HEADER STRUCTURAL PROTEIN/RNA 23-JUN-00 1F6U TITLE NMR STRUCTURE OF THE HIV-1 NUCLEOCAPSID PROTEIN BOUND TO STEM-LOOP SL2 TITLE 2 OF THE PSI-RNA PACKAGING SIGNAL. IMPLICATIONS FOR GENOME RECOGNITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 STEM-LOOP SL2 FROM PSI-RNA PACKAGING; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HIV-1 NUCLEOCAPSID PROTEIN; COMPND 7 CHAIN: A; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 5 ORGANISM_TAXID: 11676; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PNL4-3 KEYWDS HIV-1, RNA, PROTEIN-RNA COMPLEX, PACKAGING SIGNAL, STRUCTURAL KEYWDS 2 PROTEIN-RNA COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR G.K.AMARASINGHE,R.N.DE GUZMAN,R.B.TURNER,K.J.CHANCELLOR,M.F.SUMMERS REVDAT 3 16-FEB-22 1F6U 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1F6U 1 VERSN REVDAT 1 09-OCT-00 1F6U 0 JRNL AUTH G.K.AMARASINGHE,R.N.DE GUZMAN,R.B.TURNER,K.J.CHANCELLOR, JRNL AUTH 2 Z.R.WU,M.F.SUMMERS JRNL TITL NMR STRUCTURE OF THE HIV-1 NUCLEOCAPSID PROTEIN BOUND TO JRNL TITL 2 STEM-LOOP SL2 OF THE PSI-RNA PACKAGING SIGNAL. IMPLICATIONS JRNL TITL 3 FOR GENOME RECOGNITION. JRNL REF J.MOL.BIOL. V. 301 491 2000 JRNL REFN ISSN 0022-2836 JRNL PMID 10926523 JRNL DOI 10.1006/JMBI.2000.3979 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, DYANA 1.5 REMARK 3 AUTHORS : BURKER (XWINNMR), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1F6U COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUN-00. REMARK 100 THE DEPOSITION ID IS D_1000011315. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 278 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 25MM NACL; 25MM NACL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6-1.2 MM COMPLEX OF REMARK 210 NUCLEOCAPSID PROTEIN AND SL2 RNA; REMARK 210 NATURAL ABUNDANCE, 15N OR 13C/ REMARK 210 15N ISOTOPIC LABELED; 0.6-1.2 MM REMARK 210 COMPLEX OF NUCLEOCAPSID PROTEIN REMARK 210 AND SL2 RNA; NATURAL 15N REMARK 210 ISOTOPIC LABELED; 0.6-1.2 MM REMARK 210 COMPLEX OF NUCLEOCAPSID PROTEIN REMARK 210 AND SL2 RNA; NATURAL A13C/15N REMARK 210 ISOTOPIC LABELED REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_ROESY; 3D_15N- REMARK 210 SEPARATED_NOESY; 4D_13C/15N- REMARK 210 SEPARATED_NOESY; HNCA-J REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 1.0, NMRVIEW 3.0, DYANA REMARK 210 1.5 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 400 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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: CLOSE CONTACTS 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 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 1 G B 202 O4' G B 202 C4' -0.211 REMARK 500 1 C B 203 O4' C B 203 C4' -0.108 REMARK 500 1 G B 204 O4' G B 204 C4' -0.130 REMARK 500 1 C B 206 O4' C B 206 C4' -0.211 REMARK 500 1 G B 208 O4' G B 208 C4' -0.357 REMARK 500 1 U B 210 O4' U B 210 C4' -0.158 REMARK 