0.019152 0.011057 0.000000 0.000000 0.022115 0.000000 0.000000 0.000000 0.016419 0.00000 0.00000 0.00000 Shu, W. Lu, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 9 90.00 90.00 120.00 52.214 52.214 60.904 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 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer 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 C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE 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 N C Y 128 N C Y 129 N N Y 130 N C Y 131 N C Y 132 N N N 133 N O 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 O N 145 N H N 146 N H N 147 N N N 148 S C N 149 N C N 150 N O N 151 S C N 152 N C N 153 N C N 154 N C N 155 N O 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 H N 168 N H N 169 N N N 170 S C N 171 N C N 172 N O N 173 N C N 174 N C N 175 N C N 176 N C N 177 N O 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 N N 192 S C N 193 N C N 194 N O N 195 N C N 196 N C N 197 N C N 198 N C N 199 N N 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 H N 213 N H N 214 N H N 215 N H N 216 N N N 217 S C N 218 N C N 219 N O N 220 N C N 221 N C N 222 N S N 223 N C N 224 N O 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 H N 236 N N N 237 S C N 238 N C N 239 N O N 240 N C N 241 N O 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 N N 251 S C N 252 N C N 253 N O N 254 R C N 255 N O N 256 N C N 257 N O N 258 N H 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 H N 267 N N N 268 S C N 269 N C N 270 N O N 271 N C Y 272 N C Y 273 N C Y 274 N C Y 275 N N Y 276 N C Y 277 N C Y 278 N C Y 279 N C Y 280 N C N 281 N O 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 H N 294 N N N 295 S C N 296 N C N 297 N O N 298 N C Y 299 N C Y 300 N C Y 301 N C Y 302 N C Y 303 N C Y 304 N C N 305 N O N 306 N O 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 H N 318 N N N 319 S C N 320 N C N 321 N O N 322 N C N 323 N C N 324 N C N 325 N O 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 336 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 Y 127 N sing Y 128 N doub Y 129 N doub N 130 N sing Y 131 N sing N 132 N sing Y 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 sing N 144 N sing N 145 N doub 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 sing N 165 N sing N 166 N doub 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 doub N 188 N sing 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 sing N 208 N sing N 209 N sing N 210 N sing N 211 N doub N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 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 doub N 244 N sing N 245 N sing N 246 N sing N 247 N sing 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 doub N 260 N sing N 261 N sing N 262 N sing N 263 N sing Y 264 N doub Y 265 N sing Y 266 N sing N 267 N sing Y 268 N doub Y 269 N sing Y 270 N sing N 271 N sing Y 272 N sing Y 273 N doub N 274 N sing Y 275 N doub N 276 N sing Y 277 N sing N 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 doub N 288 N sing N 289 N sing N 290 N sing N 291 N sing Y 292 N doub Y 293 N sing Y 294 N sing N 295 N sing Y 296 N doub N 297 N sing Y 298 N doub N 299 N sing Y 300 N sing N 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 doub N 312 N sing 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 US Biochemistry BICHAW 0033 0006-2960 41 7283 7292 10.1021/bi025648y 12044159 Interhelical interactions in the gp41 core: implications for activation of HIV-1 membrane fusion. 