1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Clore, G.M. Lodi, P.J. Ernst, J.A. Gronenborn, A.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE 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 C3 H7 N O3 105.093 y SERINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N N N 75 S C N 76 N C N 77 N O N 78 N C N 79 N C N 80 N C N 81 N O N 82 N N N 83 N O N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N N N 95 S C N 96 N C N 97 N O N 98 N C N 99 N C N 100 N C N 101 N O N 102 N O N 103 N O N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N H N 113 N N N 114 N C N 115 N C N 116 N O N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N N N 124 S C N 125 N C N 126 N O N 127 S C N 128 N C N 129 N C N 130 N C N 131 N O N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N N N 146 S C N 147 N C N 148 N O N 149 N C N 150 N C N 151 N C N 152 N C N 153 N O N 154 N H N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N N N 168 S C N 169 N C N 170 N O N 171 N C N 172 N C N 173 N C N 174 N C N 175 N N N 176 N O N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N N N 193 S C N 194 N C N 195 N O N 196 N C N 197 N C N 198 N S N 199 N C N 200 N O N 201 N H N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N N N 213 S C N 214 N C N 215 N O N 216 N C Y 217 N C Y 218 N C Y 219 N C Y 220 N C Y 221 N C Y 222 N C N 223 N O N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N N N 236 S C N 237 N C N 238 N O N 239 N C N 240 N C N 241 N C N 242 N O N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N N N 253 S C N 254 N C N 255 N O N 256 N C N 257 N O N 258 N O N 259 N H N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N N N 267 S C N 268 N C N 269 N O N 270 N C Y 271 N C Y 272 N C Y 273 N C Y 274 N N Y 275 N C Y 276 N C Y 277 N C Y 278 N C Y 279 N C N 280 N O N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N N N 294 S C N 295 N C N 296 N O N 297 N C Y 298 N C Y 299 N C Y 300 N C Y 301 N C Y 302 N C Y 303 N C N 304 N O N 305 N O N 306 N H N 307 N H N 308 N H N 309 N H N 310 N H N 311 N H N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N N N 318 S C N 319 N C N 320 N O N 321 N C N 322 N C N 323 N C N 324 N O N 325 N H N 326 N H N 327 N H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H N 334 N H N 335 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N doub N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N doub N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N doub N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N doub N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N doub N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N doub N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N doub N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N doub N 208 N sing N 209 N sing N 210 N sing N 211 N sing Y 212 N doub Y 213 N sing Y 214 N sing N 215 N sing Y 216 N doub N 217 N sing Y 218 N doub N 219 N sing Y 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N doub N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N doub N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N doub N 261 N sing N 262 N sing N 263 N sing N 264 N sing Y 265 N doub Y 266 N sing Y 267 N sing N 268 N sing Y 269 N doub Y 270 N sing Y 271 N sing N 272 N sing Y 273 N sing Y 274 N doub N 275 N sing Y 276 N doub N 277 N sing Y 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N doub N 289 N sing N 290 N sing N 291 N sing N 292 N sing Y 293 N doub Y 294 N sing Y 295 N sing N 296 N sing Y 297 N doub N 298 N sing Y 299 N doub N 300 N sing Y 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N doub N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N sing N 322 N sing N 323 N sing US Biochemistry BICHAW 0033 0006-2960 34 9826 9833 10.1021/bi00031a002 7632683 Solution structure of the DNA binding domain of HIV-1 integrase. 