0.013793 0.007963 0.000000 0.000000 0.015927 0.000000 0.000000 0.000000 0.015198 0.00000 0.00000 0.00000 Maignan, S. Guilloteau, J.P. Zhou-Liu, Q. Clement-Mella, C. Mikol, V. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 72.500 72.500 65.800 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 H12 As N O2 S 225.141 n S-(DIMETHYLARSENIC)CYSTEINE L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE 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 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 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 UK J.Mol.Biol. JMOBAK 0070 0022-2836 282 359 368 10.1006/jmbi.1998.2002 9735293 Crystal structures of the catalytic domain of HIV-1 integrase free and complexed with its metal cofactor: high level of similarity of the active site with other viral integrases. 1998 US Science SCIEAS 0038 0036-8075 266 1981 Crystal Structure of the Catalytic Domain of HIV-1 Integrase: Similarity to Other Polynucleotidyl Transferases 1994 10.2210/pdb1bhl/pdb pdb_00001bhl 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 298 1 DOUBLE FOCUSING MIRRORS IMAGE PLATE 1996-08-21 MACSCIENCE NI FILTER M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE ENRAF-NONIUS FR591 RESIDUES CAS 65 AND CAS 130 ARE CACODYLATED CYSTEINES 16756.842 HIV-1 INTEGRASE 2.7.7.49 CATALYTIC CORE DOMAIN, RESIDUES 50 - 212 F185H 1 man polymer 18.015 water 53 nat water no yes SPGIWQLD(CAS)THLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSNFTSTTVKAA (CAS)WWAGIKQEFGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNHKRKGGIGGYSAGERIVDIIA TD SPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSNFTSTTVKAACWWAGIK QEFGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNHKRKGGIGGYSAGERIVDIIATD 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 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 n n n n n n n n n n n n n n n Lentivirus Escherichia Escherichia coli sample EXPRESSION CLONE FOR CORE, REFER TO PNAS USA, VOL. 90, PP. 3428-3432, APRIL 1993, AND PNAS USA 92, PP. 6057-6061, JUNE 1995 BL21 11676 Human immunodeficiency virus 1 469008 Escherichia coli BL21(DE3) BL21 (DE3) PET-15B 1 2.14 41.5 6.5 3-9% PEG 8000, 0.4M AMMONIUM SULFATE, 0.1M SODIUM CACODYLATE PH 6.5 database_2 pdbx_database_status struct_conn struct_ref_seq_dif pdbx_initial_refinement_model repository Initial release Version format compliance Derived calculations Version format compliance Database references Derived calculations Other