HEADER RNA BINDING PROTEIN/RNA 30-AUG-12 4GV6 TITLE STRUCTURES OF LASSA AND TACARIBE VIRAL NUCLEOPROTEINS WITH OR WITHOUT TITLE 2 5 TRIPHOSPHATE DSRNA SUBSTRATE REVEAL A UNIQUE 3 -5 EXORIBONUCLEASE TITLE 3 MECHANISM TO SUPPRESS TYPE I INTERFERON PRODUCTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*(GTP)P*GP*GP*C)-3'); COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RNA (5'-R(P*CP*GP*CP*CP*C)-3'); COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: NUCLEOPROTEIN; COMPND 11 CHAIN: A; COMPND 12 FRAGMENT: UNP RESIDUES 364-570; COMPND 13 SYNONYM: NUCLEOCAPSID PROTEIN, PROTEIN N; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: LASSA VIRUS; SOURCE 7 ORGANISM_COMMON: LASV; SOURCE 8 ORGANISM_TAXID: 11622; SOURCE 9 STRAIN: JOSIAH; SOURCE 10 GENE: N; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 EXPRESSION_SYSTEM_STRAIN: ROSSETTA; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PLOU3 KEYWDS DEDDH FAMILY ENZYME, 3'-5' EXONUCLEASE, RNA BINDING PROTEIN-RNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.JIANG,Q.HUANG,W.WANG,H.DONG,H.LY,Y.LIANG,C.DONG REVDAT 4 28-FEB-24 4GV6 1 REMARK SEQADV LINK REVDAT 3 10-JUL-13 4GV6 1 JRNL REVDAT 2 15-MAY-13 4GV6 1 JRNL REVDAT 1 01-MAY-13 4GV6 0 JRNL AUTH X.JIANG,Q.HUANG,W.WANG,H.DONG,H.LY,Y.LIANG,C.DONG JRNL TITL STRUCTURES OF ARENAVIRAL NUCLEOPROTEINS WITH TRIPHOSPHATE JRNL TITL 2 DSRNA REVEAL A UNIQUE MECHANISM OF IMMUNE SUPPRESSION. JRNL REF J.BIOL.CHEM. V. 288 16949 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 23615902 JRNL DOI 10.1074/JBC.M112.420521 REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 16160 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 863 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) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1164 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.1890 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.2250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1628 REMARK 3 NUCLEIC ACID ATOMS : 181 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 148 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 18.57000 REMARK 3 B22 (A**2) : 18.57000 REMARK 3 B33 (A**2) : -37.13000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.034 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.117 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.262 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1865 ; 0.005 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1674 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2560 ; 1.001 ; 1.921 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3874 ; 0.796 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 206 ; 4.913 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;36.553 ;24.533 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 298 ;13.430 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;15.719 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 289 ; 0.057 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1956 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 406 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 3539 ; 2.453 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 62 ;30.506 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3585 ;12.441 ; 5.000 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 : B 8 B 11 REMARK 3 ORIGIN FOR THE GROUP (A): -5.7774 9.0968 