HEADER DNA BINDING PROTEIN 07-JAN-20 6TUO TITLE CRYSTAL STRUCTURE OF ARCHAEOGLOBUS FULGIDUS ARGONAUTE PROTEIN WITH TITLE 2 COGNATE DNA OLIGODUPLEX 5'-PATTGTACGTACAAT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PIWI PROTEIN AF_1318; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ARHAEOGLOBUS FULGIDUS ARGONAUTE PROTEIN; COMPND 5 SYNONYM: AFAGO,AFPIWI,PIWI/MID DOMAIN PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*AP*TP*TP*GP*TP*AP*CP*GP*TP*AP*CP*AP*AP*TP)-3'; COMPND 9 CHAIN: R, S; COMPND 10 FRAGMENT: OLIGODEOXYRIBONUCLEOTIDE; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS (STRAIN ATCC 49558 / VC- SOURCE 3 16 / DSM 4304 / JCM 9628 / NBRC 100126); SOURCE 4 ORGANISM_TAXID: 224325; SOURCE 5 STRAIN: DSM 4304; SOURCE 6 ATCC: 49558; SOURCE 7 GENE: AF_1318; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PETDUET; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 15 ORGANISM_TAXID: 562 KEYWDS ARGONAUTE, PIWI DOMAIN, PROTEIN-DNA COMPLEX, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.GRAZULIS,M.ZAREMBA REVDAT 2 24-JAN-24 6TUO 1 REMARK REVDAT 1 27-JAN-21 6TUO 0 JRNL AUTH E.GOLOVINAS,E.MANAKOVA,G.SASNAUSKAS,M.ZAREMBA JRNL TITL CRYSTAL STRUCTURE OF ARCHAEOGLOBUS FULGIDUS ARGONAUTE JRNL TITL 2 PROTEIN WITH COGNATE DNA OLIGODUPLEX 5'-PATTGTACGTACAAT JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.890 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 53664 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.840 REMARK 3 FREE R VALUE TEST SET COUNT : 5287 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 10.0000 - 5.5912 0.99 3061 320 0.1787 0.2071 REMARK 3 2 5.5912 - 4.4385 1.00 3086 335 0.1432 0.1761 REMARK 3 3 4.4385 - 3.8776 0.99 3005 362 0.1396 0.1672 REMARK 3 4 3.8776 - 3.5231 1.00 3063 332 0.1518 0.1849 REMARK 3 5 3.5231 - 3.2706 1.00 3087 310 0.1695 0.2359 REMARK 3 6 3.2706 - 3.0778 1.00 3053 326 0.1925 0.2248 REMARK 3 7 3.0778 - 2.9237 1.00 3097 328 0.1867 0.2542 REMARK 3 8 2.9237 - 2.7964 1.00 3081 303 0.1876 0.2194 REMARK 3 9 2.7964 - 2.6888 1.00 3076 334 0.1957 0.2651 REMARK 3 10 2.6888 - 2.5960 1.00 3007 380 0.1900 0.2756 REMARK 3 11 2.5960 - 2.5148 1.00 3110 328 0.1889 0.2738 REMARK 3 12 2.5148 - 2.4429 1.00 3055 311 0.1994 0.2438 REMARK 3 13 2.4429 - 2.3786 1.00 3063 356 0.1859 0.2200 REMARK 3 14 2.3786 - 2.3206 1.00 3047 334 0.1789 0.2116 REMARK 3 15 2.3206 - 2.2678 1.00 3068 353 0.1924 0.2430 REMARK 3 16 2.2678 - 2.2196 1.00 3018 348 0.1920 0.2302 REMARK 3 17 2.2196 - 2.1752 1.00 3021 352 0.1897 0.2579 REMARK 3 18 2.1752 - 2.1341 1.00 3130 318 0.1982 0.2768 REMARK 3 19 2.1341 - 2.0960 1.00 3001 351 0.2025 0.2409 REMARK 3 20 2.0960 - 2.0605 1.00 3115 326 0.2061 0.2615 REMARK 3 21 2.0605 - 2.0272 1.00 3092 310 0.2259 0.2726 REMARK 3 22 2.0272 - 1.9961 1.00 3044 299 0.2298 0.3009 REMARK 3 23 1.9961 - 1.9667 1.00 3081 353 0.2437 0.2818 REMARK 3 24 1.9667 - 1.9390 1.00 3048 324 0.2626 0.3252 REMARK 3 25 1.9390 - 1.9128 1.00 3055 337 0.2684 0.2954 REMARK 3 26 1.9128 - 1.8880 1.00 3058 351 0.2899 0.3324 REMARK 3 27 1.8880 - 1.8643 1.00 3072 315 0.2964 0.3330 REMARK 3 28 1.8643 - 1.8419 1.00 3054 330 0.3260 0.3485 REMARK 3 29 1.8419 - 1.8205 1.00 3054 350 0.3388 0.3632 REMARK 3 30 1.8205 - 1.8000 0.99 3020 347 0.3708 0.4158 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.43 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TUO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106103. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97970 REMARK 200 MONOCHROMATOR : OXFORD-FMB, UK; SI(111) OR REMARK 200 SI(311); BOTH CRYSTALS LN2 REMARK 200 COOLED, FIXED EXIT REMARK 200 OPTICS : SILICA SUBSTRATE + RH COATING REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53664 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 99.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.81500 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 11.6.04; 25.05.2018 REMARK 200 STARTING MODEL: PDBID 1YTU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NA-CACODYLATE PH 5.5 0.05 M, KCL_0.2 REMARK 280 M, MGCL2 0.01 M, PEG4000 5% (W/V), GLYCEROL 5% (V/V), VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 280K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.81700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.90100 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.81700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 54.90100 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -79.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, R, S 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -99.63400 REMARK 350 BIOMT3 2 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 A 662 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 926 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 MET A -13 REMARK 465 GLY A -12 REMARK 465 SER A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 SER A -3 REMARK 465 GLN A -2 REMARK 465 ASP A -1 REMARK 465 PRO A 0 REMARK 465 MET A 1 REMARK 465 MET A 2 REMARK 465 GLU A 3 REMARK 465 TYR A 4 REMARK 465 LYS A 5 REMARK 465 ILE A 6 REMARK 465 VAL A 7 REMARK 465 GLU A 8 REMARK 465 ASN A 9 REMARK 465 GLY A 302 REMARK 465 ASP A 303 REMARK 465 PRO A 304 REMARK 465 ASN A 305 REMARK 465 ASN A 306 REMARK 465 ARG A 307 REMARK 465 PHE A 308 REMARK 465 LYS A 333 REMARK 