2002 10.2210/pdb1k34/pdb pdb_00001k34 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 95 1 IMAGE PLATE 2001-05-27 RIGAKU RAXIS IV Ni MIRROR + Ni FILTER SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RU200 RESIDUES 1 - 34 AND 41 - 68 CONNECTED BY A SIX-RESIDUE LINKER (SER-GLY-GLY-ARG-GLY-GLY) 7837.673 Transmembrane glycoprotein GP41 gp41 ectodomain core I55A 1 man polymer 18.015 water 74 nat water no no SGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARSGGRGGWMEWDREINNYTSLAHSLIEESQNQQEK SGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARSGGRGGWMEWDREINNYTSLAHSLIEESQNQQEK A 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 n n n n n n n n n n n n n n n n Lentivirus Escherichia sample 1 34 11676 Human immunodeficiency virus 1 562 Escherichia coli Lentivirus Escherichia sample 41 68 11676 Human immunodeficiency virus 1 562 Escherichia coli 1 2.04 39.66 VAPOR DIFFUSION, HANGING DROP VAPOR DIFFUSION, HANGING DROP entity_src_gen software database_2 software struct_ref_seq_dif chem_comp_atom chem_comp_bond repository Initial release Version format compliance Derived calculations Version format compliance Refinement description Source and taxonomy Database references Refinement description Data collection 1 0 2001-10-10 1 1 2008-04-27 1 2 2011-07-13 1 3 2017-08-09 1 4 2021-10-27 1 5 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_ref_seq_dif.details TRANSMEMBRANE GLYCOPROTEIN GP41 I642A mutation RCSB Y RCSB 2001-10-01 REL REL HOH water HOH 100 2 HOH HOH 100 A HOH 101 2 HOH HOH 101 A HOH 102 2 HOH HOH 102 A HOH 103 2 HOH HOH 103 A HOH 104 2 HOH HOH 104 A HOH 105 2 HOH HOH 105 A HOH 106 2 HOH HOH 106 A HOH 107 2 HOH HOH 107 A HOH 108 2 HOH HOH 108 A HOH 109 2 HOH HOH 109 A HOH 110 2 HOH HOH 110 A HOH 111 2 HOH HOH 111 A HOH 112 2 HOH HOH 112 A HOH 113 2 HOH HOH 113 A HOH 114 2 HOH HOH 114 A HOH 115 2 HOH HOH 115 A HOH 116 2 HOH HOH 116 A HOH 117 2 HOH HOH 117 A HOH 118 2 HOH HOH 118 A HOH 119 2 HOH HOH 119 A HOH 120 2 HOH HOH 120 A HOH 121 2 HOH HOH 121 A HOH 122 2 HOH HOH 122 A HOH 123 2 HOH HOH 123 A HOH 124 2 HOH HOH 124 A HOH 125 2 HOH HOH 125 A HOH 126 2 HOH HOH 126 A HOH 127 2 HOH HOH 127 A HOH 128 2 HOH HOH 128 A HOH 129 2 HOH HOH 129 A HOH 130 2 HOH HOH 130 A HOH 131 2 HOH HOH 131 A HOH 132 2 HOH HOH 132 A HOH 133 2 HOH HOH 133 A HOH 134 2 HOH HOH 134 A HOH 135 2 HOH HOH 135 A HOH 136 2 HOH HOH 136 A HOH 137 2 HOH HOH 137 A HOH 138 2 HOH HOH 138 A HOH 139 2 HOH HOH 139 A HOH 140 2 HOH HOH 140 A HOH 141 2 HOH HOH 141 A HOH 142 2 HOH HOH 142 A HOH 143 2 HOH HOH 143 A HOH 144 2 HOH HOH 144 A HOH 145 2 HOH HOH 145 A HOH 146 2 HOH HOH 146 A HOH 147 2 HOH HOH 147 A HOH 148 2 HOH HOH 148 A HOH 149 2 HOH HOH 149 A HOH 150 2 HOH HOH 150 A HOH 151 2 HOH HOH 151 A HOH 152 2 HOH HOH 152 A HOH 153 2 HOH HOH 153 A HOH 154 2 HOH HOH 154 A HOH 155 2 HOH HOH 155 A HOH 156 2 HOH HOH 156 A HOH 157 2 HOH HOH 157 A HOH 158 2 HOH HOH 158 A HOH 159 2 HOH HOH 159 A HOH 160 2 HOH HOH 160 A HOH 161 2 HOH HOH 161 A HOH 162 2 HOH HOH 162 A HOH 163 2 HOH HOH 163 A HOH 164 2 HOH HOH 164 A HOH 165 2 HOH HOH 165 A HOH 166 2 HOH HOH 166 A HOH 167 2 HOH HOH 167 A HOH 168 2 HOH HOH 168 A HOH 169 2 HOH HOH 169 A HOH 170 2 HOH HOH 170 A HOH 171 2 HOH HOH 171 A HOH 172 2 HOH HOH 172 A HOH 173 2 HOH HOH 173 A n 1 1 A GLY 2 n 2 GLY 2 A ILE 3 n 3 ILE 3 A VAL 4 n 4 VAL 4 A SER 