HEADER RNA BINDING PROTEIN/RNA 11-DEC-23 8VAJ TITLE HUMAN ARGONAUTE3 BOUND TO CITYRNA AND TARGET RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN ARGONAUTE-3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HAGO3,ARGONAUTE RISC CATALYTIC COMPONENT 3,EUKARYOTIC COMPND 5 TRANSLATION INITIATION FACTOR 2C 3,EIF2C 3; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RNA (5'-R(P*UP*AP*AP*AP*GP*UP*GP*CP*UP*UP*AP*G)-3'); COMPND 9 CHAIN: E; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: RNA (5'-R(P*(SRA)P*AP*GP*CP*AP*CP*UP*UP*UP*AP*AP*A)-3'); COMPND 13 CHAIN: F; COMPND 14 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: AGO3, EIF2C3; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: INSECT CELL EXPRESSION VECTOR PTIE1; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 16 ORGANISM_TAXID: 9606 KEYWDS TINY RNA, ARGONAUTE3, CITYRNA, RISC, GENE SILENCING, RNA KEYWDS 2 INTERFERENCE, RNA BINDING PROTEIN, RNA BINDING PROTEIN-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.ZHANG,G.SIM,V.A.ADHAV,K.NAKANISHI REVDAT 1 16-OCT-24 8VAJ 0 JRNL AUTH H.ZHANG,G.SIM,A.C.KEHLING,V.A.ADHAV,A.SAVIDGE,B.PASTORE, JRNL AUTH 2 W.TANG,K.NAKANISHI JRNL TITL TARGET CLEAVAGE AND GENE SILENCING BY ARGONAUTES WITH JRNL TITL 2 CITYRNAS. JRNL REF CELL REP V. 43 14806 2024 JRNL REFN ESSN 2211-1247 JRNL PMID 39368090 JRNL DOI 10.1016/J.CELREP.2024.114806 REMARK 2 REMARK 2 RESOLUTION. 3.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21_5207 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.23 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 17661 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.210 REMARK 3 FREE R VALUE TEST SET COUNT : 1804 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 48.2300 - 8.0900 0.99 1312 163 0.1706 0.2074 REMARK 3 2 8.0900 - 6.4300 1.00 1251 146 0.2023 0.2256 REMARK 3 3 6.4300 - 5.6200 1.00 1253 136 0.2130 0.2916 REMARK 3 4 5.6200 - 5.1000 1.00 1221 129 0.1764 0.2381 REMARK 3 5 5.1000 - 4.7400 1.00 1213 162 0.1817 0.2367 REMARK 3 6 4.7400 - 4.4600 1.00 1230 131 0.1822 0.2481 REMARK 3 7 4.4600 - 4.2400 0.99 1194 134 0.1904 0.2309 REMARK 3 8 4.2400 - 4.0500 0.99 1192 137 0.2019 0.2577 REMARK 3 9 4.0500 - 3.9000 1.00 1231 122 0.2286 0.3079 REMARK 3 10 3.9000 - 3.7600 0.99 1171 150 0.2436 0.2828 REMARK 3 11 3.7600 - 3.6400 1.00 1187 142 0.2935 0.3351 REMARK 3 12 3.6400 - 3.5400 1.00 1203 144 0.3196 0.3877 REMARK 3 13 3.5400 - 3.4500 0.99 1199 108 0.3743 0.4277 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.435 