0.7876 REMARK 3 T TENSOR REMARK 3 T11: 0.1538 T22: 0.1610 REMARK 3 T33: 0.4232 T12: 0.0415 REMARK 3 T13: -0.0415 T23: 0.0370 REMARK 3 L TENSOR REMARK 3 L11: 0.3802 L22: 0.6614 REMARK 3 L33: 1.9092 L12: 0.4731 REMARK 3 L13: 0.3323 L23: 0.7352 REMARK 3 S TENSOR REMARK 3 S11: -0.0884 S12: 0.0046 S13: 0.1408 REMARK 3 S21: -0.1776 S22: -0.0387 S23: 0.1251 REMARK 3 S31: -0.3310 S32: -0.2210 S33: 0.1272 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 : C 2 C 5 REMARK 3 ORIGIN FOR THE GROUP (A): -0.1231 15.5334 -2.0373 REMARK 3 T TENSOR REMARK 3 T11: 0.2347 T22: 0.1480 REMARK 3 T33: 0.4195 T12: 0.0330 REMARK 3 T13: 0.0261 T23: 0.0264 REMARK 3 L TENSOR REMARK 3 L11: 1.1081 L22: 10.6136 REMARK 3 L33: 0.5519 L12: -3.4180 REMARK 3 L13: -0.7759 L23: 2.4167 REMARK 3 S TENSOR REMARK 3 S11: 0.1388 S12: 0.0582 S13: -0.1181 REMARK 3 S21: -0.5012 S22: -0.1683 S23: 0.2139 REMARK 3 S31: -0.1309 S32: -0.0403 S33: 0.0295 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 356 A 569 REMARK 3 ORIGIN FOR THE GROUP (A): -0.2471 9.7369 18.2023 REMARK 3 T TENSOR REMARK 3 T11: 0.1117 T22: 0.1415 REMARK 3 T33: 0.3853 T12: 0.0092 REMARK 3 T13: 0.0006 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.1133 L22: 0.1474 REMARK 3 L33: 0.1008 L12: 0.0011 REMARK 3 L13: -0.0539 L23: 0.0558 REMARK 3 S TENSOR REMARK 3 S11: 0.0116 S12: 0.0303 S13: 0.0132 REMARK 3 S21: -0.0201 S22: -0.0190 S23: 0.0031 REMARK 3 S31: -0.0372 S32: -0.0191 S33: 0.0074 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 : B 101 B 101 REMARK 3 ORIGIN FOR THE GROUP (A): -3.3960 7.4531 9.5856 REMARK 3 T TENSOR REMARK 3 T11: 0.1145 T22: 0.1381 REMARK 3 T33: 0.4369 T12: -0.0159 REMARK 3 T13: -0.0293 T23: -0.0390 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 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 : A 601 A 601 REMARK 3 ORIGIN FOR THE GROUP (A): -6.2011 14.3712 18.8891 REMARK 3 T TENSOR REMARK 3 T11: 0.1185 T22: 0.1608 REMARK 3 T33: 0.4141 T12: -0.0107 REMARK 3 T13: -0.0033 T23: 0.0086 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 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 : A 702 A 801 REMARK 3 ORIGIN FOR THE GROUP (A): -1.7593 8.6838 17.9634 REMARK 3 T TENSOR REMARK 3 T11: 0.1235 T22: 0.1482 REMARK 3 T33: 0.4530 T12: 0.0178 REMARK 3 T13: 0.0026 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.0534 L22: 0.1162 REMARK 3 L33: 0.0874 L12: 0.0737 REMARK 3 L13: -0.0074 L23: -0.0259 REMARK 3 S TENSOR REMARK 3 S11: 0.0148 S12: -0.0071 S13: 0.0167 REMARK 3 S21: -0.0176 S22: -0.0156 S23: 0.0053 REMARK 3 S31: -0.0017 S32: 0.0036 S33: 0.0008 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 : A 802 A 834 REMARK 3 ORIGIN FOR THE GROUP (A): -3.0955 10.1331 14.2695 REMARK 3 T TENSOR REMARK 3 T11: 0.1439 T22: 0.1999 REMARK 3 T33: 0.4673 T12: 0.0231 REMARK 3 T13: -0.0003 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 0.0121 L22: 0.0108 REMARK 3 L33: 0.0002 L12: 0.0090 REMARK 3 L13: -0.0012 L23: -0.0004 REMARK 3 S TENSOR REMARK 3 S11: 0.0363 S12: -0.0157 S13: 0.0059 REMARK 3 S21: 0.0195 S22: -0.0352 S23: -0.0203 REMARK 3 S31: -0.0054 S32: -0.0024 S33: -0.0011 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 : A 835 A 836 REMARK 3 ORIGIN FOR THE GROUP (A): 0.3873 11.3689 12.9450 REMARK 3 T TENSOR REMARK 3 T11: 0.1828 T22: 0.0910 REMARK 3 T33: 0.5420 T12: -0.0209 REMARK 3 T13: 0.0221 T23: 0.0399 REMARK 3 L TENSOR REMARK 3 L11: 0.1124 L22: 0.5281 REMARK 3 L33: 1.0406 L12: 0.0480 REMARK 3 L13: -0.2258 L23: 0.3886 REMARK 3 S TENSOR REMARK 3 S11: 0.0587 S12: -0.0629 S13: 0.0136 REMARK 3 S21: -0.1072 S22: -0.1556 S23: 0.0095 REMARK 3 S31: -0.0787 S32: -0.0354 S33: 0.0969 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4GV6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000074672. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 176 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16160 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 REMARK 200 RESOLUTION RANGE LOW (A) : 69.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 9.800 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.8 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.17500 REMARK 200 R SYM FOR SHELL (I) : 0.17800 REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18.5% PEG MME 5000, 0.1 M SODIUM REMARK 280 CITRATE, AND 2.4% PEG MME350, PH 4.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K 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 104.32500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 23.25500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 23.25500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 52.16250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 23.25500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 23.25500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 156.48750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 23.25500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 23.25500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 52.16250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 23.25500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 23.25500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 156.48750 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 104.32500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 C C 1 REMARK 465 LYS A 516 REMARK 465 LYS A 517 REMARK 465 LYS A 518 REMARK 465 ARG A 519 REMARK 465 GLY A 520 REMARK 465 GLY A 521 REMARK 465 THR A 564 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 HOH A 703 O HOH A 832 1.65 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 GTP B 8 C3' - O3' - P ANGL. DEV. = -28.4 DEGREES REMARK 500 G B 9 O3' - P - O5' ANGL. DEV. = -15.0 DEGREES REMARK 500 G B 9 O3' - P - OP2 ANGL. DEV. = 13.2 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 ASP A 396 60.12 -153.17 REMARK 500 SER A 430 -73.76 -140.17 REMARK 500 ARG A 476 63.52 -103.15 REMARK 500 HIS A 509 74.97 -100.72 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 MN B 101 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C B 11 OP1 REMARK 620 2 ASP A 389 OD1 100.2 REMARK 620 3 HOH A 707 O 94.1 82.1 REMARK 620 4 HOH A 708 O 94.9 92.5 170.1 REMARK 620 5 HOH A 739 O 155.0 103.1 80.2 93.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 399 OE2 REMARK 620 2 CYS A 506 SG 104.5 REMARK 620 3 HIS A 509 NE2 109.8 109.5 REMARK 620 4 CYS A 529 SG 108.0 117.9 107.1 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MWP RELATED DB: PDB REMARK 900 DOMAIN REMARK 900 RELATED ID: 4G9Z RELATED DB: PDB REMARK 900 SOAKING EXPERIMENT WITH MN2+ FOR 1.5 MIN REMARK 900 RELATED ID: 4GV3 RELATED DB: PDB REMARK 900 SOAKING FOR 1.5 MIN DBREF 4GV6 A 364 569 UNP P13699 NCAP_LASSJ 364 569 DBREF 4GV6 B 8 11 PDB 4GV6 4GV6 8 11 DBREF 4GV6 C 1 5 PDB 4GV6 4GV6 1 5 SEQADV 4GV6 GLY