Refinement description 1 0 1998-10-14 1 1 2008-03-24 1 2 2011-07-13 1 3 2021-11-03 1 4 2023-08-02 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_ref_seq_dif.details Y BNL 1998-06-10 REL HOH water 1ITG PDB ENTRY 1ITG PDB experimental model HOH 2 2 HOH HOH 208 A HOH 3 2 HOH HOH 209 A HOH 4 2 HOH HOH 210 A HOH 5 2 HOH HOH 211 A HOH 6 2 HOH HOH 212 A HOH 8 2 HOH HOH 213 A HOH 9 2 HOH HOH 214 A HOH 10 2 HOH HOH 215 A HOH 11 2 HOH HOH 216 A HOH 12 2 HOH HOH 217 A HOH 13 2 HOH HOH 218 A HOH 16 2 HOH HOH 219 A HOH 17 2 HOH HOH 220 A HOH 18 2 HOH HOH 221 A HOH 19 2 HOH HOH 222 A HOH 20 2 HOH HOH 223 A HOH 23 2 HOH HOH 224 A HOH 24 2 HOH HOH 225 A HOH 26 2 HOH HOH 226 A HOH 29 2 HOH HOH 227 A HOH 31 2 HOH HOH 228 A HOH 32 2 HOH HOH 229 A HOH 33 2 HOH HOH 230 A HOH 34 2 HOH HOH 231 A HOH 35 2 HOH HOH 232 A HOH 36 2 HOH HOH 233 A HOH 37 2 HOH HOH 234 A HOH 38 2 HOH HOH 235 A HOH 39 2 HOH HOH 236 A HOH 40 2 HOH HOH 237 A HOH 41 2 HOH HOH 238 A HOH 42 2 HOH HOH 239 A HOH 43 2 HOH HOH 240 A HOH 44 2 HOH HOH 241 A HOH 45 2 HOH HOH 242 A HOH 46 2 HOH HOH 243 A HOH 47 2 HOH HOH 244 A HOH 48 2 HOH HOH 245 A HOH 49 2 HOH HOH 246 A HOH 50 2 HOH HOH 247 A HOH 51 2 HOH HOH 248 A HOH 52 2 HOH HOH 249 A HOH 53 2 HOH HOH 250 A HOH 54 2 HOH HOH 251 A HOH 55 2 HOH HOH 252 A HOH 56 2 HOH HOH 253 A HOH 57 2 HOH HOH 254 A HOH 58 2 HOH HOH 255 A HOH 59 2 HOH HOH 256 A HOH 60 2 HOH HOH 257 A HOH 61 2 HOH HOH 258 A HOH 62 2 HOH HOH 259 A HOH 63 2 HOH HOH 260 A SER 57 n 1 SER 57 A PRO 58 n 2 PRO 58 A GLY 59 n 3 GLY 59 A ILE 60 n 4 ILE 60 A TRP 61 n 5 TRP 61 A GLN 62 n 6 GLN 62 A LEU 63 n 7 LEU 63 A ASP 64 n 8 ASP 64 A CAS 65 n 9 CAS 65 A THR 66 n 10 THR 66 A HIS 67 n 11 HIS 67 A LEU 68 n 12 LEU 68 A GLU 69 n 13 GLU 69 A GLY 70 n 14 GLY 70 A LYS 71 n 15 LYS 71 A VAL 72 n 16 VAL 72 A ILE 73 n 17 ILE 73 A LEU 74 n 18 LEU 74 A VAL 75 n 19 VAL 75 A ALA 76 n 20 ALA 76 A VAL 77 n 21 VAL 77 A HIS 78 n 22 HIS 78 A VAL 79 n 23 VAL 79 A ALA 80 n 24 ALA 80 A SER 81 n 25 SER 81 A GLY 82 n 26 GLY 82 A TYR 83 n 27 TYR 83 A ILE 84 n 28 ILE 84 A GLU 85 n 29 GLU 85 A ALA 86 n 30 ALA 86 A GLU 87 n 31 GLU 87 A VAL 88 n 32 VAL 88 A ILE 89 n 33 ILE 89 A PRO 90 n 34 PRO 90 A ALA 91 n 35 ALA 91 A GLU 92 n 36 GLU 92 A THR 93 n 37 THR 93 A GLY 94 n 38 GLY 94 A GLN 95 n 39 GLN 95 A GLU 96 n 40 GLU 96 A THR 97 n 41 THR 97 A ALA 98 n 42 ALA 98 A TYR 99 n 43 TYR 99 A PHE 100 n 44 PHE 100 A LEU 101 n 45 LEU 101 A LEU 102 n 46 LEU 102 A LYS 103 n 47 LYS 103 A LEU 104 n 48 LEU 104 A ALA 