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.743 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 107.0 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 137.6 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 : 0.004 7313 REMARK 3 ANGLE : 0.688 10011 REMARK 3 CHIRALITY : 0.044 1134 REMARK 3 PLANARITY : 0.006 1205 REMARK 3 DIHEDRAL : 16.695 2867 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 13:196 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.401 -18.131 8.466 REMARK 3 T TENSOR REMARK 3 T11: 1.7148 T22: 0.9338 REMARK 3 T33: 1.0350 T12: -0.1185 REMARK 3 T13: -0.0230 T23: -0.0345 REMARK 3 L TENSOR REMARK 3 L11: 0.3550 L22: 2.0640 REMARK 3 L33: 1.1479 L12: -0.0620 REMARK 3 L13: 0.0620 L23: -0.2492 REMARK 3 S TENSOR REMARK 3 S11: 0.0900 S12: -0.0469 S13: 0.2232 REMARK 3 S21: 0.0927 S22: 0.0763 S23: 0.1507 REMARK 3 S31: -1.1566 S32: 0.0798 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 197:421 ) REMARK 3 ORIGIN FOR THE GROUP (A): -36.526 -27.178 33.833 REMARK 3 T TENSOR REMARK 3 T11: 1.1828 T22: 0.8508 REMARK 3 T33: 0.9440 T12: -0.1376 REMARK 3 T13: -0.0557 T23: 0.0315 REMARK 3 L TENSOR REMARK 3 L11: 0.3974 L22: 0.9545 REMARK 3 L33: 2.2981 L12: -0.4438 REMARK 3 L13: -0.4066 L23: 1.6763 REMARK 3 S TENSOR REMARK 3 S11: -0.1515 S12: -0.0391 S13: -0.0128 REMARK 3 S21: 0.0714 S22: 0.0498 S23: 0.2185 REMARK 3 S31: 0.2526 S32: -0.0651 S33: -0.0001 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 422:723 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.249 -52.479 21.850 REMARK 3 T TENSOR REMARK 3 T11: 1.1352 T22: 1.2493 REMARK 3 T33: 1.1500 T12: -0.1188 REMARK 3 T13: -0.3326 T23: 0.0822 REMARK 3 L TENSOR REMARK 3 L11: 1.5485 L22: 1.4832 REMARK 3 L33: 1.1172 L12: 0.1082 REMARK 3 L13: 0.0516 L23: 0.2217 REMARK 3 S TENSOR REMARK 3 S11: 0.0264 S12: -0.1782 S13: 0.0265 REMARK 3 S21: 0.6744 S22: -0.0220 S23: -0.4408 REMARK 3 S31: -0.0065 S32: 0.6088 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 724:861 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.954 -45.069 16.407 REMARK 3 T TENSOR REMARK 3 T11: 1.2672 T22: 1.0942 REMARK 3 T33: 1.0315 T12: -0.2486 REMARK 3 T13: -0.2530 T23: 0.1278 REMARK 3 L TENSOR REMARK 3 L11: 2.1939 L22: 1.4310 REMARK 3 L33: 0.1295 L12: 0.3369 REMARK 3 L13: 0.3747 L23: -0.3155 REMARK 3 S TENSOR REMARK 3 S11: 0.0179 S12: -0.2168 S13: 0.3122 REMARK 3 S21: 0.7890 S22: -0.3231 S23: -0.3086 REMARK 3 S31: -0.2583 S32: 0.2455 S33: -0.0001 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN E AND RESID 