HEADER RNA BINDING PROTEIN/RNA 14-MAY-13 4KQ0 TITLE CRYSTAL STRUCTURE OF DOUBLE-HELICAL CGG-REPETITIVE RNA 19MER COMPLEXED TITLE 2 WITH RSS P19 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA SILENCING SUPPRESSOR P19; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: UNP RESIDUES 27-158; COMPND 5 SYNONYM: 19 KDA SYMPTOM SEVERITY MODULATOR; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-R(P*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*CP*GP*GP*C COMPND 10 P*C)-3'; COMPND 11 CHAIN: B, E; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: SIRNA PGG(CGG)5CC SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TOMATO BUSHY STUNT VIRUS; SOURCE 3 ORGANISM_COMMON: TBSV; SOURCE 4 ORGANISM_TAXID: 12145; SOURCE 5 GENE: ORF4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS RNA SILENCING SUPPRESSION, TRINUCLEOTIDE REPEATS, DIMER, RNA BINDING KEYWDS 2 PROTEIN-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.CABO,E.KATORCHA,J.TAMJAR,A.N.POPOV,L.MALININA REVDAT 3 28-FEB-24 4KQ0 1 REMARK SEQADV REVDAT 2 15-NOV-17 4KQ0 1 REMARK REVDAT 1 14-MAY-14 4KQ0 0 JRNL AUTH J.TAMJAR,E.KATORCHA,A.CABO,S.DELGADO,A.N.POPOV,L.MALININA JRNL TITL STRUCTURAL INSIGHTS INTO CNG-REPETITIVE RNAS ASSOCIATED WITH JRNL TITL 2 HUMAN TRINUCLEOTIDE REPEAT EXPANSION DISEASES (TREDS) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 24052 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1263 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1252 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.38 REMARK 3 BIN R VALUE (WORKING SET) : 0.2300 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.2750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1970 REMARK 3 NUCLEIC ACID ATOMS : 834 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 267 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.18000 REMARK 3 B22 (A**2) : 1.18000 REMARK 3 B33 (A**2) : -3.83000 REMARK 3 B12 (A**2) : 1.18000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.201 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.177 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.389 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2980 ; 0.016 ; 0.017 REMARK 3 BOND LENGTHS OTHERS (A): 2226 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4224 ; 1.756 ; 1.705 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5148 ; 1.022 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 240 ; 5.675 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 100 ;34.178 ;22.200 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 336 ;14.184 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;22.157 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 436 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2780 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 754 ; 0.001 ; 0.020 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): 972 ; 3.949 ; 3.876 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 971 ; 3.931 ; 3.870 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1208 ; 5.184 ; 5.765 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 : 4 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 127 1 REMARK 3 1 D 2 D 127 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 1 A (A**2): 1909 ; 0.200 ; 0.500 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B E REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 1 B 9 1 REMARK 3 1 E 1 E 9 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 2 B (A**2): 289 ; 0.280 ; 0.500 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A B D E REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 301 A 515 1 REMARK 3 1 B 101 B 119 1 REMARK 3 1 D 301 D 515 1 REMARK 3 1 E 101 E 118 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 3 A (A**2): 148 ; 0.380 ; 0.500 REMARK 3 REMARK 3 NCS GROUP NUMBER : 4 REMARK 3 CHAIN NAMES : B E REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 11 B 19 1 REMARK 3 1 E 11 E 19 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 4 B (A**2): 285 ; 0.320 ; 0.500 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4KQ0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000079649. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9834 REMARK 200 MONOCHROMATOR : CHANNEL CUT SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13256 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 69.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.29300 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: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.7 M AMMONIUM SULFATE, 0.1 M HEPES, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K, PH 7 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 45.46300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.24808 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 49.26367 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 45.46300 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 26.24808 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 49.26367 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 45.46300 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 26.24808 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 49.26367 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 52.49615 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 98.52733 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 52.49615 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 98.52733 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 52.49615 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 98.52733 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 300 REMARK: THE BIOLOGICAL UNIT IS A P19 HOMODIMER BOUND TO DOUBLE- REMARK 300 STRANDED RNA. 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -137.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, E 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 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 452 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 469 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 495 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 458 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 475 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 501 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 GLY A 1 REMARK 465 SER A 2 REMARK 465 HIS A 3 REMARK 465 ASN A 28 REMARK 465 SER A 29 REMARK 465 ILE A 128 REMARK 465 GLU A 129 REMARK 465 VAL A 130 REMARK 465 GLU A 131 REMARK 465 SER A 132 REMARK 465 ASN A 133 REMARK 465 VAL A 134 REMARK 465 SER A 135 REMARK 465 GLY D 1 REMARK 465 SER D 2 REMARK 465 HIS D 3 REMARK 465 ASN D 28 REMARK 465 SER D 29 REMARK 465 ILE D 128 REMARK 465 GLU D 129 REMARK 465 VAL D 130 REMARK 465 GLU D 131 REMARK 465 SER D 132 REMARK 465 ASN D 133 REMARK 465 VAL D 134 REMARK 465 SER D 135 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 GLN A 31 CG CD OE1 NE2 REMARK 470 GLN D 31 CG CD OE1 NE2 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 O2 C E 19 O HOH E 107 2.13 REMARK 500 O2 C B 19 O HOH B 105 2.15 REMARK 500 O HOH A 512 O HOH D 403 2.16 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 G B 1 P G B 1 OP3 -0.122 REMARK 500 G E 1 P G E 1 OP3 -0.122 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 ARG A 95 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG D 95 NE - CZ - NH2 ANGL. DEV. = -3.5 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 ARG A 56 30.05 71.50 REMARK 500 ARG D 56 30.32 71.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JGN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RNA SILENCING SUPPRESSOR P19 WITH 1NT-5'- REMARK 900 OVERHANGING DOUBLE-HELICAL RNA 20MER PUUG(CUG)5CU REMARK 900 RELATED ID: 4J5V RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P19 IN COMPLEX WITH DOUBLE-HELICAL RNA 19MER REMARK 900 P(CAG)3C(CCG)3 REMARK 900 RELATED ID: 4J39 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P19 IN COMPLEX WITH DOUBLE-HELICAL 19MER RNA REMARK 900 P(CAG)3C(CUG)3 REMARK 900 RELATED ID: 1R9F RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P19 COMPLEXED WITH 19-BP SMALL INTERFERING RNA REMARK 900 RELATED ID: 4KNQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 1NT-5'-OVERHANGING