105 n 49 ALA 105 A GLY 106 n 50 GLY 106 A ARG 107 n 51 ARG 107 A TRP 108 n 52 TRP 108 A PRO 109 n 53 PRO 109 A VAL 110 n 54 VAL 110 A LYS 111 n 55 LYS 111 A THR 112 n 56 THR 112 A VAL 113 n 57 VAL 113 A HIS 114 n 58 HIS 114 A THR 115 n 59 THR 115 A ASP 116 n 60 ASP 116 A ASN 117 n 61 ASN 117 A GLY 118 n 62 GLY 118 A SER 119 n 63 SER 119 A ASN 120 n 64 ASN 120 A PHE 121 n 65 PHE 121 A THR 122 n 66 THR 122 A SER 123 n 67 SER 123 A THR 124 n 68 THR 124 A THR 125 n 69 THR 125 A VAL 126 n 70 VAL 126 A LYS 127 n 71 LYS 127 A ALA 128 n 72 ALA 128 A ALA 129 n 73 ALA 129 A CAS 130 n 74 CAS 130 A TRP 131 n 75 TRP 131 A TRP 132 n 76 TRP 132 A ALA 133 n 77 ALA 133 A GLY 134 n 78 GLY 134 A ILE 135 n 79 ILE 135 A LYS 136 n 80 LYS 136 A GLN 137 n 81 GLN 137 A n 82 138 A n 83 139 A n 84 140 A n 85 141 A n 86 142 A n 87 143 A n 88 144 A n 89 145 A n 90 146 A n 91 147 A n 92 148 A n 93 149 A n 94 150 A n 95 151 A n 96 152 A n 97 153 A MET 154 n 98 MET 154 A ASN 155 n 99 ASN 155 A LYS 156 n 100 LYS 156 A GLU 157 n 101 GLU 157 A LEU 158 n 102 LEU 158 A LYS 159 n 103 LYS 159 A LYS 160 n 104 LYS 160 A ILE 161 n 105 ILE 161 A ILE 162 n 106 ILE 162 A GLY 163 n 107 GLY 163 A GLN 164 n 108 GLN 164 A VAL 165 n 109 VAL 165 A ARG 166 n 110 ARG 166 A ASP 167 n 111 ASP 167 A GLN 168 n 112 GLN 168 A ALA 169 n 113 ALA 169 A GLU 170 n 114 GLU 170 A HIS 171 n 115 HIS 171 A LEU 172 n 116 LEU 172 A LYS 173 n 117 LYS 173 A THR 174 n 118 THR 174 A ALA 175 n 119 ALA 175 A VAL 176 n 120 VAL 176 A GLN 177 n 121 GLN 177 A MET 178 n 122 MET 178 A ALA 179 n 123 ALA 179 A VAL 180 n 124 VAL 180 A PHE 181 n 125 PHE 181 A ILE 182 n 126 ILE 182 A HIS 183 n 127 HIS 183 A ASN 184 n 128 ASN 184 A HIS 185 n 129 HIS 185 A LYS 186 n 130 LYS 186 A ARG 187 n 131 ARG 187 A LYS 188 n 132 LYS 188 A GLY 189 n 133 GLY 189 A GLY 190 n 134 GLY 190 A ILE 191 n 135 ILE 191 A GLY 192 n 136 GLY 192 A GLY 193 n 137 GLY 193 A TYR 194 n 138 TYR 194 A SER 195 n 139 SER 195 A ALA 196 n 140 ALA 196 A GLY 197 n 141 GLY 197 A GLU 198 n 142 GLU 198 A ARG 199 n 143 ARG 199 A ILE 200 n 144 ILE 200 A VAL 201 n 145 VAL 201 A ASP 202 n 146 ASP 202 A ILE 203 n 147 ILE 203 A ILE 204 n 148 ILE 204 A ALA 205 n 149 ALA 205 A THR 206 n 150 THR 206 A ASP 207 n 151 ASP 207 A author_and_software_defined_assembly PISA,PQS 2 dimeric 2500 -17 12980 A CAS 65 S-(DIMETHYLARSENIC)CYSTEINE A CAS 9 CYS A CAS 130 S-(DIMETHYLARSENIC)CYSTEINE A CAS 74 CYS 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 6_555 -x,-x+y,-z+1/3 