARK 999 SEQADV 2F2T MSE A 100 UNP Q57VC7 MET 92 MODIFIED RESIDUE SEQADV 2F2T MSE A 111 UNP Q57VC7 MET 103 MODIFIED RESIDUE SEQADV 2F2T GLY A 118 UNP Q57VC7 GLU 110 SEE REMARK 999 SEQADV 2F2T MSE A 136 UNP Q57VC7 MET 128 MODIFIED RESIDUE SEQADV 2F2T MSE B 1 UNP Q57VC7 CLONING ARTIFACT SEQADV 2F2T ALA B 2 UNP Q57VC7 CLONING ARTIFACT SEQADV 2F2T HIS B 3 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS B 4 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS B 5 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS B 6 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS B 7 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T HIS B 8 UNP Q57VC7 EXPRESSION TAG SEQADV 2F2T MSE B 9 UNP Q57VC7 MET 1 MODIFIED RESIDUE SEQADV 2F2T MSE B 24 UNP Q57VC7 MET 16 MODIFIED RESIDUE SEQADV 2F2T MSE B 42 UNP Q57VC7 MET 34 MODIFIED RESIDUE SEQADV 2F2T GLU B 53 UNP Q57VC7 GLY 45 SEE REMARK 999 SEQADV 2F2T MSE B 64 UNP Q57VC7 MET 56 MODIFIED RESIDUE SEQADV 2F2T CYS B 93 UNP Q57VC7 TYR 85 SEE REMARK 999 SEQADV 2F2T MSE B 100 UNP Q57VC7 MET 92 MODIFIED RESIDUE SEQADV 2F2T MSE B 111 UNP Q57VC7 MET 103 MODIFIED RESIDUE SEQADV 2F2T GLY B 118 UNP Q57VC7 GLU 110 SEE REMARK 999 SEQADV 2F2T MSE B 136 UNP Q57VC7 MET 128 MODIFIED RESIDUE SEQRES 1 A 161 MSE ALA HIS HIS HIS HIS HIS HIS MSE ARG LYS ILE TYR SEQRES 2 A 161 ILE ALA GLY PRO ALA VAL PHE ASN PRO ASP MSE GLY ALA SEQRES 3 A 161 SER TYR TYR ASN LYS VAL ARG GLU LEU LEU LYS LYS GLU SEQRES 4 A 161 ASN VAL MSE PRO LEU ILE PRO THR ASP ASN GLU ALA THR SEQRES 5 A 161 GLU ALA LEU ASP ILE ARG GLN LYS ASN ILE GLN MSE ILE SEQRES 6 A 161 LYS ASP CYS ASP ALA VAL ILE ALA ASP LEU SER PRO PHE SEQRES 7 A 161 ARG GLY HIS GLU PRO ASP CYS GLY THR ALA PHE GLU VAL SEQRES 8 A 161 GLY CYS ALA ALA ALA LEU ASN LYS MSE VAL LEU THR PHE SEQRES 9 A 161 THR SER ASP ARG ARG ASN MSE ARG GLU LYS TYR GLY SER SEQRES 10 A 161 GLY VAL ASP LYS ASP ASN LEU ARG VAL GLU GLY PHE GLY SEQRES 11 A 161 LEU PRO PHE ASN LEU MSE LEU TYR ASP GLY VAL GLU VAL SEQRES 12 A 161 PHE ASP SER PHE GLU SER ALA PHE LYS TYR PHE LEU ALA SEQRES 13 A 161 ASN PHE PRO SER LYS SEQRES 1 B 161 MSE ALA HIS HIS HIS HIS HIS HIS MSE ARG LYS ILE TYR SEQRES 2 B 161 ILE ALA GLY PRO ALA VAL PHE ASN PRO ASP MSE GLY ALA SEQRES 3 B 161 SER TYR TYR ASN LYS VAL ARG GLU LEU LEU LYS LYS GLU SEQRES 4 B 161 ASN VAL MSE PRO LEU ILE PRO THR ASP ASN GLU ALA THR SEQRES 5 B 161 