HEADER TRANSCRIPTION 26-AUG-10 3OMG TITLE STRUCTURE OF HUMAN SND1 EXTENDED TUDOR DOMAIN IN COMPLEX WITH THE TITLE 2 SYMMETRICALLY DIMETHYLATED ARGININE PIWIL1 PEPTIDE R14ME2S COMPND MOL_ID: 1; COMPND 2 MOLECULE: STAPHYLOCOCCAL NUCLEASE DOMAIN-CONTAINING PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: TUDOR DOMAIN; COMPND 5 SYNONYM: P100 CO-ACTIVATOR, 100 KDA COACTIVATOR, EBNA2 COACTIVATOR COMPND 6 P100, TUDOR DOMAIN-CONTAINING PROTEIN 11; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DIMETHYLATED ARGININE PEPTIDE R14ME2S; COMPND 10 CHAIN: C, D; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SND1, TDRD11; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-(DE3)-V2R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-MHL; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SYMMETRICALLY DIMETHYLATED ARGININE PEPTIDE R14ME2S SOURCE 14 DERIVED FROM PIWIL1 KEYWDS STAPHYLOCOCCAL NUCLEASE DOMAIN-CONTAINING PROTEIN 1, TDRD11, SND1, KEYWDS 2 PIWIL1/MIWI, STRUCTURAL GENOMICS CONSORTIUM, SGC, P100 EXTENDED KEYWDS 3 TUDOR DOMAIN, TRANSCRIPTION REGULATION, SYMMETRICALLY DIMETHYLATED KEYWDS 4 ARGININE PEPTIDES DERIVED FROM PIWIL1, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR R.LAM,K.LIU,Y.H.GUO,C.B.BIAN,C.XU,F.MACKENZIE,C.BOUNTRA,J.WEIGELT, AUTHOR 2 C.H.ARROWSMITH,A.M.EDWARDS,A.BOCHKAREV,J.MIN,STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (SGC) REVDAT 5 06-SEP-23 3OMG 1 LINK REVDAT 4 08-NOV-17 3OMG 1 REMARK REVDAT 3 24-NOV-10 3OMG 1 JRNL REVDAT 2 20-OCT-10 3OMG 1 JRNL REVDAT 1 08-SEP-10 3OMG 0 JRNL AUTH K.LIU,C.CHEN,Y.GUO,R.LAM,C.BIAN,C.XU,D.Y.ZHAO,J.JIN, JRNL AUTH 2 F.MACKENZIE,T.PAWSON,J.MIN JRNL TITL STRUCTURAL BASIS FOR RECOGNITION OF ARGININE METHYLATED PIWI JRNL TITL 2 PROTEINS BY THE EXTENDED TUDOR DOMAIN. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 18398 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20937909 JRNL DOI 10.1073/PNAS.1013106107 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.6.0081 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 80.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 35688 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1782 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2144 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3490 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 231 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.89000 REMARK 3 B22 (A**2) : -0.77000 REMARK 3 B33 (A**2) : -1.13000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.68000 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): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.653 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 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): 3565 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4832 ; 1.200 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 437 ; 5.364 