crystal symmetry operation 0.0000000000 0.0000000000 21.9333333333 A O THR 112 A O THR 56 A N TRP 61 A N TRP 5 A O GLN 62 A O GLN 6 A N VAL 77 A N VAL 21 A O VAL 72 A O VAL 16 A N ILE 89 A N ILE 33 1 A CG LYS 71 A CG LYS 15 0 Y 1 A CD LYS 71 A CD LYS 15 0 Y 1 A CE LYS 71 A CE LYS 15 0 Y 1 A NZ LYS 71 A NZ LYS 15 0 Y 1 A CG GLN 95 A CG GLN 39 0 Y 1 A CD GLN 95 A CD GLN 39 0 Y 1 A OE1 GLN 95 A OE1 GLN 39 0 Y 1 A NE2 GLN 95 A NE2 GLN 39 0 Y 1 A CD LYS 111 A CD LYS 55 0 Y 1 A CE LYS 111 A CE LYS 55 0 Y 1 A NZ LYS 111 A NZ LYS 55 0 Y 1 A CG ASN 155 A CG ASN 99 0 Y 1 A OD1 ASN 155 A OD1 ASN 99 0 Y 1 A ND2 ASN 155 A ND2 ASN 99 0 Y 1 A CG LYS 156 A CG LYS 100 0 Y 1 A CD LYS 156 A CD LYS 100 0 Y 1 A CE LYS 156 A CE LYS 100 0 Y 1 A NZ LYS 156 A NZ LYS 100 0 Y 1 A CB GLU 170 A CB GLU 114 0 Y 1 A CG GLU 170 A CG GLU 114 0 Y 1 A CD GLU 170 A CD GLU 114 0 Y 1 A OE1 GLU 170 A OE1 GLU 114 0 Y 1 A OE2 GLU 170 A OE2 GLU 114 0 Y 1 A CD LYS 186 A CD LYS 130 0 Y 1 A CE LYS 186 A CE LYS 130 0 Y 1 A NZ LYS 186 A NZ LYS 130 0 Y 1 A CG ARG 187 A CG ARG 131 0 Y 1 A CD ARG 187 A CD ARG 131 0 Y 1 A NE ARG 187 A NE ARG 131 0 Y 1 A CZ ARG 187 A CZ ARG 131 0 Y 1 A NH1 ARG 187 A NH1 ARG 131 0 Y 1 A NH2 ARG 187 A NH2 ARG 131 0 Y 1 A CD LYS 188 A CD LYS 132 0 Y 1 A CE LYS 188 A CE LYS 132 0 Y 1 A NZ LYS 188 A NZ LYS 132 0 Y 1 A CG TYR 194 A CG TYR 138 0 Y 1 A CD1 TYR 194 A CD1 TYR 138 0 Y 1 A CD2 TYR 194 A CD2 TYR 138 0 Y 1 A CE1 TYR 194 A CE1 TYR 138 0 Y 1 A CE2 TYR 194 A CE2 TYR 138 0 Y 1 A CZ TYR 194 A CZ TYR 138 0 Y 1 A OH TYR 194 A OH TYR 138 0 Y 1 A GLU 138 A GLU 82 1 Y 1 A PHE 139 A PHE 83 1 Y 1 A GLY 140 A GLY 84 1 Y 1 A ILE 141 A ILE 85 1 Y 1 A PRO 142 A PRO 86 1 Y 1 A TYR 143 A TYR 87 1 Y 1 A ASN 144 A ASN 88 1 Y 1 A PRO 145 A PRO 89 1 Y 1 A GLN 146 A GLN 90 1 Y 1 A SER 147 A SER 91 1 Y 1 A GLN 148 A GLN 92 1 Y 1 A GLY 149 A GLY 93 1 Y 1 A VAL 150 A VAL 94 1 Y 1 A ILE 151 A ILE 95 1 Y 1 A GLU 152 A GLU 96 1 Y 1 A SER 153 A SER 97 1 Y 1 A GLY 189 A GLY 133 0 Y 1 A GLY 190 A GLY 134 0 Y 1 A ILE 191 A ILE 135 0 Y 1 A GLY 192 A GLY 136 0 Y 1 A GLY 193 A GLY 137 0 Y 1 A A O O HOH HOH 209 258 2.13 1 A LYS 188 -57.97 -9.27 PROTEIN_REP.PARAM TOPHCSDX.PRO 33.95 0.2640000 0.2240000 0.2240000 2.20 15.0 729 10074 7 97.47 RANDOM 10000000.00 0.001 1 THROUGHOUT 0 MOLECULAR REPLACEMENT PDB ENTRY 1ITG 2.20 15.0 53 1101 0 0 1048 0.012 1.5 0.2714000 0.2024000 2.3 83 1079 8 7 2.2 15.0 1BHL 10359 0 0.0430000 0.0430000 1 8 3.6 98.5 0.1530000 2.20 2.25 7.3 0.1530000 1 3.5 93.7 