1:14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.457 -43.989 25.534 REMARK 3 T TENSOR REMARK 3 T11: 2.1264 T22: 1.3110 REMARK 3 T33: 1.2641 T12: -0.1233 REMARK 3 T13: -0.2950 T23: 0.0075 REMARK 3 L TENSOR REMARK 3 L11: 0.9178 L22: 0.1513 REMARK 3 L33: 0.2953 L12: 0.2807 REMARK 3 L13: -0.2505 L23: 0.0635 REMARK 3 S TENSOR REMARK 3 S11: 0.1234 S12: -0.2267 S13: 1.2446 REMARK 3 S21: 0.9944 S22: -0.6825 S23: -0.8739 REMARK 3 S31: -1.5694 S32: 0.0672 S33: -0.0013 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN F AND RESID 12:16 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.930 -68.484 23.656 REMARK 3 T TENSOR REMARK 3 T11: 1.3988 T22: 1.3400 REMARK 3 T33: 1.3242 T12: 0.2966 REMARK 3 T13: -0.0769 T23: -0.0784 REMARK 3 L TENSOR REMARK 3 L11: 0.0140 L22: 0.0051 REMARK 3 L33: 0.0364 L12: 0.0051 REMARK 3 L13: 0.0096 L23: 0.0099 REMARK 3 S TENSOR REMARK 3 S11: 0.0342 S12: -0.5719 S13: -0.1534 REMARK 3 S21: 0.0653 S22: -0.3349 S23: -0.8232 REMARK 3 S31: -0.5064 S32: 0.2222 S33: -0.0008 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 8VAJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-DEC-23. REMARK 100 THE DEPOSITION ID IS D_1000279815. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUL-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17731 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.450 REMARK 200 RESOLUTION RANGE LOW (A) : 48.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.57 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.14 M SODIUM CITRATE, 0.1 M BIS-TRIS REMARK 280 PROPANE PH 8.8, AND 18% (W/V) PEG 3350 SUPPLEMENTED WITH 4% (V/V) REMARK 280 1,3-PROPANEDIOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.15K 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 69.06300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.76650 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 69.06300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 71.76650 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E, F 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 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 ILE A 3 REMARK 465 GLY A 4 REMARK 465 SER A 5 REMARK 465 ALA A 6 REMARK 465 GLY A 7 REMARK 465 PRO A 8 REMARK 465 ALA A 9 REMARK 465 GLY A 10 REMARK 465 ALA A 11 REMARK 465 GLN A 12 REMARK 465 PRO A 112 REMARK 465 GLY A 113 REMARK 465 GLU A 114 REMARK 465 GLY A 115 REMARK 465 GLY A 116 REMARK 465 LEU A 149 REMARK 465 GLU A 150 REMARK 465 LEU A 151 REMARK 465 ASP A 152 REMARK 465 LYS A 153 REMARK 465 PRO A 154 REMARK 465 GLU A 187 REMARK 