GLU ALA LEU ASP ILE ARG GLN LYS ASN ILE GLN MSE ILE SEQRES 6 B 161 LYS ASP CYS ASP ALA VAL ILE ALA ASP LEU SER PRO PHE SEQRES 7 B 161 ARG GLY HIS GLU PRO ASP CYS GLY THR ALA PHE GLU VAL SEQRES 8 B 161 GLY CYS ALA ALA ALA LEU ASN LYS MSE VAL LEU THR PHE SEQRES 9 B 161 THR SER ASP ARG ARG ASN MSE ARG GLU LYS TYR GLY SER SEQRES 10 B 161 GLY VAL ASP LYS ASP ASN LEU ARG VAL GLU GLY PHE GLY SEQRES 11 B 161 LEU PRO PHE ASN LEU MSE LEU TYR ASP GLY VAL GLU VAL SEQRES 12 B 161 PHE ASP SER PHE GLU SER ALA PHE LYS TYR PHE LEU ALA SEQRES 13 B 161 ASN PHE PRO SER LYS MODRES 2F2T MSE A 9 MET SELENOMETHIONINE MODRES 2F2T MSE A 24 MET SELENOMETHIONINE MODRES 2F2T MSE A 42 MET SELENOMETHIONINE MODRES 2F2T MSE A 64 MET SELENOMETHIONINE MODRES 2F2T MSE A 100 MET SELENOMETHIONINE MODRES 2F2T MSE A 111 MET SELENOMETHIONINE MODRES 2F2T MSE A 136 MET SELENOMETHIONINE MODRES 2F2T MSE B 9 MET SELENOMETHIONINE MODRES 2F2T MSE B 24 MET SELENOMETHIONINE MODRES 2F2T MSE B 42 MET SELENOMETHIONINE MODRES 2F2T MSE B 64 MET SELENOMETHIONINE MODRES 2F2T MSE B 100 MET SELENOMETHIONINE MODRES 2F2T MSE B 111 MET SELENOMETHIONINE MODRES 2F2T MSE B 136 MET SELENOMETHIONINE HET MSE A 9 8 HET MSE A 24 8 HET MSE A 42 8 HET MSE A 64 8 HET MSE A 100 8 HET MSE A 111 8 HET MSE A 136 8 HET MSE B 9 8 HET MSE B 24 8 HET MSE B 42 8 HET MSE B 64 8 HET MSE B 100 8 HET MSE B 111 8 HET MSE B 136 8 HET SO4 A 561 5 HET 5IQ A 463 11 HET GOL A 462 6 HET SO4 B 461 5 HET 5IQ B 563 11 HET GOL B 562 6 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM 5IQ ISOQUINOLIN-5-AMINE HETNAM GOL GLYCEROL HETSYN 5IQ 5-AMINOISOQUINOLINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 SO4 2(O4 S 2-) FORMUL 4 5IQ 2(C9 H8 N2) FORMUL 5 GOL 2(C3 H8 O3) FORMUL 9 HOH *393(H2 O) HELIX 1 1 GLY A 16 ASN A 21 5 6 HELIX 2 2 GLY A 25 LYS A 38 1 14 HELIX 3 3 GLU A 53 CYS A 68 1 16 HELIX 4 4 ASP A 84 LEU A 97 1 14 HELIX 5 5 ASN A 110 GLY A 116 1 7 HELIX 6 6 ASN A 134 TYR A 138 5 5 HELIX 7 7 SER A 146 PHE A 158 1 13 HELIX 8 8 GLY B 16 ASN B 21 5 6 HELIX 9 9 GLY B 25 LYS B 38 1 14 HELIX 10 10 GLU B 53 CYS B 68 1 16 HELIX 11 11 ASP B 84 LEU B 97 1 14 HELIX 12 12 ASN B 110 GLY B 116 1 7 HELIX 13 13 ASN B 134 TYR B 138 5 5 HELIX 14 14 SER B 146 PHE B 158 1 13 SHEET 1 A 4 MSE A 42 LEU A 44 0 SHEET 2 A 4 LYS A 11 ALA A 15 1 N ILE A 12 O LEU A 44 SHEET 3 A 4 ALA A 70 ASP A 74 1 O ASP A 74 N ALA A 15 SHEET 4 A 