1995 10.2210/pdb1ihv/pdb pdb_00001ihv 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 6139.186 HIV-1 INTEGRASE 2 man polymer no no MIQNFRVYYRDSRDPVWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKAKIIRD MIQNFRVYYRDSRDPVWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKAKIIRD A,B polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Lentivirus Escherichia sample 11676 Human immunodeficiency virus 1 562 Escherichia coli database_2 pdbx_database_status pdbx_struct_assembly pdbx_struct_oper_list struct_keywords struct_ref_seq_dif chem_comp_atom chem_comp_bond repository Initial release Version format compliance Version format compliance Database references Derived calculations Other Structure summary Data collection 1 0 1996-10-14 1 1 2008-03-24 1 2 2011-07-13 1 3 2022-02-23 1 4 2024-05-22 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _struct_keywords.text _struct_ref_seq_dif.details Y BNL 1995-05-12 REL REL REGULARIZED MEAN STRUCTURE 1 THE STRUCTURES WERE CALCULATED USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. (1988) FEBS LETT. 229, 129 - 136 USING THE PROGRAM XPLOR 3.1 (BRUNGER) MODIFIED TO INCORPORATE COUPLING CONSTANT (GARRETT ET AL. (1984) J. MAGN RESON. SERIES B 104, 99 - 103), CARBON CHEMICAL SHIFT (KUSZEWSKI ET AL. (1995) J. MAGN. RESON. SERIES B 106, 92 - 96) AND 1H CHEMICAL SHIFT (KUSZEWSKI ET AL., 1995 J. MAGN RESON. SERIES B IN PRESS) RESTRAINTS. THE 3D STRUCTURE OF HIV-1 INTEGRASE SOLVED BY MULTI-DIMENSIONAL HETERONUCLEAR-EDITED AND -FILTERED NMR IS BASED ON 2386 EXPERIMENTAL RESTRAINTS (FOR THE DIMER): (A) INTRASUBUNIT: 332 SEQUENTIAL (|I-J|=1), 202 MEDIUM RANGE (1 < |I-J| >=5) AND 530 LONG RANGE (|I-J| >5) INTERRESIDUES 318 INTRARESIDUE APPROXIMATE INTERPROTON DISTANCE RESTRAINTS; 74 DISTANCE RESTRAINTS FOR 37 HYDROGEN BONDS; 192 TORSION ANGLE (98 PHI, 20 PSI, 50 CHI1 AND 24 CHI2) RESTRAINTS; 78 THREE-BOND HN-HA COUPLING CONSTANT RESTRAINTS; 194 (100 CALPHA AND 94 CBETA) 13C SHIFT RESTRAINTS; AND 392 1H CHEMICAL SHIFT RESTRAINTS (102 CAH, 52 METHYL AND 238 OTHERS). (B) 44 INTERSUBUNIT INTERPROTON DISTANCE RESTRAINTS (C) 30 AMBIGUOUS INTERPROTON DISTANCE RESTRAINTS THAT CAN ARISE FROM INTRA AND/OR INTERSUBUNIT INTERACTIONS. THE STRUCTURE IN THIS ENTRY IS THE RESTRAINED REGULARIZED MEAN STRUCTURE AND THE LAST COLUMN REPRESENTS THE RMS OF THE 40 INDIVIDUAL SIMULATED ANNEALING STRUCTURES FOUND IN PDB ENTRY 1IHW ABOUT THE MEAN COORDINATE POSITIONS. THE LAST COLUMN IN THE INDIVIDUAL SA STRUCTURES HAS NO MEANING. BRUNGER refinement X-PLOR 3.1 MET 219 n 1 MET 219 A ILE 220 n 2 ILE 220 A GLN 221 n 3 GLN 221 A ASN 222 n 4 ASN 222 A PHE 223 n 5 PHE 223 A ARG 224 n 6 ARG 224 A VAL 225 n 7 VAL 225 A TYR 226 n 8 TYR 226 A TYR 227 n 9 TYR 227 A ARG 228 n 10 ARG 228 A ASP 229 n 11 ASP 229 A SER 230 n 12 SER 230 A ARG 231 n 13 ARG 231 A ASP 232 n 14 ASP 232 A PRO 233 n 15 PRO 233 A VAL 234 n 16 VAL 234 A TRP 235 n 17 TRP 235 A LYS 236 n 18 LYS 236 A GLY 237 n 19 GLY 237 A PRO 238 n 20 PRO 238 A ALA 239 n 21 ALA 239 A LYS 240 n 22 LYS 240 A LEU 241 n 23 LEU 241 A LEU 242 n 24 LEU 242 A TRP 243 n 25 TRP 243 A LYS 244 n 26 LYS 244 A GLY 245 n 27 GLY 245 A GLU 246 n 28 GLU 246 A GLY 247 n 29 GLY 247 A ALA 248 n 30 ALA 248 A VAL 249 n 31 VAL 249 A VAL 250 n 32 VAL 250 A ILE 251 n 33 ILE 251 A GLN 252 n 34 GLN 252 A ASP 253 n 