465 GLY A 188 REMARK 465 TYR A 189 REMARK 465 GLY A 274 REMARK 465 THR A 275 REMARK 465 ALA A 604 REMARK 465 GLY A 605 REMARK 465 ASP A 606 REMARK 465 GLY A 607 REMARK 465 HIS A 831 REMARK 465 VAL A 832 REMARK 465 SER A 833 REMARK 465 U E 12 REMARK 465 A E 13 REMARK 465 C F 1 REMARK 465 U F 2 REMARK 465 A F 3 REMARK 465 OMU F 4 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 U E 10 N1 C2 O2 N3 C4 O4 C5 REMARK 470 U E 10 C6 REMARK 470 A E 11 N9 C8 N7 C5 C6 N6 N1 REMARK 470 A E 11 C2 N3 C4 REMARK 470 SRA F 5 N9 C8 N7 C5 C6 N6 N1 REMARK 470 SRA F 5 C2 N3 C4 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 U E 1 P U E 1 OP3 -0.128 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 78 -65.19 -101.50 REMARK 500 LYS A 89 -146.71 -149.49 REMARK 500 ARG A 90 41.03 -100.92 REMARK 500 ALA A 210 -167.31 -125.99 REMARK 500 TRP A 212 -12.17 74.59 REMARK 500 LEU A 251 175.49 69.81 REMARK 500 ARG A 278 119.22 -162.13 REMARK 500 PRO A 327 -175.77 -69.08 REMARK 500 ARG A 659 17.81 55.96 REMARK 500 GLU A 696 -131.38 51.51 REMARK 500 THR A 739 -155.97 -137.34 REMARK 500 ASP A 740 -13.12 -48.14 REMARK 500 GLN A 758 -61.64 -91.22 REMARK 500 HIS A 823 15.22 58.63 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 THR A 739 ASP A 740 -148.62 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 A 916 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A 917 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A 918 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH A 919 DISTANCE = 7.51 ANGSTROMS REMARK 525 HOH A 920 DISTANCE = 8.14 ANGSTROMS REMARK 525 HOH A 921 DISTANCE = 8.51 ANGSTROMS REMARK 525 HOH A 922 DISTANCE = 10.05 ANGSTROMS REMARK 525 HOH A 923 DISTANCE = 10.10 ANGSTROMS REMARK 525 HOH F 101 DISTANCE = 6.82 ANGSTROMS REMARK 525 HOH F 102 DISTANCE = 7.21 ANGSTROMS DBREF 8VAJ A 1 861 UNP Q9H9G7 AGO3_HUMAN 1 860 DBREF 8VAJ E 1 14 PDB 8VAJ 8VAJ 1 14 DBREF 8VAJ F 1 16 PDB 8VAJ 8VAJ 1 16 SEQADV 8VAJ GLY A -1 UNP Q9H9G7 EXPRESSION TAG SEQADV 8VAJ SER A 0 UNP Q9H9G7 EXPRESSION TAG SEQRES 1 A 862 GLY SER MET GLU ILE GLY SER ALA GLY PRO ALA GLY ALA SEQRES 2 A 862 GLN PRO LEU LEU MET VAL PRO ARG ARG PRO GLY TYR GLY SEQRES 3 A 862 THR MET GLY LYS PRO ILE LYS LEU LEU ALA ASN CYS PHE SEQRES 4 A 862 GLN VAL GLU ILE PRO LYS ILE ASP VAL TYR LEU TYR GLU SEQRES 5 A 862 VAL ASP ILE LYS PRO ASP LYS CYS PRO ARG ARG VAL ASN SEQRES 6 A 862 ARG GLU VAL VAL ASP SER MET VAL GLN HIS PHE LYS VAL SEQRES 7 A 862 THR ILE PHE GLY ASP ARG ARG PRO VAL TYR ASP GLY LYS SEQRES 8 A 862 ARG SER LEU TYR