1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Sharon, M. Kessler, N. Levy, R. Zolla-Pazner, S. Gorlach, M. Anglister, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking UK Structure STRUE6 2005 0969-2126 11 225 236 10.1016/S0969-2126(03)00011-X 12575942 Alternative Conformations of HIV-1 V3 Loops Mimic beta Hairpins in Chemokines, Suggesting a Mechanism for Coreceptor Selectivity. 2003 10.2210/pdb1nj0/pdb pdb_00001nj0 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 1907.270 Exterior membrane glycoprotein(GP120) V3 loop (residues 309-324) 1 man polymer no no RKRIHIGPGRAFYTTK RKRIHIGPGRAFYTTK A polypeptide(L) n n n n n n n n n n n n n n n n Lentivirus Escherichia sample ENV 11676 Human immunodeficiency virus 1 562 Escherichia coli BL21(DE3)pLysS PLASMID pet11d database_2 pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Database references Derived calculations 1 0 2003-02-25 1 1 2008-04-29 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession Minimized average structure RCSB Y RCSB 2002-12-30 REL REL The structure was determined using triple-resonance NMR spectroscopy, in which the peptide was labeled while the antibody remained unlabeled. structures with the lowest energy 200 29 3D_15N-separated_NOESY HNHA 3D_13C-separated_NOESY TROSY-HNCACB & HBHA(CO)NH CT-CBCA(CO)NH HCCH-TOCSY & HCCH-COSY 10mM 5 ambient 308 K 10mM 5 ambient 308 K 10mM 5 ambient 308 K U-15N; 10mM sodium acetate buffer pH=5 95% H2O/5% D2O U-15N,13C; 10mM sodium acetate buffer pH=5 95% H2O/5% D2O U-15N,13C; 10mM sodium acetate buffer pH=5 99% D2O Brunger refinement CNS 1.1 800 Bruker DRX 500 Bruker DMX ARG 4 n 1 ARG 4 A LYS 5 n 2 LYS 5 A ARG 6 n 3 ARG 6 A ILE 7 n 4 ILE 7 A HIS 8 n 5 HIS 8 A ILE 9 n 6 ILE 9 A GLY 10 n 7 GLY 10 A PRO 11 n 8 PRO 11 A GLY 12 n 9 GLY 12 A ARG 13 n 10 ARG 13 A ALA 14 n 11 ALA 14 A PHE 15 n 12 PHE 15 A TYR 16 n 13 TYR 16 A THR 17 n 14 THR 17 A THR 18 n 15 THR 18 A LYS 19 n 16 LYS 19 A author_defined_assembly 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 1 A PHE 15 -142.45 36.76 1 A THR 18 -107.67 -68.22 2 A PRO 11 -64.06 69.64 2 A ARG 13 -103.46 73.80 2 A ALA 14 -56.69 96.24 2 A THR 18 -110.65 -74.51 3 A THR 18 -103.49 -60.33 4 A PRO 11 -66.29 69.82 4 A ARG 13 -114.43 75.23 4 A ALA 14 -58.95 97.26 4 A PHE 15 -106.11 66.22 4 A THR 18 -107.67 -63.89 5 A PRO 11 -50.26 86.04 5 A ARG 13 -103.23 64.72 5 A ALA 14 -68.55 92.64 5 A THR 18 -106.39 -64.25 6 A LYS 5 -174.71 -165.26 6 A PRO 11 -65.58 73.64 6 A ARG 13 -113.99 74.53 6 A ALA 14 -64.89 99.72 6 A PHE 15 -108.01 52.96 7 A PRO 11 -50.64 86.35 7 A ALA 14 -59.75 87.35 8 A ARG 6 -168.07 114.87 9 A LYS 5 -172.79 -178.57 9 A ARG 13 -109.28 79.07 9 A PHE 15 -146.09 37.74 10 A ARG 6 -160.32 118.13 10 A PHE 15 -111.29 55.38 11 A PHE 15 -162.54 50.32 12 A ALA 14 -59.01 87.04 12 A PHE 15 -113.37 62.32 13 A PRO 11 -66.82 63.82 13 A ARG 13 -118.46 72.06 15 A PRO 11 -65.16 69.52 15 A ARG 13 -105.60 76.33 15 A ALA 14 -68.63 68.01 15 A PHE 15 -93.89 52.18 16 A ARG 6 -162.63 119.53 16 A THR 17 -116.48 68.27 17 A ARG 13 -109.49 79.48 17 A ALA 14 -61.96 83.94 17 A PHE 15 -106.87 43.11 18 A ARG 13 -162.16 51.36 18 A THR 18 -117.99 -165.18 20 A PRO 11 -66.90 66.79 20 A ARG 13 -111.88 74.79 20 A PHE 15 -145.04 47.94 21 A ARG 13 -101.38 79.11 21 A ALA 14 -65.67 80.15 21 A PHE 15 -106.36 50.20 21 A THR 17 -150.03 60.95 21 A THR 18 -101.50 48.99 22 A LYS 5 -53.40 -171.93 22 A PRO 11 -65.92 65.87 22 A ARG 13 -111.12 77.83 22 A THR 18 -96.66 44.66 23 A PRO 11 -66.66 64.59 23 A ARG 13 -107.76 58.07 23 A PHE 15 -106.01 60.81 23 A THR 18 -96.21 -91.18 24 A LYS 5 -61.98 -155.98 24 A ARG 6 -93.15 50.54 25 A LYS 5 -53.13 -175.03 25 A ARG 6 -107.27 60.58 26 A ARG 13 -163.13 54.05 26 A PHE 15 -142.05 48.21 26 A THR 18 -95.32 37.59 27 A PHE 15 -140.67 34.87 28 A ARG 13 -116.02 76.76 28 A PHE 15 -106.88 66.23 29 A LYS 5 -49.92 172.69 29 A PRO 11 -67.45 62.79 29 A PHE 15 -106.32 62.76 29 A THR 18 -133.25 -74.88 NMR structure of a V3 (MN isolate) peptide bound to 447-52D, a human HIV-1 neutralizing antibody 1 N N VIRAL PROTEIN Peptide-Antibody complex, b-hairpin, Viral protein ENV_HV1MN UNP 1 309 P05877 RKRIHIGPGRAFYTTK 309 324 1NJ0 4 19 P05877 A 1 1 16