500 1 G B 211 O4' G B 211 C4' -0.378 REMARK 500 1 G B 213 O4' G B 213 C4' -0.287 REMARK 500 1 U B 214 O4' U B 214 C4' -0.322 REMARK 500 1 C B 216 O4' C B 216 C4' -0.355 REMARK 500 1 G B 217 O4' G B 217 C4' -0.306 REMARK 500 1 C B 218 O4' C B 218 C4' -0.170 REMARK 500 2 G B 202 O4' G B 202 C4' -0.086 REMARK 500 2 G B 204 O4' G B 204 C4' -0.364 REMARK 500 2 A B 205 O4' A B 205 C4' -0.093 REMARK 500 2 G B 208 O4' G B 208 C4' -0.372 REMARK 500 2 U B 210 O4' U B 210 C4' -0.163 REMARK 500 2 G B 211 O4' G B 211 C4' -0.361 REMARK 500 2 G B 213 O4' G B 213 C4' -0.206 REMARK 500 2 U B 214 O4' U B 214 C4' -0.378 REMARK 500 2 C B 216 O4' C B 216 C4' -0.297 REMARK 500 2 G B 217 O4' G B 217 C4' -0.287 REMARK 500 3 G B 202 O4' G B 202 C4' -0.098 REMARK 500 3 C B 203 O4' C B 203 C4' -0.188 REMARK 500 3 G B 204 O4' G B 204 C4' -0.370 REMARK 500 3 A B 205 O4' A B 205 C4' -0.241 REMARK 500 3 C B 206 O4' C B 206 C4' -0.245 REMARK 500 3 G B 208 O4' G B 208 C4' -0.292 REMARK 500 3 G B 211 O4' G B 211 C4' -0.340 REMARK 500 3 G B 213 O4' G B 213 C4' -0.272 REMARK 500 3 U B 214 O4' U B 214 C4' -0.347 REMARK 500 3 C B 216 O4' C B 216 C4' -0.317 REMARK 500 3 G B 217 O4' G B 217 C4' -0.286 REMARK 500 4 C B 203 O4' C B 203 C4' -0.277 REMARK 500 4 G B 204 O4' G B 204 C4' -0.282 REMARK 500 4 A B 205 O4' A B 205 C4' -0.186 REMARK 500 4 C B 206 O4' C B 206 C4' -0.234 REMARK 500 4 U B 207 O4' U B 207 C4' -0.284 REMARK 500 4 G B 208 O4' G B 208 C4' -0.372 REMARK 500 4 G B 211 O4' G B 211 C4' -0.375 REMARK 500 4 G B 213 O4' G B 213 C4' -0.346 REMARK 500 4 U B 214 O4' U B 214 C4' -0.352 REMARK 500 4 C B 216 O4' C B 216 C4' -0.368 REMARK 500 4 G B 217 O4' G B 217 C4' -0.296 REMARK 500 4 C B 218 O4' C B 218 C4' -0.223 REMARK 500 5 G B 202 O4' G B 202 C4' -0.343 REMARK 500 5 C B 203 O4' C B 203 C4' -0.121 REMARK 500 5 G B 204 O4' G B 204 C4' -0.278 REMARK 500 5 A B 205 O4' A B 205 C4' -0.228 REMARK 500 5 C B 206 O4' C B 206 C4' -0.180 REMARK 500 REMARK 500 THIS ENTRY HAS 235 BOND DEVIATIONS. 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 1 G B 202 C5' - C4' - O4' ANGL. DEV. = 8.4 DEGREES REMARK 500 1 G B 202 C1' - O4' - C4' ANGL. DEV. = 6.3 DEGREES REMARK 500 1 G B 202 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G B 202 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G B 202 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 C B 203 O4' - C4' - C3' ANGL. DEV. = -8.9 DEGREES REMARK 500 1 G B 204 C5' - C4' - O4' ANGL. DEV. = 15.5 DEGREES REMARK 500 1 G B 204 C1' - O4' - C4' ANGL. DEV. = 9.1 DEGREES REMARK 500 1 G B 204 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G B 204 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G B 204 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 A B 205 O4' - C4' - C3' ANGL. DEV. = -11.6 DEGREES REMARK 500 1 A B 205 C5' - C4' - O4' ANGL. DEV. = 24.9 DEGREES REMARK 500 1 C B 206 