465 ARG A 334 REMARK 465 ASN A 335 REMARK 465 GLY A 336 REMARK 465 LEU A 337 REMARK 465 GLU A 338 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 N2 DG R 4 O2 DC S 11 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DA R 1 P DA R 1 OP3 -0.128 REMARK 500 DA S 1 P DA S 1 OP3 -0.124 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 DC S 7 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 DC S 11 O4' - C1' - N1 ANGL. DEV. = 2.3 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 ILE A 15 -147.70 -112.69 REMARK 500 ASN A 25 89.10 -155.10 REMARK 500 ASN A 119 91.98 -161.36 REMARK 500 SER A 133 -51.05 -124.28 REMARK 500 MET A 260 49.71 -143.11 REMARK 500 GLU A 312 97.66 -64.11 REMARK 500 ASN A 378 111.74 -161.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PEG A 506 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 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 159 OE1 REMARK 620 2 LEU A 427 O 88.4 REMARK 620 3 LEU A 427 OXT 87.1 56.8 REMARK 620 4 DA R 1 OP3 84.2 151.0 94.8 REMARK 620 5 DT R 3 OP1 97.8 105.8 161.9 103.0 REMARK 620 6 DT R 3 OP1 92.6 96.7 153.6 111.5 10.4 REMARK 620 7 HOH R 108 O 172.0 92.5 86.7 91.1 89.6 95.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 510 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6T5T RELATED DB: PDB REMARK 900 6T5T CONTAINS THE SAME PROTEIN WITH OTHER OLIGO DBREF 6TUO A 1 427 UNP O28951 PIWI_ARCFU 1 427 DBREF 6TUO R 1 14 PDB 6TUO 6TUO 1 14 DBREF 6TUO S 1 14 PDB 6TUO 6TUO 1 14 SEQADV 6TUO MET A -13 UNP O28951 INITIATING METHIONINE SEQADV 6TUO GLY A -12 UNP O28951 EXPRESSION TAG SEQADV 6TUO SER A -11 UNP O28951 EXPRESSION TAG SEQADV 6TUO SER A -10 UNP O28951 EXPRESSION TAG SEQADV 6TUO HIS A -9 UNP O28951 EXPRESSION TAG SEQADV 6TUO HIS A -8 UNP O28951 EXPRESSION TAG SEQADV 6TUO HIS A -7 UNP O28951 EXPRESSION TAG SEQADV 6TUO HIS A -6 UNP O28951 EXPRESSION TAG SEQADV 6TUO HIS A -5 UNP O28951 EXPRESSION TAG SEQADV 6TUO HIS A -4 UNP O28951 EXPRESSION TAG SEQADV 6TUO SER A -3 UNP O28951 EXPRESSION TAG SEQADV 6TUO GLN A -2 UNP O28951 EXPRESSION TAG SEQADV 6TUO ASP A -1 UNP O28951 EXPRESSION TAG SEQADV 6TUO PRO A 0 UNP O28951 EXPRESSION TAG SEQRES 1 A 441 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 A 441 PRO MET MET GLU TYR LYS ILE VAL GLU ASN GLY LEU THR SEQRES 3 A 441 TYR ARG ILE GLY ASN GLY ALA SER VAL PRO ILE SER ASN SEQRES 4 A 441 THR GLY GLU LEU ILE LYS GLY LEU ARG ASN TYR GLY PRO SEQRES 5 A 441 TYR GLU VAL PRO SER LEU LYS TYR ASN GLN ILE ALA LEU SEQRES 6 A 441 ILE HIS ASN ASN GLN PHE SER SER LEU ILE ASN GLN LEU SEQRES 7 A 441 LYS SER GLN ILE SER SER LYS ILE ASP GLU VAL TRP HIS SEQRES 8 A 441 ILE