5 n 5 GLN 5 A GLN 6 n 6 GLN 6 A GLN 7 n 7 GLN 7 A ASN 8 n 8 ASN 8 A ASN 9 n 9 ASN 9 A LEU 10 n 10 LEU 10 A LEU 11 n 11 LEU 11 A ARG 12 n 12 ARG 12 A ALA 13 n 13 ALA 13 A ILE 14 n 14 ILE 14 A GLU 15 n 15 GLU 15 A ALA 16 n 16 ALA 16 A GLN 17 n 17 GLN 17 A GLN 18 n 18 GLN 18 A HIS 19 n 19 HIS 19 A LEU 20 n 20 LEU 20 A LEU 21 n 21 LEU 21 A ALA 22 n 22 GLN 22 A LEU 23 n 23 LEU 23 A THR 24 n 24 THR 24 A VAL 25 n 25 VAL 25 A TRP 26 n 26 TRP 26 A GLY 27 n 27 GLY 27 A ILE 28 n 28 ILE 28 A LYS 29 n 29 LYS 29 A GLN 30 n 30 GLN 30 A LEU 31 n 31 LEU 31 A GLN 32 n 32 GLN 32 A ALA 33 n 33 ALA 33 A n 34 34 A n 35 35 A n 36 36 A n 37 37 A n 38 38 A GLY 39 n 39 GLY 39 A GLY 40 n 40 GLY 40 A TRP 41 n 41 TRP 41 A MET 42 n 42 MET 42 A GLU 43 n 43 GLU 43 A TRP 44 n 44 TRP 44 A ASP 45 n 45 ASP 45 A ARG 46 n 46 ARG 46 A GLU 47 n 47 GLU 47 A ILE 48 n 48 ILE 48 A ASN 49 n 49 ASN 49 A ASN 50 n 50 ASN 50 A TYR 51 n 51 TYR 51 A THR 52 n 52 THR 52 A SER 53 n 53 SER 53 A LEU 54 n 54 LEU 54 A ALA 55 n 55 ALA 55 A HIS 56 n 56 HIS 56 A SER 57 n 57 SER 57 A LEU 58 n 58 LEU 58 A ILE 59 n 59 ILE 59 A GLU 60 n 60 GLU 60 A GLU 61 n 61 GLU 61 A SER 62 n 62 SER 62 A GLN 63 n 63 GLN 63 A ASN 64 n 64 ASN 64 A SER 65 n 65 GLN 65 A GLN 66 n 66 GLN 66 A n 67 67 A n 68 68 A author_and_software_defined_assembly PISA,PQS 3 trimeric 6110 -63 9200 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 -0.5000000000 -0.8660254038 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 2_555 -y,x-y,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 -0.5000000000 0.8660254038 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 3_555 -x+y,-x,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 1 A HOH 123 B HOH 1 A HOH 124 B HOH 1 A CD GLN 5 A CD GLN 5 1 Y 1 A OE1 GLN 5 A OE1 GLN 5 1 Y 1 A NE2 GLN 5 A NE2 GLN 5 1 Y 1 A CG GLN 22 A CG GLN 22 1 Y 1 A CD GLN 22 A CD GLN 22 1 Y 1 A OE1 GLN 22 A OE1 GLN 22 1 Y 1 A NE2 GLN 22 A NE2 GLN 22 1 Y 1 A CD GLN 65 A CD GLN 65 1 Y 1 A OE1 GLN 65 A OE1 GLN 65 1 Y 1 A NE2 GLN 65 A NE2 GLN 65 1 Y 1 A SER 1 A SER 1 1 Y 1 A ARG 34 A ARG 34 1 Y 1 A SER 35 A SER 35 1 Y 1 A GLY 36 A GLY 36 1 Y 1 A GLY 37 A GLY 37 1 Y 1 A ARG 38 A ARG 38 1 Y 1 A GLU 67 A GLU 67 1 Y 1 A LYS 68 A LYS 68 1 Y 1 A GLN 32 -68.62 21.60 PROTEIN_REP.PARAM PROTEIN.TOP WATER_REP.PARAM WATER.TOP 31.1 -0.98 0.69 0.00 -0.98 0.00 1.95 0.216 0.010 0.197 1.88 26.11 516 4977 4977 10.4 98.7 RANDOM 513688.56 0.000000 1 RESTRAINED THROUGHOUT 0.0 0.0 MOLECULAR REPLACEMENT FLAT MODEL 102.662 0.452328 0.24 0.20 5.00 0.12 0.13 1.88 26.11 74 555 0 0 481 0.005 0.8 14.2 0.61 1.46 1.50 2.26 2.00 2.42 2.00 3.77 2.50 0.265 0.029 0.248 2.00 82 718 6 10.3 94.9 28.3 1.88 50 1K34 4977 4977 0 0.039 1 20.3 100 0.2 1.88 1.95 1 11.0 100 phasing AMoRE refinement CNS 1.0 Crystal structure analysis of gp41 core mutant 1 N N 2 N N A GLY 2 A GLY 2 HELX_P A GLN 32 A GLN 32 1 1 31 A TRP 41 A TRP 41 HELX_P A GLN 66 A GLN 66 1 2 26 VIRAL PROTEIN gp41, six-helix bundle, trimer-of-hairpins, membrane fusion, Viral protein ENV_HV1H2 UNP 1 P04578 546 579 1K34 1 34 P04578 A 1 1 34 628 655 1K34 41 68 P04578 A 1 41 68 1 SEE REMARK 999 SER 35 1K34 A P04578 UNP 35 1 SEE REMARK 999 GLY 36 1K34 A P04578 UNP 36 1 SEE REMARK 999 GLY 37 1K34 A P04578 UNP 37 1 SEE REMARK 999 ARG 38 1K34 A P04578 UNP 38 1 SEE REMARK 999 GLY 39 1K34 A P04578 UNP 39 1 SEE REMARK 999 GLY 40 1K34 A P04578 UNP 40 1 ILE engineered mutation ALA 55 1K34 A P04578 UNP 642 55 146 H 3