HEADER HYDROLASE 30-JAN-08 3C4T TITLE STRUCTURE OF RNASEIIIB AND DSRNA BINDING DOMAINS OF MOUSE DICER COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDORIBONUCLEASE DICER; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RNASEIIIB DOMAIN, DSRNA BINDING DOMAIN (UNP RESIDUES 1638- COMPND 5 1900); COMPND 6 SYNONYM: DOUBLE-STRAND-SPECIFIC RIBONUCLEASE MDCR-1; COMPND 7 EC: 3.1.26.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: DICER1, DICER, MDCR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET48B KEYWDS RNASE, ATP-BINDING, ENDONUCLEASE, HELICASE, HYDROLASE, NUCLEASE, KEYWDS 2 NUCLEOTIDE-BINDING, PHOSPHOPROTEIN, RNA-BINDING, RNA-MEDIATED GENE KEYWDS 3 SILENCING EXPDTA X-RAY DIFFRACTION AUTHOR J.K.LEE,Z.DU,R.J.TJHEN,R.M.STROUD,T.L.JAMES REVDAT 4 13-JUL-11 3C4T 1 VERSN REVDAT 3 24-FEB-09 3C4T 1 VERSN REVDAT 2 04-MAR-08 3C4T 1 JRNL REVDAT 1 19-FEB-08 3C4T 0 JRNL AUTH Z.DU,J.K.LEE,R.TJHEN,R.M.STROUD,T.L.JAMES JRNL TITL STRUCTURAL AND BIOCHEMICAL INSIGHTS INTO THE DICING JRNL TITL 2 MECHANISM OF MOUSE DICER: A CONSERVED LYSINE IS CRITICAL FOR JRNL TITL 3 DSRNA CLEAVAGE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 2391 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18268334 JRNL DOI 10.1073/PNAS.0711506105 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0067 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 90.8 REMARK 3 NUMBER OF REFLECTIONS : 7513 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.304 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT : 353 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 292 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 51.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.4690 REMARK 3 BIN FREE R VALUE SET COUNT : 18 REMARK 3 BIN FREE R VALUE : 0.4470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1923 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 6 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 105.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 99.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.44000 REMARK 3 B22 (A**2) : 6.44000 REMARK 3 B33 (A**2) : -12.88000 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): 0.453 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.382 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 43.196 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1972 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2673 ; 2.163 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 240 ; 8.952 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;43.466 ;23.152 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 324 ;23.877 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;25.863 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 293 ; 0.141 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1503 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1207 ; 0.785 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1937 ; 1.515 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 765 ; 2.090 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 736 ; 3.564 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 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 1646 A 1760 REMARK 3 ORIGIN FOR THE GROUP (A): -20.0051 -25.4006 15.2561 REMARK 3 T TENSOR REMARK 3 T11: -0.1057 T22: -0.0697 REMARK 3 T33: -0.1858 T12: -0.2222 REMARK 3 T13: -0.0759 T23: 0.0624 REMARK 3 L TENSOR REMARK 3 L11: 0.8667 L22: 3.7015 REMARK 3 L33: 9.2326 L12: -0.6143 REMARK 3 L13: -0.3407 L23: 1.3655 REMARK 3 S TENSOR REMARK 3 S11: 0.2619 S12: 0.0232 S13: 0.0272 REMARK 3 S21: 0.1319 S22: -0.1520 S23: 0.0015 REMARK 3 S31: 0.2863 S32: -0.7121 S33: -0.1099 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 1791 A 1838 REMARK 3 ORIGIN FOR THE GROUP (A): -13.6141 -26.4078 7.1069 REMARK 3 T TENSOR REMARK 3 T11: 0.0163 T22: -0.0058 REMARK 3 T33: -0.0407 T12: -0.0971 REMARK 3 T13: -0.0600 T23: 0.0157 REMARK 3 L TENSOR REMARK 3 L11: 2.1350 L22: 0.6225 REMARK 3 L33: 8.9650 L12: 1.1495 REMARK 3 L13: 0.2773 L23: 0.3291 REMARK 3 S TENSOR REMARK 3 S11: -0.0430 S12: -0.0171 S13: 0.3675 REMARK 