C5' - C4' - O4' ANGL. DEV. = 16.1 DEGREES REMARK 500 1 C B 206 C1' - O4' - C4' ANGL. DEV. = 9.8 DEGREES REMARK 500 1 U B 207 O4' - C4' - C3' ANGL. DEV. = -6.2 DEGREES REMARK 500 1 U B 207 C5' - C4' - O4' ANGL. DEV. = 18.9 DEGREES REMARK 500 1 U B 207 C1' - O4' - C4' ANGL. DEV. = 8.0 DEGREES REMARK 500 1 G B 208 C5' - C4' - O4' ANGL. DEV. = 9.9 DEGREES REMARK 500 1 G B 208 C1' - O4' - C4' ANGL. DEV. = 13.3 DEGREES REMARK 500 1 G B 208 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G B 208 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G B 208 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 G B 209 O4' - C4' - C3' ANGL. DEV. = -9.8 DEGREES REMARK 500 1 G B 209 C5' - C4' - O4' ANGL. DEV. = 39.5 DEGREES REMARK 500 1 G B 209 C1' - O4' - C4' ANGL. DEV. = 6.7 DEGREES REMARK 500 1 G B 209 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G B 209 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G B 209 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 U B 210 C5' - C4' - O4' ANGL. DEV. = 18.1 DEGREES REMARK 500 1 U B 210 C1' - O4' - C4' ANGL. DEV. = 9.6 DEGREES REMARK 500 1 G B 211 C1' - O4' - C4' ANGL. DEV. = 13.3 DEGREES REMARK 500 1 G B 211 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G B 211 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G B 211 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 A B 212 O4' - C4' - C3' ANGL. DEV. = -11.1 DEGREES REMARK 500 1 A B 212 C5' - C4' - O4' ANGL. DEV. = 29.8 DEGREES REMARK 500 1 A B 212 C1' - O4' - C4' ANGL. DEV. = 5.0 DEGREES REMARK 500 1 G B 213 C5' - C4' - O4' ANGL. DEV. = 18.6 DEGREES REMARK 500 1 G B 213 C1' - O4' - C4' ANGL. DEV. = 10.1 DEGREES REMARK 500 1 G B 213 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G B 213 N1 - C2 - N3 ANGL. DEV. = 5.1 DEGREES REMARK 500 1 G B 213 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 U B 214 C5' - C4' - O4' ANGL. DEV. = 25.3 DEGREES REMARK 500 1 U B 214 C1' - O4' - C4' ANGL. DEV. = 12.4 DEGREES REMARK 500 1 C B 216 C5' - C4' - O4' ANGL. DEV. = 26.5 DEGREES REMARK 500 1 C B 216 C1' - O4' - C4' ANGL. DEV. = 11.5 DEGREES REMARK 500 1 G B 217 C5' - C4' - O4' ANGL. DEV. = 21.2 DEGREES REMARK 500 1 G B 217 C1' - O4' - C4' ANGL. DEV. = 12.3 DEGREES REMARK 500 1 G B 217 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 1098 ANGLE DEVIATIONS. 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 1 THR A 12 123.85 82.59 REMARK 500 1 LYS A 20 171.30 -46.48 REMARK 500 1 ASN A 27 57.77 -151.41 REMARK 500 1 LYS A 34 117.77 -167.49 REMARK 500 1 GLU A 51 56.56 -109.84 REMARK 500 1 GLN A 53 49.13 38.33 REMARK 500 2 THR A 12 123.15 79.40 REMARK 500 2 LYS A 20 141.65 -38.29 REMARK 500 2 LYS A 26 -30.81 -39.45 REMARK 500 2 ASN A 27 57.41 -148.80 REMARK 500 2 ALA A 30 100.34 -39.67 REMARK 500 2 PRO A 31 49.70 -74.94 REMARK 500 2 ARG A 32 122.45 73.37 REMARK 500 2 LYS A 33 -58.63 170.60 REMARK 500 2 