THR ALA ASN PRO LEU PRO VAL ALA THR SEQRES 9 A 862 THR GLY VAL ASP LEU ASP VAL THR LEU PRO GLY GLU GLY SEQRES 10 A 862 GLY LYS ASP ARG PRO PHE LYS VAL SER ILE LYS PHE VAL SEQRES 11 A 862 SER ARG VAL SER TRP HIS LEU LEU HIS GLU VAL LEU THR SEQRES 12 A 862 GLY ARG THR LEU PRO GLU PRO LEU GLU LEU ASP LYS PRO SEQRES 13 A 862 ILE SER THR ASN PRO VAL HIS ALA VAL ASP VAL VAL LEU SEQRES 14 A 862 ARG HIS LEU PRO SER MET LYS TYR THR PRO VAL GLY ARG SEQRES 15 A 862 SER PHE PHE SER ALA PRO GLU GLY TYR ASP HIS PRO LEU SEQRES 16 A 862 GLY GLY GLY ARG GLU VAL TRP PHE GLY PHE HIS GLN SER SEQRES 17 A 862 VAL ARG PRO ALA MET TRP LYS MET MET LEU ASN ILE ASP SEQRES 18 A 862 VAL SER ALA THR ALA PHE TYR LYS ALA GLN PRO VAL ILE SEQRES 19 A 862 GLN PHE MET CYS GLU VAL LEU ASP ILE HIS ASN ILE ASP SEQRES 20 A 862 GLU GLN PRO ARG PRO LEU THR ASP SER HIS ARG VAL LYS SEQRES 21 A 862 PHE THR LYS GLU ILE LYS GLY LEU LYS VAL GLU VAL THR SEQRES 22 A 862 HIS CYS GLY THR MET ARG ARG LYS TYR ARG VAL CYS ASN SEQRES 23 A 862 VAL THR ARG ARG PRO ALA SER HIS GLN THR PHE PRO LEU SEQRES 24 A 862 GLN LEU GLU ASN GLY GLN THR VAL GLU ARG THR VAL ALA SEQRES 25 A 862 GLN TYR PHE ARG GLU LYS TYR THR LEU GLN LEU LYS TYR SEQRES 26 A 862 PRO HIS LEU PRO CYS LEU GLN VAL GLY GLN GLU GLN LYS SEQRES 27 A 862 HIS THR TYR LEU PRO LEU GLU VAL CYS ASN ILE VAL ALA SEQRES 28 A 862 GLY GLN ARG CYS ILE LYS LYS LEU THR ASP ASN GLN THR SEQRES 29 A 862 SER THR MET ILE LYS ALA THR ALA ARG SER ALA PRO ASP SEQRES 30 A 862 ARG GLN GLU GLU ILE SER ARG LEU VAL ARG SER ALA ASN SEQRES 31 A 862 TYR GLU THR ASP PRO PHE VAL GLN GLU PHE GLN PHE LYS SEQRES 32 A 862 VAL ARG ASP GLU MET ALA HIS VAL THR GLY ARG VAL LEU SEQRES 33 A 862 PRO ALA PRO MET LEU GLN TYR GLY GLY ARG ASN ARG THR SEQRES 34 A 862 VAL ALA THR PRO SER HIS GLY VAL TRP ASP MET ARG GLY SEQRES 35 A 862 LYS GLN PHE HIS THR GLY VAL GLU ILE LYS MET TRP ALA SEQRES 36 A 862 ILE ALA CYS PHE ALA THR GLN ARG GLN CYS ARG GLU GLU SEQRES 37 A 862 ILE LEU LYS GLY PHE THR ASP GLN LEU ARG LYS ILE SER SEQRES 38 A 862 LYS ASP ALA GLY MET PRO ILE GLN GLY GLN PRO CYS PHE SEQRES 39 A 862 CYS LYS TYR ALA GLN GLY ALA ASP SER VAL GLU PRO MET SEQRES 40 A 862 PHE ARG HIS LEU LYS ASN THR TYR SER GLY LEU GLN LEU SEQRES 41 A 862 ILE ILE VAL ILE LEU PRO GLY LYS THR PRO VAL TYR ALA SEQRES 42 A 862 GLU VAL LYS ARG VAL GLY ASP THR LEU LEU GLY MET ALA SEQRES 43 A 862 THR GLN CYS VAL GLN VAL LYS ASN VAL ILE LYS THR SER SEQRES 44 A 862 PRO GLN THR LEU SER ASN LEU CYS LEU LYS ILE ASN VAL SEQRES 45 A 862 LYS LEU GLY GLY ILE ASN