3 S21: 0.3880 S22: 0.4968 S23: -0.1315 REMARK 3 S31: 0.7756 S32: 0.3882 S33: -0.4538 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 1840 A 1895 REMARK 3 ORIGIN FOR THE GROUP (A): -9.2202 -43.8798 -23.5280 REMARK 3 T TENSOR REMARK 3 T11: 0.0106 T22: -0.1365 REMARK 3 T33: -0.1656 T12: -0.0576 REMARK 3 T13: 0.1415 T23: -0.0215 REMARK 3 L TENSOR REMARK 3 L11: 9.1101 L22: 6.9912 REMARK 3 L33: 9.3922 L12: 0.2195 REMARK 3 L13: 4.9143 L23: 0.7932 REMARK 3 S TENSOR REMARK 3 S11: 0.2923 S12: -0.1102 S13: 0.2135 REMARK 3 S21: -0.2926 S22: -0.6586 S23: -1.0079 REMARK 3 S31: -0.3833 S32: 0.4128 S33: 0.3663 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: NULL REMARK 4 REMARK 4 3C4T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-08. REMARK 100 THE RCSB ID CODE IS RCSB046341. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.11 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7819 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.0 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : 0.03600 REMARK 200 FOR THE DATA SET : 28.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 46.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.36800 REMARK 200 R SYM FOR SHELL (I) : 0.22300 REMARK 200 FOR SHELL : 3.670 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-26% PEG400, 100 MM HEPES (PH7.0), REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 35.06300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.06300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 66.33150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.06300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.06300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 66.33150 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.06300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.06300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 66.33150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.06300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.06300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 66.33150 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 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 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: 4040 ANGSTROM**2 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 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLY A 1636 REMARK 465 PRO A 1637 REMARK 465 MET A 1766 REMARK 465 GLN A 1767 REMARK 465 GLY A 1768 REMARK 465 MET A 1769 REMARK 465 ASP A 1770 REMARK 465 SER A 1771 REMARK 465 GLU A 1772 REMARK 465 LEU A 1773 REMARK 465 ARG A 1774 REMARK 465 ARG A 1775 REMARK 465 SER A 1776 REMARK 465 GLU A 1777 REMARK 465 GLU A 1778 REMARK 465 ASP A 1779 REMARK 465 GLU A 1780 REMARK 465 GLU A 1781 REMARK 465 LYS A 1782 REMARK 465 GLU A 1783 REMARK 465 ALA A 1898 REMARK 465 ASN A 1899 REMARK 465 GLN A 1900 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 LYS A1641 CG CD CE NZ REMARK 470 GLN A1710 CG CD OE1 NE2 REMARK 470 GLU A1748 CG CD OE1 OE2 REMARK 470 LYS A1758 CG CD CE NZ REMARK 470 LYS A1828 CG CD CE NZ REMARK 470 LEU A1841 CG CD1 CD2 REMARK 470 GLU A1843 CG CD OE1 OE2 REMARK 470 LYS A1850 CG CD CE NZ REMARK 470 GLU A1867 CG CD OE1 OE2 REMARK 470 LYS A1871 CG CD CE NZ REMARK 470 LYS A1873 CG CD CE NZ REMARK 470 LYS A1897 CG CD CE NZ 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 OH TYR A 1659 OD2 ASP A 1806 1.97 REMARK 500 O GLN A 1760 ND2 ASN A 1764 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLU A 1762 CD CD A 2 5445 2.16 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 LEU A1646 CA - CB - CG ANGL. DEV. = -16.3 DEGREES REMARK 500 ILE A1700 CB - CA - C ANGL. DEV. = -14.4 DEGREES REMARK 500 PRO A1747 C - N - CA ANGL. DEV. = 10.8 DEGREES REMARK 500 LEU A1841 N - CA - C ANGL. DEV. = 16.6 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 ALA A1639 -73.57 -79.32 REMARK 500 GLU A1640 -32.86 -29.04 REMARK 500 HIS A1673 -172.74 -69.38 REMARK 500 ILE A1700 -16.99 -41.90 REMARK 500 HIS A1703 -71.09 -62.46 REMARK 500 ARG A1709 -9.61 -54.29 REMARK 500 GLN A1710 58.99 27.96 REMARK 500 SER A1712 156.95 -48.59 REMARK 