4 MSE A 100 PHE A 104 1 O LEU A 102 N VAL A 71 SHEET 1 B 4 MSE B 42 LEU B 44 0 SHEET 2 B 4 LYS B 11 ALA B 15 1 N ILE B 12 O LEU B 44 SHEET 3 B 4 ALA B 70 ASP B 74 1 O ASP B 74 N ALA B 15 SHEET 4 B 4 MSE B 100 PHE B 104 1 O LEU B 102 N VAL B 71 LINK C HIS A 8 N MSE A 9 1555 1555 1.33 LINK C MSE A 9 N ARG A 10 1555 1555 1.33 LINK C ASP A 23 N MSE A 24 1555 1555 1.34 LINK C MSE A 24 N GLY A 25 1555 1555 1.33 LINK C VAL A 41 N MSE A 42 1555 1555 1.33 LINK C MSE A 42 N PRO A 43 1555 1555 1.35 LINK C GLN A 63 N MSE A 64 1555 1555 1.33 LINK C MSE A 64 N ILE A 65 1555 1555 1.33 LINK C LYS A 99 N MSE A 100 1555 1555 1.33 LINK C MSE A 100 N VAL A 101 1555 1555 1.33 LINK C ASN A 110 N MSE A 111 1555 1555 1.33 LINK C MSE A 111 N ARG A 112 1555 1555 1.33 LINK C LEU A 135 N MSE A 136 1555 1555 1.33 LINK C MSE A 136 N LEU A 137 1555 1555 1.33 LINK C HIS B 8 N MSE B 9 1555 1555 1.33 LINK C MSE B 9 N ARG B 10 1555 1555 1.33 LINK C ASP B 23 N MSE B 24 1555 1555 1.33 LINK C MSE B 24 N GLY B 25 1555 1555 1.33 LINK C VAL B 41 N MSE B 42 1555 1555 1.33 LINK C MSE B 42 N PRO B 43 1555 1555 1.35 LINK C GLN B 63 N MSE B 64 1555 1555 1.33 LINK C MSE B 64 N ILE B 65 1555 1555 1.33 LINK C LYS B 99 N MSE B 100 1555 1555 1.33 LINK C MSE B 100 N VAL B 101 1555 1555 1.33 LINK C ASN B 110 N MSE B 111 1555 1555 1.33 LINK C MSE B 111 N ARG B 112 1555 1555 1.33 LINK C LEU B 135 N MSE B 136 1555 1555 1.34 LINK C MSE B 136 N LEU B 137 1555 1555 1.33 SITE 1 AC1 9 HIS B 6 HIS B 8 MSE B 9 LYS B 11 SITE 2 AC1 9 ARG B 112 ARG B 125 HOH B 615 HOH B 672 SITE 3 AC1 9 HOH B 694 SITE 1 AC2 9 HIS A 6 HIS A 8 MSE A 9 LYS A 11 SITE 2 AC2 9 ARG A 112 ARG A 125 HOH A 624 HOH A 635 SITE 3 AC2 9 HOH A 675 SITE 1 AC3 8 GLU A 127 ASN A 134 VAL B 19 PHE B 20 SITE 2 AC3 8 GLU B 50 ILE B 57 ASN B 61 GOL B 562 SITE 1 AC4 8 VAL A 19 GLU A 50 ILE A 57 ASN A 61 SITE 2 AC4 8 GOL A 462 GLU B 127 ASN B 134 LEU B 135 SITE 1 AC5 9 ALA A 15 GLY A 16 PHE A 20 PRO A 46 SITE 2 AC5 9 ASP A 84 GLY A 86 GLU A 90 ASN B 134 SITE 3 AC5 9 5IQ B 563 SITE 1 AC6 9 ASN A 134 5IQ A 463 ALA B 15 GLY B 16 SITE 2 AC6 9 VAL B 19 PHE B 20 ASP B 84 GLY B 86 SITE 3 AC6 9 GLU B 90 CRYST1 58.960 75.493 86.324 90.00 90.05 90.00 C 1 2 1 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 0.016961 0.000000 0.000015 0.00000 SCALE2 0.000000 0.013246 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011584 0.00000