HIS ASN ILE ASN ILE SER GLU PHE ILE TYR ASP SER SEQRES 9 A 441 PRO HIS PHE ASP SER ILE LYS SER GLN VAL ASP ASN ALA SEQRES 10 A 441 ILE ASP THR GLY VAL ASP GLY ILE MET LEU VAL LEU PRO SEQRES 11 A 441 GLU TYR ASN THR PRO LEU TYR TYR LYS LEU LYS SER TYR SEQRES 12 A 441 LEU ILE ASN SER ILE PRO SER GLN PHE MET ARG TYR ASP SEQRES 13 A 441 ILE LEU SER ASN ARG ASN LEU THR PHE TYR VAL ASP ASN SEQRES 14 A 441 LEU LEU VAL GLN PHE VAL SER LYS LEU GLY GLY LYS PRO SEQRES 15 A 441 TRP ILE LEU ASN VAL ASP PRO GLU LYS GLY SER ASP ILE SEQRES 16 A 441 ILE ILE GLY THR GLY ALA THR ARG ILE ASP ASN VAL ASN SEQRES 17 A 441 LEU PHE CYS PHE ALA MET VAL PHE LYS LYS ASP GLY THR SEQRES 18 A 441 MET LEU TRP ASN GLU ILE SER PRO ILE VAL THR SER SER SEQRES 19 A 441 GLU TYR LEU THR TYR LEU LYS SER THR ILE LYS LYS VAL SEQRES 20 A 441 VAL TYR GLY PHE LYS LYS SER ASN PRO ASP TRP ASP VAL SEQRES 21 A 441 GLU LYS LEU THR LEU HIS VAL SER GLY LYS ARG PRO LYS SEQRES 22 A 441 MET LYS ASP GLY GLU THR LYS ILE LEU LYS GLU THR VAL SEQRES 23 A 441 GLU GLU LEU LYS LYS GLN GLU MET VAL SER ARG ASP VAL SEQRES 24 A 441 LYS TYR ALA ILE LEU HIS LEU ASN GLU THR HIS PRO PHE SEQRES 25 A 441 TRP VAL MET GLY ASP PRO ASN ASN ARG PHE HIS PRO TYR SEQRES 26 A 441 GLU GLY THR LYS VAL LYS LEU SER SER LYS ARG TYR LEU SEQRES 27 A 441 LEU THR LEU LEU GLN PRO TYR LEU LYS ARG ASN GLY LEU SEQRES 28 A 441 GLU MET VAL THR PRO ILE LYS PRO LEU SER VAL GLU ILE SEQRES 29 A 441 VAL SER ASP ASN TRP THR SER GLU GLU TYR TYR HIS ASN SEQRES 30 A 441 VAL HIS GLU ILE LEU ASP GLU ILE TYR TYR LEU SER LYS SEQRES 31 A 441 MET ASN TRP ARG GLY PHE ARG SER ARG ASN LEU PRO VAL SEQRES 32 A 441 THR VAL ASN TYR PRO LYS LEU VAL ALA GLY ILE ILE ALA SEQRES 33 A 441 ASN VAL ASN ARG TYR GLY GLY TYR PRO ILE ASN PRO GLU SEQRES 34 A 441 GLY ASN ARG SER LEU GLN THR ASN PRO TRP PHE LEU SEQRES 1 R 14 DA DT DT DG DT DA DC DG DT DA DC DA DA SEQRES 2 R 14 DT SEQRES 1 S 14 DA DT DT DG DT DA DC DG DT DA DC DA DA SEQRES 2 S 14 DT HET MG A 501 1 HET CL A 502 1 HET BME A 503 4 HET BME A 504 4 HET BME A 505 4 HET PEG A 506 6 HET GOL A 507 6 HET GOL A 508 6 HET GOL A 509 6 HET GOL A 510 6 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM BME BETA-MERCAPTOETHANOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 MG MG 2+ FORMUL 5 CL CL 1- FORMUL 6 BME 3(C2 H6 O S) FORMUL 9 PEG C4 H10 O3 FORMUL 10 GOL 4(C3 H8 O3) FORMUL 14 HOH *350(H2 O) HELIX 1 AA1 GLY A 16 GLY A 18 5 3 HELIX 2 AA2 ASN A 25 GLY A 37 1 13 HELIX 3 AA3 SER A 58 VAL A 75 1 18 HELIX 4 AA4 HIS A 92 GLY A 107 1 16 HELIX 5 AA5 ASN A 119 ASN A 132 1 14 HELIX 6 AA6 TYR A 141 SER A 145 1 5 HELIX 7 AA7 ASN A 148 LEU A 164 1 17 HELIX 8 AA8 GLU