A 356 UNP P13699 EXPRESSION TAG SEQADV 4GV6 ALA A 357 UNP P13699 EXPRESSION TAG SEQADV 4GV6 MET A 358 UNP P13699 EXPRESSION TAG SEQADV 4GV6 ASP A 359 UNP P13699 EXPRESSION TAG SEQADV 4GV6 HIS A 360 UNP P13699 EXPRESSION TAG SEQADV 4GV6 VAL A 361 UNP P13699 EXPRESSION TAG SEQADV 4GV6 GLU A 362 UNP P13699 EXPRESSION TAG SEQADV 4GV6 PHE A 363 UNP P13699 EXPRESSION TAG SEQRES 1 B 4 GTP G G C SEQRES 1 C 5 C G C C C SEQRES 1 A 214 GLY ALA MET ASP HIS VAL GLU PHE GLY LEU THR TYR SER SEQRES 2 A 214 GLN LEU MET THR LEU LYS ASP ALA MET LEU GLN LEU ASP SEQRES 3 A 214 PRO ASN ALA LYS THR TRP MET ASP ILE GLU GLY ARG PRO SEQRES 4 A 214 GLU ASP PRO VAL GLU ILE ALA LEU TYR GLN PRO SER SER SEQRES 5 A 214 GLY CYS TYR ILE HIS PHE PHE ARG GLU PRO THR ASP LEU SEQRES 6 A 214 LYS GLN PHE LYS GLN ASP ALA LYS TYR SER HIS GLY ILE SEQRES 7 A 214 ASP VAL THR ASP LEU PHE ALA THR GLN PRO GLY LEU THR SEQRES 8 A 214 SER ALA VAL ILE ASP ALA LEU PRO ARG ASN MET VAL ILE SEQRES 9 A 214 THR CYS GLN GLY SER ASP ASP ILE ARG LYS LEU LEU GLU SEQRES 10 A 214 SER GLN GLY ARG LYS ASP ILE LYS LEU ILE ASP ILE ALA SEQRES 11 A 214 LEU SER LYS THR ASP SER ARG LYS TYR GLU ASN ALA VAL SEQRES 12 A 214 TRP ASP GLN TYR LYS ASP LEU CYS HIS MET HIS THR GLY SEQRES 13 A 214 VAL VAL VAL GLU LYS LYS LYS ARG GLY GLY LYS GLU GLU SEQRES 14 A 214 ILE THR PRO HIS CYS ALA LEU MET ASP CYS ILE MET PHE SEQRES 15 A 214 ASP ALA ALA VAL SER GLY GLY LEU ASN THR SER VAL LEU SEQRES 16 A 214 ARG ALA VAL LEU PRO ARG ASP MET VAL PHE ARG THR SER SEQRES 17 A 214 THR PRO ARG VAL VAL LEU MODRES 4GV6 GTP B 8 G GUANOSINE-5'-TRIPHOSPHATE HET GTP B 8 32 HET MN B 101 1 HET ZN A 601 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM ZN ZINC ION FORMUL 1 GTP C10 H16 N5 O14 P3 FORMUL 4 MN MN 2+ FORMUL 5 ZN ZN 2+ FORMUL 6 HOH *148(H2 O) HELIX 1 1 THR A 366 MET A 377 1 12 HELIX 2 2 LEU A 378 LEU A 380 5 3 HELIX 3 3 ASP A 419 SER A 430 1 12 HELIX 4 4 ASP A 434 PHE A 439 5 6 HELIX 5 5 GLY A 444 ALA A 452 1 9 HELIX 6 6 GLY A 463 GLN A 474 1 12 HELIX 7 7 SER A 487 ARG A 492 1 6 HELIX 8 8 TYR A 494 LYS A 503 1 10 HELIX 9 9 ASP A 504 CYS A 506 5 3 HELIX 10 10 CYS A 529 GLY A 543 1 15 HELIX 11 11 PRO A 555 PHE A 560 1 6 SHEET 1 A 4 TRP A 387 ARG A 393 0 SHEET 2 A 4 ASP A 396 TYR A 403 -1 O VAL A 398 N GLU A 391 SHEET 3 A 4 CYS A 409 PHE A 414 -1 O ILE A 411 N LEU A 402 SHEET 4 A 4 ARG A 551 ALA A 552 1 O ARG A 551 N TYR A 410 SHEET 1 B 2 VAL A 458 CYS A 461 0 SHEET 2 B 2 LYS A 480 ASP A 483 1 O LYS A 480 N ILE A 459 SHEET 1 C 2 VAL A 513 VAL A 514 0 SHEET 2 C 2 GLU A 524 ILE A 525 -1 O ILE A 525 N VAL A 513 LINK O3' GTP B 8 P G B 9 1555 1555 1.58 LINK OP1 C B 11 MN MN B 101 1555 1555 2.49 LINK MN MN B 101 OD1 ASP A 389 1555 1555 2.16 LINK MN MN B 101 O HOH A 707 1555 1555 2.23 LINK MN MN B 101 O HOH A 708 1555 1555 2.15 LINK MN MN B 101 O HOH A 739 1555 1555 2.38 LINK OE2 GLU A 399 ZN ZN A 601 1555 1555 2.04 LINK SG CYS A 506 ZN ZN A 601 1555 1555 2.23 LINK NE2 HIS A 509 ZN ZN A 601 1555 1555 2.04 LINK SG CYS A 529 ZN ZN A 601 1555 1555 2.23 SITE 1 AC1 4 GLU A 399 CYS A 506 HIS A 509 CYS A 529 SITE 1 AC2 6 ASP A 389 HOH A 707 HOH A 708 HOH A 739 SITE 2 AC2 6 G B 10 C B 11 CRYST1 46.510 46.510 208.650 90.00 90.00 90.00 P 41 21 2 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 0.021501 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021501 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004793 0.00000