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 177 ;35.698 ;24.011 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 585 ;14.040 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;12.670 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 534 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2749 ; 0.005 ; 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): 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): 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 : 4 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 681 A 897 REMARK 3 ORIGIN FOR THE GROUP (A): 3.8100 -0.1840 8.4280 REMARK 3 T TENSOR REMARK 3 T11: 0.0061 T22: 0.0390 REMARK 3 T33: 0.0219 T12: 0.0010 REMARK 3 T13: 0.0071 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 0.1721 L22: 0.6577 REMARK 3 L33: 0.7665 L12: -0.2831 REMARK 3 L13: 0.2592 L23: -0.4569 REMARK 3 S TENSOR REMARK 3 S11: -0.0139 S12: 0.0133 S13: -0.0049 REMARK 3 S21: 0.0377 S22: 0.0232 S23: -0.0157 REMARK 3 S31: -0.0252 S32: 0.0290 S33: -0.0094 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 : B 682 B 897 REMARK 3 ORIGIN FOR THE GROUP (A): 3.8950 0.4810 47.6930 REMARK 3 T TENSOR REMARK 3 T11: 0.0307 T22: 0.0194 REMARK 3 T33: 0.0102 T12: -0.0021 REMARK 3 T13: -0.0006 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.1621 L22: 0.7088 REMARK 3 L33: 1.2507 L12: -0.2327 REMARK 3 L13: 0.3161 L23: -0.6359 REMARK 3 S TENSOR REMARK 3 S11: -0.0003 S12: 0.0042 S13: -0.0078 REMARK 3 S21: -0.0811 S22: -0.0485 S23: 0.0006 REMARK 3 S31: -0.0261 S32: 0.0538 S33: 0.0487 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 : C 2 C 7 REMARK 3 ORIGIN FOR THE GROUP (A): 13.4350 -9.8130 6.9260 REMARK 3 T TENSOR REMARK 3 T11: 0.2839 T22: 0.0474 REMARK 3 T33: 0.1117 T12: 0.0150 REMARK 3 T13: -0.0165 T23: 0.0296 REMARK 3 L TENSOR REMARK 3 L11: 3.2230 L22: 14.1586 REMARK 3 L33: 11.4699 L12: 4.7764 REMARK 3 L13: -4.6344 L23: -12.6912 REMARK 3 S TENSOR REMARK 3 S11: -0.4957 S12: -0.1556 S13: -0.2215 REMARK 3 S21: -0.2337 S22: -0.3555 S23: -0.9815 REMARK 3 S31: 0.3540 S32: 0.3255 S33: 0.8512 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 : D 3 D 7 REMARK 3 ORIGIN FOR THE GROUP (A): 12.7150 -7.8190 46.6220 REMARK 3 T TENSOR REMARK 3 T11: 0.6627 T22: 0.5416 REMARK 3 T33: 0.1857 T12: 0.3807 REMARK 3 T13: 0.3192 T23: 0.0937 REMARK 3 L TENSOR REMARK 3 L11: 4.5376 L22: 17.8262 REMARK 3 L33: 0.7822 L12: -8.9917 REMARK 3 L13: -1.8581 L23: 3.6949 REMARK 3 S TENSOR REMARK 3 S11: 0.2261 S12: 0.1553 S13: 0.2531 REMARK 3 S21: -0.3025 S22: -0.2061 S23: -0.4783 REMARK 3 S31: 0.0335 S32: 0.0307 S33: -0.0199 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT; U VALUES: WITH TLS ADDED REMARK 4 REMARK 4 3OMG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-AUG-10. REMARK 100 THE DEPOSITION ID IS D_1000061300. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : VARIMAX HF REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN A200 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35716 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 80.