HEADER RNA 15-APR-15 2N1Q TITLE HIV-1 CORE PACKAGING SIGNAL COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA_(155-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 4 ORGANISM_TAXID: 11676 KEYWDS RNA, HIV-1, PACKAGING SIGNAL EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.C.KEANE,M.F.SUMMERS REVDAT 3 14-JUN-23 2N1Q 1 REMARK REVDAT 2 01-JUL-15 2N1Q 1 JRNL REVDAT 1 27-MAY-15 2N1Q 0 JRNL AUTH S.C.KEANE,X.HENG,K.LU,S.KHARYTONCHYK,V.RAMAKRISHNAN, JRNL AUTH 2 G.CARTER,S.BARTON,A.HOSIC,A.FLORWICK,J.SANTOS,N.C.BOLDEN, JRNL AUTH 3 S.MCCOWIN,D.A.CASE,B.A.JOHNSON,M.SALEMI,A.TELESNITSKY, JRNL AUTH 4 M.F.SUMMERS JRNL TITL RNA STRUCTURE. STRUCTURE OF THE HIV-1 RNA PACKAGING SIGNAL. JRNL REF SCIENCE V. 348 917 2015 JRNL REFN ISSN 0036-8075 JRNL PMID 25999508 JRNL DOI 10.1126/SCIENCE.AAA9266 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, AMBER, CYANA REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), CASE, DARDEN, CHEATHAM, III, SIMMERLING, REMARK 3 WANG, DUKE, LUO, ... AND KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N1Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000104311. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 300 MM RNA (155-MER), 20 MM [U REMARK 210 -2H] TRIS, 100% D2O; 300 MM A-H, REMARK 210 C-D, G-D, U-D RNA (155-MER), 20 REMARK 210 MM [U-2H] TRIS, 100% D2O; 300 MM REMARK 210 A-D, C-D, G-H, U-D RNA (155-MER), REMARK 210 20 MM [U-2H] TRIS, 100% D2O; REMARK 210 300 MM A-D, C-H, G-D, U-D RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A-D, C-D, G-D, REMARK 210 U-5D RNA (155-MER), 20 MM [U-2H] REMARK 210 TRIS, 100% D2O; 300 MM A-8D, C-D, REMARK 210 G-8D, U-D RNA (155-MER), 20 MM REMARK 210 [U-2H] TRIS, 100% D2O; 300 MM A- REMARK 210 8D, C,6-D2, G-D, U-D RNA (155- REMARK 210 MER), 20 MM [U-2H] TRIS, 100% REMARK 210 D2O; 300 MM A-8D, C-D, G-D, U,6- REMARK 210 D2 RNA (155-MER), 20 MM [U-2H] REMARK 210 TRIS, 100% D2O; 300 MM A-8D, C,6- REMARK 210 D2, G-8D, U-D RNA (155-MER), 20 REMARK 210 MM [U-2H] TRIS, 100% D2O; 300 MM REMARK 210 A-8D, C-D, G-8D, U,6-D2 RNA (155- REMARK 210 MER), 20 MM [U-2H] TRIS, 100% REMARK 210 D2O; 300 MM A-8D, C,6-D2, G-D, U, REMARK 210 6-D2 RNA (155-MER), 20 MM [U-2H] REMARK 210 TRIS, 100% D2O; 300 MM A,1',2',3' REMARK 210 ,4',5',5 -D7, C-D, G-D, U,6-D2 REMARK 210 RNA (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A,1',2',3',4', REMARK 210 5',5 -D7, C-D, G-8D, U,6-D2 RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A-H, C-D, G-1', REMARK 210 2',3',4',5',5''-D6 , U-D RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A,1',2',3',4',5' REMARK 210 ,5-D7, C-D, G-H, U-D RNA (155- REMARK 210 MER), 20 MM [U-2H] TRIS, 100% REMARK 210 D2O; 300 MM A,1',2',3',4',5',5- REMARK 210 D7, C-D, G-D, U-H RNA (155-MER), REMARK 210 20 MM [U-2H] TRIS, 100% D2O; 300 REMARK 210 MM A-D, C-D, G-H, U,6-D2 RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A-D, C-D, G-1', REMARK 210 2',3',4',5',5''-D6 , U,6-D2 RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A-D, C-D, G-1', REMARK 210 2',3',4',5',5''-D6 , U-5D RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O; 300 MM A-D, C-5D, G-1', REMARK 210 2',3',4',5',5''-D6 , U-D RNA REMARK 210 (155-MER), 20 MM [U-2H] TRIS, REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRDRAW, NMRVIEW, CYANA, AMBER REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 960 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 13 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 1 C A 109 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 C A 110 N3 - C2 - O2 ANGL. DEV. = -5.2 DEGREES REMARK 500 1 C A 111 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 C A 114 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 A A 124 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A A 124 C5 - C6 - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 A A 124 N1 - C6 - N6 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 C A 125 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 1 C A 127 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 A A 133 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A A 133 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 133 N1 - C6 - N6 ANGL. DEV. = -5.7 DEGREES REMARK 500 1 A A 135 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 A A 135 N1 - C6 - N6 ANGL. DEV. = -5.1 DEGREES REMARK 500 1 C A 218 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 C A 219 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 A A 220 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 A A 220 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 1 A A 220 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 1 A A 222 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 A A 222 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 A A 222 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 1 G A 224 N3 - C4 - C5 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A A 225 C4 - C5 - C6 ANGL. DEV. = -3.5 DEGREES REMARK 500 1 A A 225 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 225 N1 - C6 - N6 ANGL. DEV. = -5.8 DEGREES REMARK 500 1 A A 227 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 A A 227 N1 - C6 - N6 ANGL. DEV. = -4.5 DEGREES REMARK 500 1 C A 229 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 C A 233 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 1 A A 235 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 A A 235 C5 - C6 - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 1 A A 235 N1 - C6 - N6 ANGL. DEV. = -4.0 DEGREES REMARK 500 1 C A 236 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 C A 238 N3 - C2 - O2 ANGL. DEV. = -5.3 DEGREES REMARK 500 1 A A 239 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 A A 239 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 1 A A 239 N1 - C6 - N6 ANGL. DEV. = -4.3 DEGREES REMARK 500 1 G A 240 N3 - C4 - C5 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 A A 242 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 A A 242 N1 - C6 - N6 ANGL. DEV. = -5.1 DEGREES REMARK 500 1 C A 243 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 C A 245 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 C A 248 N3 - C2 - O2 ANGL. DEV. = -5.3 DEGREES REMARK 500 1 C A 252 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 1 A A 261 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 1 A A 261 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 261 N1 - C6 - N6 ANGL. DEV. = -5.6 DEGREES REMARK 500 1 A A 263 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 A A 263 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 2551 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25571 RELATED DB: BMRB DBREF 2N1Q A 105 345 PDB 2N1Q 2N1Q 105 345 SEQRES 1 A 155 G G U G C C C G U C U G U SEQRES 2 A 155 U G U G U G A C U C U G G SEQRES 3 A 155 U G A G A G C C A G A G G SEQRES 4 A 155 A G A U C U C U C G A C G SEQRES 5 A 155 C A G G A C U C G G C U U SEQRES 6 A 155 G C U G G A G A C G G C A SEQRES 7 A 155 A G A G G C G A G G G G C SEQRES 8 A 155 G G C G A C U G G U G A G SEQRES 9 A 155 U A C G C C A A A A A U U SEQRES 10 A 155 U U G A C U A G C G G A G SEQRES 11 A 155 G C U A G A A G G A G A G SEQRES 12 A 155 A G A U G G G U G C C C CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1