model building X-PLOR 3.851 refinement X-PLOR 3.851 data reduction DENZO data scaling SCALEPACK phasing X-PLOR 3.851 CACODYLATED CATALYTIC DOMAIN OF HIV-1 INTEGRASE 1 N N 2 N N A GLY 94 A GLY 38 HELX_P A ALA 105 A ALA 49 1 1 12 A GLY 118 A GLY 62 HELX_P A PHE 121 A PHE 65 5 2 4 A THR 124 A THR 68 HELX_P A TRP 132 A TRP 76 1 3 9 A ASN 155 A ASN 99 HELX_P A VAL 165 A VAL 109 1 4 11 A LEU 172 A LEU 116 HELX_P A HIS 185 A HIS 129 1 5 14 A ALA 196 A ALA 140 HELX_P A ALA 205 A ALA 149 1 6 10 covale 1.318 both A ASP 64 A C ASP 8 1_555 A CAS 65 A N CAS 9 1_555 covale 1.317 both A CAS 65 A C CAS 9 1_555 A THR 66 A N THR 10 1_555 covale 1.335 both A ALA 129 A C ALA 73 1_555 A CAS 130 A N CAS 74 1_555 covale 1.327 both A CAS 130 A C CAS 74 1_555 A TRP 131 A N TRP 75 1_555 DNA INTEGRATION DNA INTEGRATION, AIDS, POLYPROTEIN, HYDROLASE, ENDONUCLEASE, POLYNUCLEOTIDYL TRANSFERASE, DNA BINDING (VIRAL) POL_HV1N5 UNP 1 1 P12497 FFREDLAFPQGKAREFSSEQTRANSPTRRELQVWGRDNNSLSEAGADRQGTVSFSFPQITLWQRPLVTIKIGGQLKEALL DTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVGQYDQILIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPI ETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQ DFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQCSMT KILEPFRKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIV LPEKDSWTVNDIQKLVGKLNWASQIYAGIKVRQLCKLLRGTKALTEVVPLTEEAELELAENREILKEPVHGVYYDPSKDL IAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMKGAHTNDVKQLTEAVQKIATESIVIWGKTPKFKLPIQKETWEAWWTEY WQATWIPEWEFVNTPPLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTDRGRQKVVPLTDTTNQKTELQAIHLA LQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDGLVSAGIRKVLFLDGI DKAQEEHEKYHSNWRAMASDFNLPPVVAKEIVASCDKCQLKGEAMHGQVDCSPGIWQLDCTHLEGKVILVAVHVASGYIE AEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSNFTSTTVKAACWWAGIKQEFGIPYNPQSQGVIESMNKELKKIIGQV RDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIVDIIATDIQTKELQKQITKIQNFRVYYRDSRDPVWKGPAKLLWKG EGAVVIQDNSDIKVVPRRKAKIIRDYGKQMAGDDCVASRQDED 772 922 1BHL 57 207 P12497 A 1 1 151 1 CYS modified residue CAS 65 1BHL A P12497 UNP 780 9 1 CYS modified residue CAS 130 1BHL A P12497 UNP 845 74 1 PHE engineered mutation HIS 185 1BHL A P12497 UNP 900 129 4 parallel anti-parallel anti-parallel A THR 112 A THR 56 A HIS 114 A HIS 58 A ILE 60 A ILE 4 A ASP 64 A ASP 8 A VAL 72 A VAL 16 A HIS 78 A HIS 22 A TYR 83 A TYR 27 A ILE 89 A ILE 33 ACTIVE SITE. Unknown 2 A ASP 64 A ASP 8 2 1_555 A ASP 116 A ASP 60 2 1_555 152 P 31 2 1