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.44800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 2O4X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 30.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG1500, 1:500 V8 PROTEASE, PH REMARK 280 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 37.90200 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 ALA A 650 REMARK 465 LYS A 651 REMARK 465 GLN A 652 REMARK 465 LYS A 653 REMARK 465 LYS A 654 REMARK 465 GLU A 655 REMARK 465 LYS A 656 REMARK 465 VAL A 657 REMARK 465 TRP A 658 REMARK 465 ALA A 659 REMARK 465 HIS A 660 REMARK 465 TYR A 661 REMARK 465 GLU A 662 REMARK 465 GLU A 663 REMARK 465 GLN A 664 REMARK 465 PRO A 665 REMARK 465 VAL A 666 REMARK 465 GLU A 667 REMARK 465 GLU A 668 REMARK 465 VAL A 669 REMARK 465 MET A 670 REMARK 465 PRO A 671 REMARK 465 VAL A 672 REMARK 465 LEU A 673 REMARK 465 GLU A 674 REMARK 465 GLU A 675 REMARK 465 LYS A 676 REMARK 465 GLU A 677 REMARK 465 ARG A 678 REMARK 465 SER A 679 REMARK 465 ALA A 680 REMARK 465 VAL A 724 REMARK 465 GLU A 725 REMARK 465 GLY A 726 REMARK 465 SER A 727 REMARK 465 PHE A 898 REMARK 465 ARG A 899 REMARK 465 ALA A 900 REMARK 465 ASP A 901 REMARK 465 ASP A 902 REMARK 465 ALA A 903 REMARK 465 ASP A 904 REMARK 465 GLU A 905 REMARK 465 PHE A 906 REMARK 465 GLY A 907 REMARK 465 TYR A 908 REMARK 465 SER A 909 REMARK 465 ARG A 910 REMARK 465 ALA B 650 REMARK 465 LYS B 651 REMARK 465 GLN B 652 REMARK 465 LYS B 653 REMARK 465 LYS B 654 REMARK 465 GLU B 655 REMARK 465 LYS B 656 REMARK 465 VAL B 657 REMARK 465 TRP B 658 REMARK 465 ALA B 659 REMARK 465 HIS B 660 REMARK 465 TYR B 661 REMARK 465 GLU B 662 REMARK 465 GLU B 663 REMARK 465 GLN B 664 REMARK 465 PRO B 665 REMARK 465 VAL B 666 REMARK 465 GLU B 667 REMARK 465 GLU B 668 REMARK 465 VAL B 669 REMARK 465 MET B 670 REMARK 465 PRO B 671 REMARK 465 VAL B 672 REMARK 465 LEU B 673 REMARK 465 GLU B 674 REMARK 465 GLU B 675 REMARK 465 LYS B 676 REMARK 465 GLU B 677 REMARK 465 ARG B 678 REMARK 465 SER B 679 REMARK 465 ALA B 680 REMARK 465 SER B 681 REMARK 465 PHE B 898 REMARK 465 ARG B 899 REMARK 465 ALA B 900 REMARK 465 ASP B 901 REMARK 465 ASP B 902 REMARK 465 ALA B 903 REMARK 465 ASP B 904 REMARK 465 GLU B 905 REMARK 465 PHE B 906 REMARK 465 GLY B 907 REMARK 465 TYR B 908 REMARK 465 SER B 909 REMARK 465 ARG B 910 REMARK 465 ARG C 1 REMARK 465 GLU C 8 REMARK 465 ARG D 1 REMARK 465 GLY D 2 REMARK 465 GLU D 8 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 SER A 681 OG REMARK 470 ARG A 731 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 683 CG CD CE NZ REMARK 470 GLN B 805 CG CD OE1 NE2 REMARK 470 ASP B 846 CG OD1 OD2 REMARK 470 GLN B 872 CG CD OE1 NE2 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 846 -72.06 -74.98 REMARK 500 ASN A 891 -105.33 50.92 REMARK 500 SER B 834 -164.32 -124.70 REMARK 500 ASP B 846 -78.15 -79.61 REMARK 500 ASN B 891 -105.35 51.