HEADER DNA BINDING PROTEIN 17-OCT-19 6T5T TITLE CRYSTAL STRUCTURE OF ARCHAEOGLOBUS FULGIDUS ARGONAUTE PROTEIN WITH TITLE 2 COGNATE DNA OLIGODUPLEX 5'-PATTGTGGCCACAAT 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*GP*GP*CP*CP*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: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126; 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 6T5T 1 REMARK REVDAT 1 18-NOV-20 6T5T 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'-PATTGTGGCCACAAT JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.95 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 121243 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.810 REMARK 3 FREE R VALUE TEST SET COUNT : 11898 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.80 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 6T5T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292104886. 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 : DOUBLE-CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS VERSION JAN 26, 2018 REMARK 200 BUILT=20180126 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 63695 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 99.551 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06300 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) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.10 REMARK 200 R MERGE FOR SHELL (I) : 0.96900 REMARK 200 R SYM FOR SHELL (I) : 0.96900 REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP VERS 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 49.77550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.95050 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.77550 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 54.95050 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: 12350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -119.0 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 99.55100 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 K K A 505 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 895 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 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 HIS A 309 REMARK 465 TYR A 331 REMARK 465 LEU A 332 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 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 GLU A 338 CG CD OE1 OE2 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 -0.188 REMARK 500 DT R 3 O3' DT R 3 C3' -0.037 REMARK 500 DA S 1 P DA S 1 OP3 -0.121 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 -152.57 -115.57 REMARK 500 ASN A 25 88.42 -153.68 REMARK 500 ASN A 119 85.27 -164.21 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 K A 505 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 43 OG REMARK 620 2 SER A 43 OG 0.0 REMARK 620 3 LEU A 44 O 101.3 101.3 REMARK 620 4 LEU A 44 O 101.3 101.3 0.0 REMARK 620 5 HOH A 729 O 79.9 79.9 70.5 70.5 REMARK 620 6 HOH A 729 O 104.9 104.9 133.7 133.7 151.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 59 OG REMARK 620 2 GLU A 358 O 32.8 REMARK 620 3 HIS A 362 N 32.0 2.0 REMARK 620 4 HOH A 723 O 30.6 2.8 1.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 506 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 106 O REMARK 620 2 GLY A 107 O 72.4 REMARK 620 3 HOH A 699 O 158.5 111.7 REMARK 620 4 HOH A 854 O 69.9 112.8 89.6 REMARK 620 5 HOH A 870 O 82.6 98.7 116.5 127.9 REMARK 620 N 1 2 3 4 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 85.6 REMARK 620 3 LEU A 427 OXT 86.1 56.8 REMARK 620 4 DA R 1 OP3 89.9 151.4 94.7 REMARK 620 5 DT R 3 OP1 95.7 101.0 157.6 107.6 REMARK 620 6 HOH R 107 O 173.4 91.5 87.3 89.8 90.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 507 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 323 O REMARK 620 2 SER A 347 OG 96.4 REMARK 620 3 HOH A 707 O 115.0 80.5 REMARK 620 4 HOH A 727 O 161.5 99.0 58.