DOUBLE-HELICAL CCG- REMARK 900 REPETITIVE RNA 20MER COMPLEXED WITH RSS P19 DBREF 4KQ0 A 5 135 UNP P69517 P19_TBSVK 27 157 DBREF 4KQ0 D 5 135 UNP P69517 P19_TBSVK 27 157 DBREF 4KQ0 B 1 19 PDB 4KQ0 4KQ0 1 19 DBREF 4KQ0 E 1 19 PDB 4KQ0 4KQ0 1 19 SEQADV 4KQ0 GLY A 1 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 SER A 2 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 HIS A 3 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 MET A 4 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 MET A 122 UNP P69517 LEU 144 ENGINEERED MUTATION SEQADV 4KQ0 MET A 125 UNP P69517 LEU 147 ENGINEERED MUTATION SEQADV 4KQ0 GLY D 1 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 SER D 2 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 HIS D 3 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 MET D 4 UNP P69517 EXPRESSION TAG SEQADV 4KQ0 MET D 122 UNP P69517 LEU 144 ENGINEERED MUTATION SEQADV 4KQ0 MET D 125 UNP P69517 LEU 147 ENGINEERED MUTATION SEQRES 1 A 135 GLY SER HIS MET THR SER PRO PHE LYS LEU PRO ASP GLU SEQRES 2 A 135 SER PRO SER TRP THR GLU TRP ARG LEU HIS ASN ASP GLU SEQRES 3 A 135 THR ASN SER ASN GLN ASP ASN PRO LEU GLY PHE LYS GLU SEQRES 4 A 135 SER TRP GLY PHE GLY LYS VAL VAL PHE LYS ARG TYR LEU SEQRES 5 A 135 ARG TYR ASP ARG THR GLU ALA SER LEU HIS ARG VAL LEU SEQRES 6 A 135 GLY SER TRP THR GLY ASP SER VAL ASN TYR ALA ALA SER SEQRES 7 A 135 ARG PHE PHE GLY PHE ASP GLN ILE GLY CYS THR TYR SER SEQRES 8 A 135 ILE ARG PHE ARG GLY VAL SER ILE THR VAL SER GLY GLY SEQRES 9 A 135 SER ARG THR LEU GLN HIS LEU CYS GLU MET ALA ILE ARG SEQRES 10 A 135 SER LYS GLN GLU MET LEU GLN MET ALA PRO ILE GLU VAL SEQRES 11 A 135 GLU SER ASN VAL SER SEQRES 1 B 19 G G C G G C G G C G G C G SEQRES 2 B 19 G C G G C C SEQRES 1 D 135 GLY SER HIS MET THR SER PRO PHE LYS LEU PRO ASP GLU SEQRES 2 D 135 SER PRO SER TRP THR GLU TRP ARG LEU HIS ASN ASP GLU SEQRES 3 D 135 THR ASN SER ASN GLN ASP ASN PRO LEU GLY PHE LYS GLU SEQRES 4 D 135 SER TRP GLY PHE GLY LYS VAL VAL PHE LYS ARG TYR LEU SEQRES 5 D 135 ARG TYR ASP ARG THR GLU ALA SER LEU HIS ARG VAL LEU SEQRES 6 D 135 GLY SER TRP THR GLY ASP SER VAL ASN TYR ALA ALA SER SEQRES 7 D 135 ARG PHE PHE GLY PHE ASP GLN ILE GLY CYS THR TYR SER SEQRES 8 D 135 ILE ARG PHE ARG GLY VAL SER ILE THR VAL SER GLY GLY SEQRES 9 D 135 SER ARG THR LEU GLN HIS LEU CYS GLU MET ALA ILE ARG SEQRES 10 D 135 SER LYS GLN GLU MET LEU GLN MET ALA PRO ILE GLU VAL SEQRES 11 D 135 GLU SER ASN VAL SER SEQRES 1 E 19 G G C G G C G G C G G C G SEQRES 2 E 19 G C G G C C HET SO4 A 301 5 HET SO4 A 302 5 HET SO4 A 303 5 HET SO4 D 301 5 HET SO4 D 302 5 HET SO4 D 303 5 HETNAM SO4 SULFATE ION FORMUL 5 SO4 6(O4 S 2-) FORMUL 11 HOH *267(H2 O) HELIX 1 1 SER A 16 THR A 27 1 12 HELIX 2 2 THR A 57 GLY A 66 1 10 HELIX 3 3 THR A 69 SER A 78 1 10 HELIX 4 4 ARG A 79 PHE A 81 5 3 HELIX 5 5 THR A 107 GLN A 124 1 18 HELIX 6 6 SER D 16 THR D 27 1 12 HELIX 7 7 THR D 57 GLY D 66 1 10 HELIX 8 8 THR D 69 SER D 78 1 10 HELIX 9 9 ARG D 79 PHE D 81 5 3 HELIX 10 10 THR D 107 GLN D 124 1 18 SHEET 1 A 8 VAL A 46 ARG A 53 0 SHEET 2 A 8 GLY A 36 PHE A 43 -1 N TRP A 41 O PHE A 48 SHEET 3 A 8 GLY A 87 PHE A 94 -1 O THR A 89 N GLY A 42 SHEET 4 A 8 VAL A 97 GLY A 104 -1 O GLY A 103 N CYS A 88 SHEET 5 A 8 VAL D 97 GLY D 104 -1 O SER D 98 N SER A 102 SHEET 6 A 8 GLY D 87 PHE D 94 -1 N CYS D 88 O GLY D 103 SHEET 7 A 8 GLY D 36 PHE D 43 -1 N GLY D 42 O THR D 89 SHEET 8 A 8 VAL D 46 ARG D 53 -1 O PHE D 48 N TRP D 41 SITE 1 AC1 5 SER A 6 PHE A 48 ARG A 50 HOH A 410 SITE 2 AC1 5 HOH A 413 SITE 1 AC2 4 SER A 16 HOH A 404 HOH A 423 HIS D 62 SITE 1 AC3 7 LYS A 38 SER A 40 SER A 91 ILE A 92 SITE 2 AC3 7 ARG A 93 G B 11 C B 12 SITE 1 AC4 5 SER D 6 PHE D 48 ARG D 50 HOH D 416 SITE 2 AC4 5 HOH D 419 SITE 1 AC5 4 HIS A 62 SER D 16 HOH D 410 HOH D 429 SITE 1 AC6 7 LYS D 38 SER D 40 SER D 91 ILE D 92 SITE 2 AC6 7 ARG D 93 G E 11 C E 12 CRYST1 90.926 90.926 147.791 90.00 90.00 120.00 H 3 18 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 0.010998 0.006350 0.000000 0.00000 SCALE2 0.000000 0.012699 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006766 0.00000