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3OMC RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH THE SYMMETRICALLY DIMETHYLATED REMARK 900 ARGININE PIWIL1 PEPTIDE R4ME2S. DBREF 3OMG A 650 910 UNP Q7KZF4 SND1_HUMAN 650 910 DBREF 3OMG B 650 910 UNP Q7KZF4 SND1_HUMAN 650 910 DBREF 3OMG C 1 8 PDB 3OMG 3OMG 1 8 DBREF 3OMG D 1 8 PDB 3OMG 3OMG 1 8 SEQRES 1 A 261 ALA LYS GLN LYS LYS GLU LYS VAL TRP ALA HIS TYR GLU SEQRES 2 A 261 GLU GLN PRO VAL GLU GLU VAL MET PRO VAL LEU GLU GLU SEQRES 3 A 261 LYS GLU ARG SER ALA SER TYR LYS PRO VAL PHE VAL THR SEQRES 4 A 261 GLU ILE THR ASP ASP LEU HIS PHE TYR VAL GLN ASP VAL SEQRES 5 A 261 GLU THR GLY THR GLN LEU GLU LYS LEU MET GLU ASN MET SEQRES 6 A 261 ARG ASN ASP ILE ALA SER HIS PRO PRO VAL GLU GLY SER SEQRES 7 A 261 TYR ALA PRO ARG ARG GLY GLU PHE CYS ILE ALA LYS PHE SEQRES 8 A 261 VAL ASP GLY GLU TRP TYR ARG ALA ARG VAL GLU LYS VAL SEQRES 9 A 261 GLU SER PRO ALA LYS ILE HIS VAL PHE TYR ILE ASP TYR SEQRES 10 A 261 GLY ASN ARG GLU VAL LEU PRO SER THR ARG LEU GLY THR SEQRES 11 A 261 LEU SER PRO ALA PHE SER THR ARG VAL LEU PRO ALA GLN SEQRES 12 A 261 ALA THR GLU TYR ALA PHE ALA PHE ILE GLN VAL PRO GLN SEQRES 13 A 261 ASP ASP ASP ALA ARG THR ASP ALA VAL ASP SER VAL VAL SEQRES 14 A 261 ARG ASP ILE GLN ASN THR GLN CYS LEU LEU ASN VAL GLU SEQRES 15 A 261 HIS LEU SER ALA GLY CYS PRO HIS VAL THR LEU GLN PHE SEQRES 16 A 261 ALA ASP SER LYS GLY ASP VAL GLY LEU GLY LEU VAL LYS SEQRES 17 A 261 GLU GLY LEU VAL MET VAL GLU VAL ARG LYS GLU LYS GLN SEQRES 18 A 261 PHE GLN LYS VAL ILE THR GLU TYR LEU ASN ALA GLN GLU SEQRES 19 A 261 SER ALA LYS SER ALA ARG LEU ASN LEU TRP ARG TYR GLY SEQRES 20 A 261 ASP PHE ARG ALA ASP ASP ALA ASP GLU PHE GLY TYR SER SEQRES 21 A 261 ARG SEQRES 1 B 261 ALA LYS GLN LYS LYS GLU LYS VAL TRP ALA HIS TYR GLU SEQRES 2 B 261 GLU GLN PRO VAL GLU GLU VAL MET PRO VAL LEU GLU GLU SEQRES 3 B 261 LYS GLU ARG SER ALA SER TYR LYS PRO VAL PHE VAL THR SEQRES 4 B 261 GLU ILE THR ASP ASP LEU HIS PHE TYR VAL GLN ASP VAL SEQRES 5 B 261 GLU THR GLY THR GLN LEU GLU LYS LEU MET GLU ASN MET SEQRES 6 B 261 ARG ASN ASP ILE ALA SER HIS PRO PRO VAL GLU GLY SER SEQRES 7 B 261 TYR ALA PRO ARG ARG GLY GLU PHE CYS ILE ALA LYS PHE SEQRES 8 B 261 VAL ASP GLY GLU TRP TYR ARG ALA ARG VAL GLU LYS VAL SEQRES 9 B 261 GLU SER PRO ALA LYS ILE HIS VAL PHE TYR ILE ASP TYR SEQRES 10 B 261 GLY ASN ARG GLU VAL LEU PRO SER THR ARG LEU GLY THR SEQRES 11 B 261 LEU SER PRO ALA PHE SER THR ARG VAL LEU PRO ALA GLN SEQRES 12 B 261 ALA THR GLU TYR ALA PHE ALA PHE ILE GLN VAL PRO GLN SEQRES 13 B 261 ASP ASP ASP ALA ARG THR ASP ALA VAL ASP SER VAL VAL SEQRES 14 B 261 ARG ASP ILE GLN ASN THR GLN CYS LEU LEU ASN VAL GLU SEQRES 15 B 261 HIS LEU SER ALA GLY CYS PRO HIS VAL THR LEU GLN PHE SEQRES 16 B 261 ALA ASP SER LYS GLY ASP VAL GLY LEU