LYS A 34 126.92 62.36 REMARK 500 2 ARG A 52 161.02 60.18 REMARK 500 3 THR A 12 149.97 74.55 REMARK 500 3 PHE A 16 6.58 -69.61 REMARK 500 3 ASN A 17 -82.39 -116.41 REMARK 500 3 ASN A 27 56.85 -150.31 REMARK 500 3 PRO A 31 49.22 -75.02 REMARK 500 3 ARG A 32 144.17 -174.92 REMARK 500 3 THR A 50 21.62 -145.28 REMARK 500 3 ARG A 52 103.47 -42.79 REMARK 500 3 GLN A 53 59.99 -177.79 REMARK 500 3 ALA A 54 -61.05 -101.49 REMARK 500 4 THR A 12 123.18 83.82 REMARK 500 4 ASN A 27 57.58 -151.03 REMARK 500 4 LYS A 34 113.88 70.04 REMARK 500 4 GLU A 51 69.28 37.79 REMARK 500 4 GLN A 53 141.14 61.76 REMARK 500 5 THR A 12 141.15 84.59 REMARK 500 5 LYS A 20 175.93 -48.35 REMARK 500 5 ASN A 27 56.29 -148.31 REMARK 500 5 PRO A 31 49.48 -74.95 REMARK 500 5 LYS A 33 -70.46 -87.01 REMARK 500 6 GLN A 2 161.93 72.83 REMARK 500 6 THR A 12 140.75 161.60 REMARK 500 6 ASN A 17 -81.84 -118.87 REMARK 500 6 LYS A 20 177.71 -49.16 REMARK 500 6 ASN A 27 56.61 -150.52 REMARK 500 6 LYS A 33 48.93 -140.48 REMARK 500 6 LYS A 34 115.96 70.46 REMARK 500 7 THR A 12 145.26 84.81 REMARK 500 7 ASN A 17 -64.83 -107.64 REMARK 500 7 LYS A 20 173.59 -47.00 REMARK 500 7 ASN A 27 57.68 -150.38 REMARK 500 7 ALA A 30 151.91 -47.60 REMARK 500 7 PRO A 31 48.13 -74.98 REMARK 500 7 ARG A 32 -179.07 165.44 REMARK 500 REMARK 500 THIS ENTRY HAS 165 RAMACHANDRAN OUTLIERS. 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 ZN A 128 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 15 SG REMARK 620 2 CYS A 18 SG 92.1 REMARK 620 3 HIS A 23 NE2 116.0 117.7 REMARK 620 4 CYS A 28 SG 127.6 115.3 90.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 149 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 36 SG REMARK 620 2 CYS A 39 SG 85.5 REMARK 620 3 HIS A 44 NE2 99.6 108.7 REMARK 620 4 CYS A 49 SG 106.2 115.9 129.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 149 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A1T RELATED DB: PDB REMARK 900 CONTAINS THE SAME PROTEIN COMPLEXED WITH STEM-LOOP SL3 FROM HIV-1 REMARK 900 RELATED ID: 1ESY RELATED DB: PDB REMARK 900 THE UNBOUND STEM-LOOP SL2 FROM HIV-1 DBREF 1F6U A 1 55 UNP P35962 GAG_HV1Y2 378 432 DBREF 1F6U B 201 219 PDB 1F6U 1F6U 201 219 SEQADV 1F6U LYS A 3 UNP P35962 ARG 380 CONFLICT SEQRES 1 B 19 CG1 G C G A C U G G U G A G SEQRES 2 B 19 U A C G C C SEQRES 1 A 56 MET GLN LYS GLY ASN PHE ARG ASN GLN ARG LYS THR VAL SEQRES 2 A 56 LYS CYS PHE ASN CYS GLY LYS GLU GLY HIS ILE ALA LYS SEQRES 3 A 56 ASN CYS ARG ALA PRO ARG LYS LYS GLY CYS TRP LYS CYS SEQRES 4 A 56 GLY LYS GLU GLY HIS GLN MET LYS ASP CYS THR GLU ARG SEQRES 5 A 56 GLN ALA ASN NH2 MODRES 1F6U CG1 B 201 G HET CG1 B 201 36 HET NH2 A 56 1 HET ZN A 128 1 HET ZN A 149 1 HETNAM CG1 5'-O-[(R)-HYDROXY(METHOXY)PHOSPHORYL]GUANOSINE HETNAM NH2 AMINO GROUP HETNAM ZN ZINC ION FORMUL 1 CG1 C11 H16 N5 O8 P FORMUL 2 NH2 H2 N FORMUL 3 ZN 2(ZN 2+) HELIX 1 1 GLN A 2 