35 ASP 253 A ASN 254 n 36 ASN 254 A SER 255 n 37 SER 255 A ASP 256 n 38 ASP 256 A ILE 257 n 39 ILE 257 A LYS 258 n 40 LYS 258 A VAL 259 n 41 VAL 259 A VAL 260 n 42 VAL 260 A PRO 261 n 43 PRO 261 A ARG 262 n 44 ARG 262 A ARG 263 n 45 ARG 263 A LYS 264 n 46 LYS 264 A ALA 265 n 47 ALA 265 A LYS 266 n 48 LYS 266 A ILE 267 n 49 ILE 267 A ILE 268 n 50 ILE 268 A ARG 269 n 51 ARG 269 A ASP 270 n 52 ASP 270 A MET 219 n 1 MET 219 B ILE 220 n 2 ILE 220 B GLN 221 n 3 GLN 221 B ASN 222 n 4 ASN 222 B PHE 223 n 5 PHE 223 B ARG 224 n 6 ARG 224 B VAL 225 n 7 VAL 225 B TYR 226 n 8 TYR 226 B TYR 227 n 9 TYR 227 B ARG 228 n 10 ARG 228 B ASP 229 n 11 ASP 229 B SER 230 n 12 SER 230 B ARG 231 n 13 ARG 231 B ASP 232 n 14 ASP 232 B PRO 233 n 15 PRO 233 B VAL 234 n 16 VAL 234 B TRP 235 n 17 TRP 235 B LYS 236 n 18 LYS 236 B GLY 237 n 19 GLY 237 B PRO 238 n 20 PRO 238 B ALA 239 n 21 ALA 239 B LYS 240 n 22 LYS 240 B LEU 241 n 23 LEU 241 B LEU 242 n 24 LEU 242 B TRP 243 n 25 TRP 243 B LYS 244 n 26 LYS 244 B GLY 245 n 27 GLY 245 B GLU 246 n 28 GLU 246 B GLY 247 n 29 GLY 247 B ALA 248 n 30 ALA 248 B VAL 249 n 31 VAL 249 B VAL 250 n 32 VAL 250 B ILE 251 n 33 ILE 251 B GLN 252 n 34 GLN 252 B ASP 253 n 35 ASP 253 B ASN 254 n 36 ASN 254 B SER 255 n 37 SER 255 B ASP 256 n 38 ASP 256 B ILE 257 n 39 ILE 257 B LYS 258 n 40 LYS 258 B VAL 259 n 41 VAL 259 B VAL 260 n 42 VAL 260 B PRO 261 n 43 PRO 261 B ARG 262 n 44 ARG 262 B ARG 263 n 45 ARG 263 B LYS 264 n 46 LYS 264 B ALA 265 n 47 ALA 265 B LYS 266 n 48 LYS 266 B ILE 267 n 49 ILE 267 B ILE 268 n 50 ILE 268 B ARG 269 n 51 ARG 269 B ASP 270 n 52 ASP 270 B author_defined_assembly 2 dimeric 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 A O ARG 224 A O ARG 6 A N ILE 268 A N ILE 50 A O LYS 258 A O LYS 40 A N ILE 251 A N ILE 33 A O VAL 250 A O VAL 32 A N TRP 243 A N TRP 25 B O ARG 224 B O ARG 6 B N ILE 268 B N ILE 50 B O LYS 258 B O LYS 40 B N ILE 251 B N ILE 33 B O VAL 250 B O VAL 32 B N TRP 243 B N TRP 25 1 A GLN 221 -79.70 -121.44 1 A PRO 233 -67.72 4.25 1 A LEU 242 -114.61 -72.91 1 A GLU 246 -70.23 -153.32 1 A ASP 253 -92.95 -77.80 1 A ASN 254 -81.65 -133.29 1 A SER 255 -104.03 55.27 1 B GLN 221 -79.52 -121.49 1 B PRO 233 -67.68 4.25 1 B LEU 242 -114.55 -72.92 1 B GLU 246 -70.25 -153.35 1 B ASP 253 -92.92 -77.78 1 B ASN 254 -81.63 -133.24 1 B SER 255 -104.08 55.23 model building X-PLOR 3.1 refinement X-PLOR 3.1 phasing X-PLOR 3.1 SOLUTION STRUCTURE OF THE DNA BINDING DOMAIN OF HIV-1 INTEGRASE, NMR, MINIMIZED AVERAGE STRUCTURE 1 N N 1 N N A ARG 262 A ARG 44 HELX_P A LYS 264 A LYS 46 5 1 3 B ARG 262 B ARG 44 HELX_P B LYS 264 B LYS 46 5 2 3 DNA BINDING PROTEIN DNA-BINDING PROTEIN, AIDS, POLYPROTEIN, DNA BINDING PROTEIN POL_HV1Z6 UNP 1 1 P04586 IPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIIDIIATDIQTKELQKQITKI QNFRVYYRDSRDPIWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKVKIIRDYGKQMAGDDCVASRQDED 80 130 1IHV 220 270 P04586 A 1 2 52 80 130 1IHV 220 270 P04586 B 1 2 52 1 ILE conflict VAL 234 1IHV A P04586 UNP 94 16 1 VAL conflict ALA 265 1IHV A P04586 UNP 125 47 2 ILE conflict VAL 234 1IHV B P04586 UNP 94 16 2 VAL conflict ALA 265 1IHV B P04586 UNP 125 47 2 3 2 3 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A PHE 223 A PHE 5 A TYR 227 A TYR 9 A ALA 265 A ALA 47 A ARG 269 A ARG 51 A ILE 257 A ILE 39 A PRO 261 A PRO 43 A ALA 248 A ALA 30 A GLN 252 A GLN 34 A LYS 240 A LYS 22 A LYS 244 A LYS 26 B PHE 223 B PHE 5 B TYR 227 B TYR 9 B ALA 265 B ALA 47 B ARG 269 B ARG 51 B ILE 257 B ILE 39 B PRO 261 B PRO 43 B ALA 248 B ALA 30 B GLN 252 B GLN 34 B LYS 240 B LYS 22 B LYS 244 B LYS 26 1 P 1