A 221 ASN A 241 1 21 HELIX 9 AA9 MET A 260 GLN A 278 1 19 HELIX 10 AB1 THR A 356 SER A 375 1 20 HELIX 11 AB2 PRO A 388 TYR A 407 1 20 HELIX 12 AB3 ASN A 417 ASN A 423 1 7 SHEET 1 AA1 3 SER A 20 PRO A 22 0 SHEET 2 AA1 3 THR A 12 ARG A 14 -1 N TYR A 13 O VAL A 21 SHEET 3 AA1 3 ILE A 170 ASN A 172 -1 O ILE A 170 N ARG A 14 SHEET 1 AA2 4 ASN A 82 ILE A 87 0 SHEET 2 AA2 4 GLN A 48 HIS A 53 1 N LEU A 51 O SER A 84 SHEET 3 AA2 4 GLY A 110 LEU A 115 1 O MET A 112 N ALA A 50 SHEET 4 AA2 4 SER A 136 ARG A 140 1 O MET A 139 N LEU A 115 SHEET 1 AA3 7 MET A 208 ILE A 213 0 SHEET 2 AA3 7 ASN A 194 PHE A 202 -1 N VAL A 201 O LEU A 209 SHEET 3 AA3 7 ILE A 181 ARG A 189 -1 N GLY A 184 O MET A 200 SHEET 4 AA3 7 LYS A 248 SER A 254 1 O HIS A 252 N ILE A 183 SHEET 5 AA3 7 LYS A 286 GLU A 294 1 O LEU A 290 N VAL A 253 SHEET 6 AA3 7 THR A 341 ASP A 353 -1 O SER A 352 N ILE A 289 SHEET 7 AA3 7 PHE A 298 VAL A 300 -1 N PHE A 298 O ILE A 343 SHEET 1 AA4 8 VAL A 217 THR A 218 0 SHEET 2 AA4 8 ASN A 194 PHE A 202 -1 N LEU A 195 O VAL A 217 SHEET 3 AA4 8 ILE A 181 ARG A 189 -1 N GLY A 184 O MET A 200 SHEET 4 AA4 8 LYS A 248 SER A 254 1 O HIS A 252 N ILE A 183 SHEET 5 AA4 8 LYS A 286 GLU A 294 1 O LEU A 290 N VAL A 253 SHEET 6 AA4 8 THR A 341 ASP A 353 -1 O SER A 352 N ILE A 289 SHEET 7 AA4 8 ARG A 322 LEU A 328 -1 N LEU A 327 O LYS A 344 SHEET 8 AA4 8 LYS A 315 LYS A 317 -1 N VAL A 316 O LEU A 324 LINK OE1 GLN A 159 MG MG A 501 1555 1555 2.24 LINK O LEU A 427 MG MG A 501 1555 1555 2.11 LINK OXT LEU A 427 MG MG A 501 1555 1555 2.33 LINK MG MG A 501 OP3 DA R 1 1555 1555 2.05 LINK MG MG A 501 OP1A DT R 3 1555 1555 1.89 LINK MG MG A 501 OP1B DT R 3 1555 1555 1.98 LINK MG MG A 501 O HOH R 108 1555 1555 2.10 SITE 1 AC1 5 GLN A 159 LEU A 427 DA R 1 DT R 3 SITE 2 AC1 5 HOH R 108 SITE 1 AC2 1 LYS A 317 SITE 1 AC3 3 GLY A 313 LYS A 315 ASP A 369 SITE 1 AC4 4 GLY A 255 LYS A 256 ARG A 257 PRO A 258 SITE 1 AC5 8 VAL A 173 ASP A 174 LYS A 177 LYS A 204 SITE 2 AC5 8 GLU A 370 TYR A 373 HOH A 677 HOH A 724 SITE 1 AC6 9 SER A 214 ILE A 216 PRO A 411 ILE A 412 SITE 2 AC6 9 ASN A 413 HOH A 622 HOH A 693 HOH A 730 SITE 3 AC6 9 HOH A 750 SITE 1 AC7 9 SER A 179 LYS A 248 LEU A 249 THR A 250 SITE 2 AC7 9 LYS A 286 TYR A 287 ALA A 288 TRP A 355 SITE 3 AC7 9 ASN A 363 SITE 1 AC8 4 ASP A 353 ASN A 354 TRP A 355 HOH A 741 SITE 1 AC9 5 TYR A 46 ILE A 104 GLY A 107 VAL A 108 SITE 2 AC9 5 ILE A 134 CRYST1 52.011 99.634 109.802 90.00 90.00 90.00 P 2 21 21 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 0.019227 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010037 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009107 0.00000