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 796 O REMARK 620 2 HOH A 803 O 145.7 REMARK 620 3 HOH A 859 O 100.8 99.9 REMARK 620 N 1 2 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 MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BME A 513 DBREF 6T5T A 1 427 UNP O28951 PIWI_ARCFU 1 427 DBREF 6T5T R 1 14 PDB 6T5T 6T5T 1 14 DBREF 6T5T S 1 14 PDB 6T5T 6T5T 1 14 SEQADV 6T5T MET A -13 UNP O28951 INITIATING METHIONINE SEQADV 6T5T GLY A -12 UNP O28951 EXPRESSION TAG SEQADV 6T5T SER A -11 UNP O28951 EXPRESSION TAG SEQADV 6T5T SER A -10 UNP O28951 EXPRESSION TAG SEQADV 6T5T HIS A -9 UNP O28951 EXPRESSION TAG SEQADV 6T5T HIS A -8 UNP O28951 EXPRESSION TAG SEQADV 6T5T HIS A -7 UNP O28951 EXPRESSION TAG SEQADV 6T5T HIS A -6 UNP O28951 EXPRESSION TAG SEQADV 6T5T HIS A -5 UNP O28951 EXPRESSION TAG SEQADV 6T5T HIS A -4 UNP O28951 EXPRESSION TAG SEQADV 6T5T SER A -3 UNP O28951 EXPRESSION TAG SEQADV 6T5T GLN A -2 UNP O28951 EXPRESSION TAG SEQADV 6T5T ASP A -1 UNP O28951 EXPRESSION TAG SEQADV 6T5T 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 DG DG DC DC DA DC DA DA SEQRES 2 R 14 DT SEQRES 1 S 14 DA DT DT DG DT DG DG DC DC DA DC DA DA SEQRES 2 S 14 DT HET MG A 501 1 HET MG A 502 1 HET MG A 503 1 HET CL A 504 1 HET K A 505 1 HET K A 506 1 HET K A 507 1 HET BME A 508 4 HET BME A 509 4 HET BME A 510 4 HET BME A 511 4 HET BME A 512 4 HET BME A 513 4 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM K POTASSIUM ION HETNAM BME BETA-MERCAPTOETHANOL FORMUL 4 MG 3(MG 2+) FORMUL 7 CL CL 1- FORMUL 8 K 3(K 1+) FORMUL 11 BME 6(C2 H6 O S) FORMUL 17 HOH *318(H2 O) HELIX 1 AA1 ASN A 25 GLY A 37 1 13 HELIX 2 AA2 SER A 58 VAL A 75 1 18 HELIX 3 AA3 HIS A 92 GLY A 107 1 16 HELIX 4 AA4 ASN A 119 ASN A 132 1 14 HELIX 5 AA5 TYR A 141 SER A 145 1 5 HELIX 6 AA6 ASN A 148 LEU A 164 1 17 HELIX 7 AA7 GLU A 221 ASN A 241 1 21 HELIX 8 AA8 MET A 260 GLN A 278 1 19 HELIX 9 AA9 GLU A 359 SER A 375 1 17 HELIX 10 AB1 PRO A 388 TYR A 407 1 20 HELIX 11 AB2 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 LEU A 171 -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 ILE A 52 SHEET 4 AA2 4 SER A 136 ARG A 140 1 O MET A 139 N LEU A 115 SHEET 1 AA3 3 MET A 208 ILE A 213 0 SHEET 2 AA3 3 ASN A 194 PHE A 202 -1 N VAL A 201 O LEU A 209 SHEET 3 AA3 3 VAL A 217 THR A 218 -1 O VAL A 217 N LEU A 195 SHEET 1 AA4 8 MET A 208 ILE A 213 0 SHEET 2 AA4 8 ASN A 194 PHE A 202 -1 N VAL A 201 O LEU A 209 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 LEU A 346 ASP A 353 -1 O SER A 347 N ASN A 293 SHEET 7 AA4 8 ARG A 322 LEU A 325 -1 N LEU A 325 O LEU A 346 SHEET 8 AA4 8 LYS A 315 LYS A 317 -1 N VAL A 316 O LEU A 324 SHEET 1 AA5 2 PHE A 298 VAL A 300 0 SHEET 2 AA5 2 THR A 341 ILE A 343 -1 O ILE A 343 N PHE A 298 LINK OG SER A 43 K K A 505 1555 1555 2.80 LINK OG SER A 43 K K A 505 1555 2555 2.80 LINK O LEU A 44 K K A 505 1555 1555 2.77 LINK O LEU A 44 K K A 505 1555 2555 2.77 LINK OG SER A 59 MG MG A 503 1555 4654 2.88 LINK O THR A 106 K K A 506 1555 1555 3.15 LINK O GLY A 107 K K A 506 1555 1555 2.73 LINK OE1 GLN A 159 MG MG A 501 1555 1555 2.16 LINK O TYR A 323 K K A 507 1555 1555 2.77 LINK OG ASER A 347 K K A 507 1555 1555 2.84 LINK O GLU A 358 MG MG A 503 1555 1555 2.88 LINK N HIS A 362 MG MG A 503 1555 1555 2.87 LINK O LEU A 427 MG MG A 501 1555 1555 2.18 LINK OXT LEU A 427 MG MG A 501 1555 1555 2.29 LINK MG MG A 501 OP3 DA R 1 1555 1555 2.08 LINK MG MG A 501 OP1 DT R 3 1555 1555 1.92 LINK MG MG A 501 O HOH R 107 1555 1555 2.12 LINK MG MG A 502 O HOH A 796 1555 1555 2.94 LINK MG MG A 502 O HOH A 803 1555 1555 2.93 LINK MG MG A 502 O HOH A 859 1555 1555 2.74 LINK MG MG A 503 O HOH A 723 1555 1555 2.81 LINK K K A 505 O HOH A 729 1555 1555 2.80 LINK K K A 505 O HOH A 729 1555 2555 2.80 LINK K K A 506 O HOH A 699 1555 1555 2.81 LINK K K A 506 O HOH A 854 1555 1555 2.87 LINK K K A 506 O HOH A 870 1555 1555 2.76 LINK K K A 507 O HOH A 707 1555 1555 3.04 LINK K K A 507 O HOH A 727 1555 1555 2.53 SITE 1 AC1 5 GLN A 159 LEU A 427 DA R 1 DT R 3 SITE 2 AC1 5 HOH R 107 SITE 1 AC2 7 SER A 220 GLU A 221 LEU A 223 THR A 224 SITE 2 AC2 7 HOH A 796 HOH A 803 HOH A 859 SITE 1 AC3 6 SER A 59 GLU A 358 GLU A 359 TYR A 361 SITE 2 AC3 6 HIS A 362 HOH A 723 SITE 1 AC4 2 TRP A 299 LYS A 317 SITE 1 AC5 3 SER A 43 LEU A 44 HOH A 729 SITE 1 AC6 5 THR A 106 GLY A 107 HOH A 699 HOH A 854 SITE 2 AC6 5 HOH A 870 SITE 1 AC7 5 LEU A 318 TYR A 323 SER A 347 HOH A 707 SITE 2 AC7 5 HOH A 727 SITE 1 AC8 6 GLY A 206 THR A 207 MET A 208 MET A 377 SITE 2 AC8 6 TRP A 379 TYR A 393 SITE 1 AC9 6 ILE A 213 SER A 214 ILE A 401 PRO A 411 SITE 2 AC9 6 ILE A 412 HOH A 771 SITE 1 AD1 6 ILE A 216 VAL A 217 TYR A 225 HOH A 606 SITE 2 AD1 6 HOH A 664 HOH A 885 SITE 1 AD2 1 PHE A 298 SITE 1 AD3 3 GLY A 313 ASP A 369 TYR A 372 SITE 1 AD4 6 LYS A 177 LYS A 204 GLU A 370 TYR A 373 SITE 2 AD4 6 HOH A 724 HOH A 807 CRYST1 52.098 99.551 109.901 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 0.019195 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010045 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009099 0.00000