ASN ILE LEU VAL PRO HIS GLN SEQRES 46 A 862 ARG PRO SER VAL PHE GLN GLN PRO VAL ILE PHE LEU GLY SEQRES 47 A 862 ALA ASP VAL THR HIS PRO PRO ALA GLY ASP GLY LYS LYS SEQRES 48 A 862 PRO SER ILE ALA ALA VAL VAL GLY SER MET ASP ALA HIS SEQRES 49 A 862 PRO SER ARG TYR CYS ALA THR VAL ARG VAL GLN ARG PRO SEQRES 50 A 862 ARG GLN GLU ILE ILE GLN ASP LEU ALA SER MET VAL ARG SEQRES 51 A 862 GLU LEU LEU ILE GLN PHE TYR LYS SER THR ARG PHE LYS SEQRES 52 A 862 PRO THR ARG ILE ILE PHE TYR ARG ASP GLY VAL SER GLU SEQRES 53 A 862 GLY GLN PHE ARG GLN VAL LEU TYR TYR GLU LEU LEU ALA SEQRES 54 A 862 ILE ARG GLU ALA CYS ILE SER LEU GLU LYS ASP TYR GLN SEQRES 55 A 862 PRO GLY ILE THR TYR ILE VAL VAL GLN LYS ARG HIS HIS SEQRES 56 A 862 THR ARG LEU PHE CYS ALA ASP ARG THR GLU ARG VAL GLY SEQRES 57 A 862 ARG SER GLY ASN ILE PRO ALA GLY THR THR VAL ASP THR SEQRES 58 A 862 ASP ILE THR HIS PRO TYR GLU PHE ASP PHE TYR LEU CYS SEQRES 59 A 862 SER HIS ALA GLY ILE GLN GLY THR SER ARG PRO SER HIS SEQRES 60 A 862 TYR HIS VAL LEU TRP ASP ASP ASN CYS PHE THR ALA ASP SEQRES 61 A 862 GLU LEU GLN LEU LEU THR TYR GLN LEU CYS HIS THR TYR SEQRES 62 A 862 VAL ARG CYS THR ARG SER VAL SER ILE PRO ALA PRO ALA SEQRES 63 A 862 TYR TYR ALA HIS LEU VAL ALA PHE ARG ALA ARG TYR HIS SEQRES 64 A 862 LEU VAL ASP LYS GLU HIS ASP SER ALA GLU GLY SER HIS SEQRES 65 A 862 VAL SER GLY GLN SER ASN GLY ARG ASP PRO GLN ALA LEU SEQRES 66 A 862 ALA LYS ALA VAL GLN ILE HIS GLN ASP THR LEU ARG THR SEQRES 67 A 862 MET TYR PHE ALA SEQRES 1 E 14 U A A A G U G C U U A U A SEQRES 2 E 14 G SEQRES 1 F 16 C U A OMU SRA A G C A C U U U SEQRES 2 F 16 A A A HET SRA F 5 12 HETNAM SRA ADENOSINE -5'-THIO-MONOPHOSPHATE FORMUL 3 SRA C10 H14 N5 O6 P S FORMUL 4 HOH *25(H2 O) HELIX 1 AA1 PRO A 59 PHE A 74 1 16 HELIX 2 AA2 TRP A 133 THR A 141 1 9 HELIX 3 AA3 ASN A 158 LEU A 170 1 13 HELIX 4 AA4 LEU A 170 TYR A 175 1 6 HELIX 5 AA5 PRO A 230 ASP A 240 1 11 HELIX 6 AA6 THR A 252 LYS A 264 1 13 HELIX 7 AA7 VAL A 309 THR A 318 1 10 HELIX 8 AA8 THR A 358 ALA A 370 1 13 HELIX 9 AA9 SER A 372 ALA A 387 1 16 HELIX 10 AB1 ASN A 388 THR A 391 5 4 HELIX 11 AB2 ASP A 392 GLU A 397 1 6 HELIX 12 AB3 PRO A 431 VAL A 435 5 5 HELIX 13 AB4 ARG A 464 ALA A 482 1 19 HELIX 14 AB5 GLY A 498 ASP A 500 5 3 HELIX 15 AB6 SER A 501 TYR A 513 1 13 HELIX 16 AB7 THR A 527 THR A 539 1 13 HELIX 17 AB8 VAL A 550 LYS A 555 1 6 HELIX 18 AB9 SER A 557 LEU A 572 1 16 HELIX 19 AC1 PRO A 585 GLN A 590 5 6 HELIX 20 AC2 LEU A 643 ARG A 659 1 17 HELIX 21 AC3 SER A 673 GLY A 675 5 3 HELIX 22 AC4 GLN A 676 LEU