500 ASN A1725 118.10 173.98 REMARK 500 ASP A1737 4.57 81.53 REMARK 500 SER A1746 89.30 171.62 REMARK 500 LYS A1763 -22.09 -36.65 REMARK 500 PRO A1789 93.43 -68.27 REMARK 500 ALA A1791 -17.64 -43.62 REMARK 500 GLU A1797 -70.33 -70.37 REMARK 500 ASN A1832 61.16 -105.97 REMARK 500 PRO A1834 102.31 -44.61 REMARK 500 ARG A1835 93.51 -59.73 REMARK 500 SER A1836 115.90 -39.82 REMARK 500 GLU A1840 -39.30 -39.41 REMARK 500 GLU A1843 -78.24 -40.79 REMARK 500 MET A1844 -75.43 -17.45 REMARK 500 PRO A1846 -81.81 -57.48 REMARK 500 PRO A1853 168.39 -45.67 REMARK 500 ASP A1859 32.65 -88.69 REMARK 500 VAL A1869 91.94 -53.78 REMARK 500 LEU A1896 25.99 -69.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 1841 LEU A 1842 147.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ASN A1764 24.2 L L OUTSIDE RANGE REMARK 500 LEU A1841 16.9 L L OUTSIDE RANGE REMARK 500 ARG A1879 24.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1906 DISTANCE = 5.03 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3C4B RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITHOUT CADMIUM BOUND AT THE ACTIVE SITE. DBREF 3C4T A 1638 1900 UNP Q8R418 DICER_MOUSE 1638 1900 SEQADV 3C4T GLY A 1636 UNP Q8R418 EXPRESSION TAG SEQADV 3C4T PRO A 1637 UNP Q8R418 EXPRESSION TAG SEQRES 1 A 265 GLY PRO ASP ALA GLU LYS THR LEU ASN HIS LEU ILE SER SEQRES 2 A 265 GLY PHE GLU THR PHE GLU LYS LYS ILE ASN TYR ARG PHE SEQRES 3 A 265 LYS ASN LYS ALA TYR LEU LEU GLN ALA PHE THR HIS ALA SEQRES 4 A 265 SER TYR HIS TYR ASN THR ILE THR ASP OCS TYR GLN ARG SEQRES 5 A 265 LEU GLU PHE LEU GLY ASP ALA ILE LEU ASP TYR LEU ILE SEQRES 6 A 265 THR LYS HIS LEU TYR GLU ASP PRO ARG GLN HIS SER PRO SEQRES 7 A 265 GLY VAL LEU THR ASP LEU ARG SER ALA LEU VAL ASN ASN SEQRES 8 A 265 THR ILE PHE ALA SER LEU ALA VAL LYS TYR ASP TYR HIS SEQRES 9 A 265 LYS TYR PHE LYS ALA VAL SER PRO GLU LEU PHE HIS VAL SEQRES 10 A 265 ILE ASP ASP PHE VAL LYS PHE GLN LEU GLU LYS ASN GLU SEQRES 11 A 265 MET GLN GLY MET ASP SER GLU LEU ARG ARG SER GLU GLU SEQRES 12 A 265 ASP GLU GLU LYS GLU GLU ASP ILE GLU VAL PRO LYS ALA SEQRES 13 A 265 MET GLY ASP ILE PHE GLU SER LEU ALA GLY ALA ILE TYR SEQRES 14 A 265 MET ASP SER GLY MET SER LEU GLU VAL VAL TRP GLN VAL SEQRES 15 A 265 TYR TYR PRO MET MET GLN PRO LEU ILE GLU LYS PHE SER SEQRES 16 A 265 ALA ASN VAL PRO ARG SER PRO VAL ARG GLU LEU LEU GLU SEQRES 17 A 265 MET GLU PRO GLU THR ALA LYS PHE SER PRO ALA GLU ARG SEQRES 18 A 265 THR TYR ASP GLY LYS VAL ARG VAL THR VAL GLU VAL VAL SEQRES 19 A 265 GLY LYS GLY LYS PHE LYS GLY VAL GLY ARG SER TYR ARG SEQRES 20 A 265 ILE ALA LYS SER ALA ALA ALA ARG ARG ALA LEU ARG SER SEQRES 21 A 265 LEU LYS ALA ASN GLN MODRES 3C4T OCS A 1684 CYS CYSTEINESULFONIC ACID HET OCS A1684 9 HET CD A 1 1 HET CD A 2 1 HET CD A 3 1 HETNAM OCS CYSTEINESULFONIC ACID HETNAM CD CADMIUM ION FORMUL 1 OCS C3 H7 N O5 S FORMUL 2 CD 3(CD 2+) FORMUL 5 HOH *6(H2 O) HELIX 1 1 ASP A 1638 SER A 1648 1 11 HELIX 2 2 GLY A 1649 ILE A 1657 1 9 HELIX 3 3 ASN A 1663 THR A 1672 1 10 HELIX 4 4 TYR A 1685 ASP A 1707 1 23 HELIX 5 5 SER A 1712 VAL A 1724 1 13 HELIX 6 6 ASN A 1725 TYR A 1736 1 12 HELIX 7 7 ASP A 1737 TYR A 1741 5 5 HELIX 8 8 SER A 1746 LYS A 1763 1 18 HELIX 9 9 LYS A 1790 SER A 1807 1 18 HELIX 10 10 SER A 1810 ALA A 1831 1 22 HELIX 11 11 SER A 1836 GLU A 1845 1 10 HELIX 12 12 SER A 1880 LEU A 1896 1 17 SHEET 1 A 3 ALA A1849 PHE A1851 0 SHEET 2 A 3 VAL A1862 VAL A1868 -1 O GLU A1867 N LYS A1850 SHEET 3 A 3 GLU A1855 ARG A1856 -1 N GLU A1855 O ARG A1863 SHEET 1 B 3 ALA A1849 PHE A1851 0 SHEET 2 B 3 VAL A1862 VAL A1868 -1 O GLU A1867 N LYS A1850 SHEET 3 B 3 LYS A1873 GLY A1878 -1 O PHE A1874 N VAL A1866 LINK OE1 GLU A1797 CD CD A 3 1555 1555 2.54 LINK C ASP A1683 N OCS A1684 1555 1555 1.33 LINK C OCS A1684 N TYR A1685 1555 1555 1.32 SITE 1 AC1 1 HIS A1703 SITE 1 AC2 2 HIS A1645 GLU A1762 SITE 1 AC3 3 GLU A1689 ASP A1794 GLU A1797 CRYST1 70.126 70.126 132.663 90.00 90.00 90.00 P 42 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 0.014260 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014260 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007538 0.00000