GLY LEU VAL LYS SEQRES 17 B 261 GLU GLY LEU VAL MET VAL GLU VAL ARG LYS GLU LYS GLN SEQRES 18 B 261 PHE GLN LYS VAL ILE THR GLU TYR LEU ASN ALA GLN GLU SEQRES 19 B 261 SER ALA LYS SER ALA ARG LEU ASN LEU TRP ARG TYR GLY SEQRES 20 B 261 ASP PHE ARG ALA ASP ASP ALA ASP GLU PHE GLY TYR SER SEQRES 21 B 261 ARG SEQRES 1 C 8 ARG GLY ARG ALA 2MR GLY GLN GLU SEQRES 1 D 8 ARG GLY ARG ALA 2MR GLY GLN GLU MODRES 3OMG 2MR C 5 ARG N3, N4-DIMETHYLARGININE MODRES 3OMG 2MR D 5 ARG N3, N4-DIMETHYLARGININE HET 2MR C 5 13 HET 2MR D 5 13 HETNAM 2MR N3, N4-DIMETHYLARGININE FORMUL 3 2MR 2(C8 H18 N4 O2) FORMUL 5 HOH *231(H2 O) HELIX 1 1 THR A 703 HIS A 721 1 19 HELIX 2 2 PRO A 773 THR A 775 5 3 HELIX 3 3 SER A 781 SER A 785 5 5 HELIX 4 4 ASP A 806 GLN A 822 1 17 HELIX 5 5 ASP A 850 GLU A 858 1 9 HELIX 6 6 GLU A 868 GLN A 870 5 3 HELIX 7 7 PHE A 871 ALA A 888 1 18 HELIX 8 8 LEU A 890 ARG A 894 5 5 HELIX 9 9 THR B 703 HIS B 721 1 19 HELIX 10 10 PRO B 723 SER B 727 5 5 HELIX 11 11 PRO B 773 THR B 775 5 3 HELIX 12 12 SER B 781 SER B 785 5 5 HELIX 13 13 ASP B 806 GLN B 822 1 17 HELIX 14 14 ASP B 850 GLU B 858 1 9 HELIX 15 15 GLU B 868 GLN B 870 5 3 HELIX 16 16 PHE B 871 ALA B 888 1 18 HELIX 17 17 LEU B 890 ARG B 894 5 5 SHEET 1 A 6 LYS A 683 ILE A 690 0 SHEET 2 A 6 HIS A 695 ASP A 700 -1 O GLN A 699 N PHE A 686 SHEET 3 A 6 ALA A 793 PHE A 798 -1 O TYR A 796 N PHE A 696 SHEET 4 A 6 HIS A 839 PHE A 844 1 O VAL A 840 N ALA A 797 SHEET 5 A 6 THR A 824 HIS A 832 -1 N HIS A 832 O HIS A 839 SHEET 6 A 6 LYS A 683 ILE A 690 -1 N VAL A 685 O CYS A 826 SHEET 1 B 5 ARG A 769 LEU A 772 0 SHEET 2 B 5 LYS A 758 TYR A 763 -1 N VAL A 761 O GLU A 770 SHEET 3 B 5 TRP A 745 SER A 755 -1 N LYS A 752 O HIS A 760 SHEET 4 B 5 PHE A 735 LYS A 739 -1 N CYS A 736 O ALA A 748 SHEET 5 B 5 LEU A 777 GLY A 778 -1 O GLY A 778 N ILE A 737 SHEET 1 C 6 LYS B 683 ILE B 690 0 SHEET 2 C 6 HIS B 695 ASP B 700 -1 O TYR B 697 N GLU B 689 SHEET 3 C 6 ALA B 793 PHE B 798 -1 O TYR B 796 N PHE B 696 SHEET 4 C 6 HIS B 839 PHE B 844 1 O VAL B 840 N ALA B 797 SHEET 5 C 6 THR B 824 HIS B 832 -1 N HIS B 832 O HIS B 839 SHEET 6 C 6 LYS B 683 ILE B 690 -1 N VAL B 685 O CYS B 826 SHEET 1 D 5 ARG B 769 LEU B 772 0 SHEET 2 D 5 LYS B 758 PHE B 762 -1 N ILE B 759 O LEU B 772 SHEET 3 D 5 TRP B 745 SER B 755 -1 N GLU B 751 O HIS B 760 SHEET 4 D 5 PHE B 735 LYS B 739 -1 N CYS B 736 O ALA B 748 SHEET 5 D 5 LEU B 777 THR B 779 -1 O GLY B 778 N ILE B 737 SHEET 1 E 2 ILE B 801 GLN B 802 0 SHEET 2 E 2 MET B 862 VAL B 863 -1 O MET B 862 N GLN B 802 LINK C ALA C 4 N 2MR C 5 1555 1555 1.34 LINK C 2MR C 5 N GLY C 6 1555 1555 1.33 LINK C ALA D 4 N 2MR D 5 1555 1555 1.34 LINK C 2MR D 5 N GLY D 6 1555 1555 1.33 CRYST1 35.721 75.804 80.073 90.00 90.36 90.00 P 1 21 1 4 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 0.027995 0.000000 0.000176 0.00000 SCALE2 0.000000 0.013192 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012489 0.00000