A 695 1 20 HELIX 23 AC5 ASP A 720 ARG A 724 5 5 HELIX 24 AC6 THR A 776 CYS A 788 1 13 HELIX 25 AC7 PRO A 801 LEU A 818 1 18 HELIX 26 AC8 GLN A 842 VAL A 848 1 7 HELIX 27 AC9 HIS A 851 ARG A 856 1 6 SHEET 1 AA111 TYR A 626 GLN A 633 0 SHEET 2 AA111 SER A 611 SER A 618 -1 N ALA A 613 O ARG A 631 SHEET 3 AA111 VAL A 592 THR A 600 -1 N THR A 600 O ILE A 612 SHEET 4 AA111 ARG A 664 ASP A 670 1 O TYR A 668 N LEU A 595 SHEET 5 AA111 GLY A 702 GLN A 709 1 O THR A 704 N PHE A 667 SHEET 6 AA111 SER A 764 ASP A 771 -1 O HIS A 765 N GLN A 709 SHEET 7 AA111 PHE A 747 CYS A 752 -1 N PHE A 747 O VAL A 768 SHEET 8 AA111 THR A 735 VAL A 737 -1 N THR A 735 O CYS A 752 SHEET 9 AA111 ALA A 407 VAL A 413 -1 N ARG A 412 O THR A 736 SHEET 10 AA111 LYS A 28 ALA A 34 -1 N LEU A 32 O VAL A 409 SHEET 11 AA111 LEU A 716 CYS A 718 -1 O PHE A 717 N LEU A 33 SHEET 1 AA2 6 THR A 176 VAL A 178 0 SHEET 2 AA2 6 SER A 181 SER A 184 -1 O SER A 181 N VAL A 178 SHEET 3 AA2 6 ARG A 197 PRO A 209 -1 O PHE A 203 N PHE A 182 SHEET 4 AA2 6 MET A 214 TYR A 226 -1 O ASN A 217 N SER A 206 SHEET 5 AA2 6 CYS A 36 GLU A 40 -1 N PHE A 37 O LEU A 216 SHEET 6 AA2 6 LYS A 401 VAL A 402 -1 O LYS A 401 N GLU A 40 SHEET 1 AA3 5 VAL A 85 TYR A 86 0 SHEET 2 AA3 5 LEU A 92 THR A 94 -1 O TYR A 93 N VAL A 85 SHEET 3 AA3 5 ASP A 45 ILE A 53 -1 N TYR A 49 O LEU A 92 SHEET 4 AA3 5 PHE A 121 SER A 132 -1 O LYS A 126 N GLU A 50 SHEET 5 AA3 5 VAL A 105 VAL A 109 -1 N VAL A 109 O PHE A 121 SHEET 1 AA4 3 LYS A 279 ARG A 281 0 SHEET 2 AA4 3 LYS A 267 VAL A 270 -1 N VAL A 268 O TYR A 280 SHEET 3 AA4 3 CYS A 345 ILE A 347 -1 O ASN A 346 N GLU A 269 SHEET 1 AA5 3 ASN A 284 VAL A 285 0 SHEET 2 AA5 3 CYS A 328 GLN A 330 -1 O GLN A 330 N ASN A 284 SHEET 3 AA5 3 TYR A 339 PRO A 341 -1 O LEU A 340 N LEU A 329 SHEET 1 AA6 2 THR A 294 LEU A 299 0 SHEET 2 AA6 2 GLN A 303 THR A 308 -1 O GLN A 303 N LEU A 299 SHEET 1 AA7 3 VAL A 428 ALA A 429 0 SHEET 2 AA7 3 LEU A 419 GLN A 420 -1 N LEU A 419 O ALA A 429 SHEET 3 AA7 3 ILE A 578 LEU A 579 -1 O ILE A 578 N GLN A 420 SHEET 1 AA8 4 PHE A 492 TYR A 495 0 SHEET 2 AA8 4 TRP A 452 CYS A 456 1 N CYS A 456 O LYS A 494 SHEET 3 AA8 4 LEU A 518 LEU A 523 1 O ILE A 520 N ALA A 455 SHEET 4 AA8 4 ALA A 544 GLN A 549 1 O VAL A 548 N LEU A 523 LINK O3' SRA F 5 P A F 6 1555 1555 1.61 CRYST1 65.142 138.126 143.533 90.00 90.00 90.00 P 2 21 21 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 0.015351 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007240 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006967 0.00000