THR A 12 5 11 HELIX 2 2 ILE A 24 CYS A 28 5 5 HELIX 3 3 GLN A 45 CYS A 49 5 5 SHEET 1 A 2 GLY A 35 CYS A 36 0 SHEET 2 A 2 LYS A 41 GLU A 42 -1 O LYS A 41 N CYS A 36 LINK O3' CG1 B 201 P G B 202 1555 1555 1.60 LINK C ASN A 55 N NH2 A 56 1555 1555 1.33 LINK SG CYS A 15 ZN ZN A 128 1555 1555 2.40 LINK SG CYS A 18 ZN ZN A 128 1555 1555 2.37 LINK NE2 HIS A 23 ZN ZN A 128 1555 1555 2.12 LINK SG CYS A 28 ZN ZN A 128 1555 1555 2.30 LINK SG CYS A 36 ZN ZN A 149 1555 1555 2.35 LINK SG CYS A 39 ZN ZN A 149 1555 1555 2.36 LINK NE2 HIS A 44 ZN ZN A 149 1555 1555 2.05 LINK SG CYS A 49 ZN ZN A 149 1555 1555 2.31 SITE 1 AC1 4 CYS A 15 CYS A 18 HIS A 23 CYS A 28 SITE 1 AC2 4 CYS A 36 CYS A 39 HIS A 44 CYS A 49 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 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 HETATM 1 OP3 CG1 B 201 -42.627 -6.410 3.043 1.00 0.00 O HETATM 2 P CG1 B 201 -41.555 -6.296 1.861 1.00 0.00 P HETATM 3 OP1 CG1 B 201 -40.306 -6.988 2.251 1.00 0.00 O HETATM 4 OP2 CG1 B 201 -41.446 -4.886 1.422 1.00 0.00 O HETATM 5 O5' CG1 B 201 -42.234 -7.131 0.677 1.00 0.00 O HETATM 6 C5' CG1 B 201 -41.913 -8.509 0.502 1.00 0.00 C HETATM 7 C4' CG1 B 201 -43.001 -9.199 -0.291 1.00 0.00 C HETATM 8 O4' CG1 B 201 -43.986 -9.352 0.287 1.00 0.00 O HETATM 9 C3' CG1 B 201 -43.439 -8.448 -1.545 1.00 0.00 C HETATM 10 O3' CG1 B 201 -42.616 -8.836 -2.642 1.00 0.00 O HETATM 11 C2' CG1 B 201 -44.873 -8.845 -1.764 1.00 0.00 C HETATM 12 O2' CG1 B 201 -44.783 -9.760 -2.833 1.00 0.00 O HETATM 13 C1' CG1 B 201 -45.209 -9.456 -0.407 1.00 0.00 C HETATM 14 N9 CG1 B 201 -46.291 -8.746 0.309 1.00 0.00 N HETATM 15 C8 CG1 B 201 -46.173 -7.657 1.098 1.00 0.00 C HETATM 16 N7 CG1 B 201 -47.339 -7.258 1.596 1.00 0.00 N HETATM 17 C5 CG1 B 201 -48.240 -8.153 1.084 1.00 0.00 C HETATM 18 C6 CG1 B 201 -49.638 -8.266 1.240 1.00 0.00 C HETATM 19 O6 CG1 B 201 -50.343 -7.519 1.917 1.00 0.00 O HETATM 20 N1 CG1 B 201 -50.261 -9.286 0.588 1.00 0.00 N HETATM 21 C2 CG1 B 201 -49.511 -10.123 -0.165 1.00 0.00 C HETATM 22 N2 CG1 B 201 -50.262 -11.062 -0.735 1.00 0.00 N HETATM 23 N3 CG1 B 201 -48.183 -10.110 -0.383 1.00 0.00 N HETATM 24 C4 CG1 B 201 -47.621 -9.071 0.295 1.00 0.00 C HETATM 25 H5' CG1 B 201 -40.970 -8.626 -0.034 1.00 0.00 H HETATM 26 H5'A CG1 B 201 -41.816 -9.013 1.465 1.00 0.00 H HETATM 27 H4' CG1 B 201 -42.641 -10.179 -0.610 1.00 0.00 H HETATM 28 C CG1 B 201 -42.246 -6.103 4.383 1.00 0.00 C HETATM 29 H3' CG1 B 201 -43.318 -7.371 -1.419 1.00 0.00 H HETATM 30 H2' CG1 B 201 -45.455 -7.952 -1.980 1.00 0.00 H HETATM 31 HO2' CG1 B 201 -44.332 -9.329 -3.563 1.00 0.00 H HETATM 32 H1' CG1 B 201 -45.486 -10.502 -0.538 1.00 0.00 H HETATM 33 H8 CG1 B 201 -45.215 -7.195 1.279 1.00 0.00 H HETATM 34 HN1 CG1 B 201 -51.259 -9.424 0.656 1.00 0.00 H HETATM 35 HN2 CG1 B 201 -51.259 -11.078 -0.576 1.00 0.00 H HETATM 36 HN2A CG1 B 201 -49.834 -11.760 -1.328 1.00 0.00 H