0.015848 0.009150 0.000000 0.000000 0.018300 0.000000 0.000000 0.000000 0.011962 0.00000 0.00000 0.00000 Kallen, J. Billich, A. Scholz, D. Auer, M. Kungl, A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 63.100 63.100 83.600 C46 H59 N5 O9 825.989 benzyl [(1R)-1-({(1S,2S,3S)-1-benzyl-2-hydroxy-4-({(1S)-1-[(2-hydroxy-4-methoxybenzyl)carbamoyl]-2-methylpropyl}amino)-3-[(4-methoxybenzyl)amino]-4-oxobutyl}carbamoyl)-2,2-dimethylpropyl]carbamate SDZ283-910 peptide-like 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 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 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 286 1147 1159 10.1006/jmbi.1998.2533 10047488 X-ray structure and conformational dynamics of the HIV-1 protease in complex with the inhibitor SDZ283-910: agreement of time-resolved spectroscopy and molecular dynamics simulations. 1999 10.2210/pdb1a8g/pdb pdb_00001a8g 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 293 1 DIFFRACTOMETER 1993-09 ENRAF-NONIUS FAST GRAPHITE(002) M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE ENRAF-NONIUS FR571 10830.781 HIV-1 PROTEASE 3.4.23.16 2 man polymer 825.989 benzyl [(1R)-1-({(1S,2S,3S)-1-benzyl-2-hydroxy-4-({(1S)-1-[(2-hydroxy-4-methoxybenzyl)carbamoyl]-2-methylpropyl}amino)-3-[(4-methoxybenzyl)amino]-4-oxobutyl}carbamoyl)-2,2-dimethylpropyl]carbamate 1 syn non-polymer 18.015 water 69 nat water no no PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT PVNIIGRNLLTQIGCTLNF PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT PVNIIGRNLLTQIGCTLNF 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 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 JM 105 PTZPRT 1 2.4 49 7.0 pH 7.0 diffrn_detector pdbx_database_status database_2 pdbx_initial_refinement_model struct_site repository Initial release Version format compliance Atomic model Database references Derived calculations Non-polymer description Structure summary Version format compliance Other Data collection Other Database references Derived calculations Refinement description 1 0 1998-07-15 1 1 2008-03-24 1 2 2011-07-13 1 3 2012-12-12 1 4 2018-04-18 1 5 2023-08-02 _diffrn_detector.detector _pdbx_database_status.process_site _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y BNL 1998-03-24 REL REL 2Z4 benzyl [(1R)-1-({(1S,2S,3S)-1-benzyl-2-hydroxy-4-({(1S)-1-[(2-hydroxy-4-methoxybenzyl)carbamoyl]-2-methylpropyl}amino)-3-[(4-methoxybenzyl)amino]-4-oxobutyl}carbamoyl)-2,2-dimethylpropyl]carbamate HOH water 9HVP PDB ENTRY 9HVP PDB experimental model Inhibitor INHIBITOR SDZ283-910 Peptide-like CBZ 1 2 2Z4 2Z4 100 A HOH 3 3 HOH HOH 101 A HOH 4 3 HOH HOH 102 A HOH 5 3 HOH HOH 103 A HOH 6 3 HOH HOH 104 A HOH 7 3 HOH HOH 105 A HOH 8 3 HOH HOH 106 A HOH 9 3 HOH HOH 107 A HOH 10 3 HOH HOH 108 A HOH 11 3 HOH HOH 109 A HOH 12 3 HOH HOH 110 A HOH 13 3 HOH HOH 111 A HOH 14 3 HOH HOH 112 A HOH 15 3 HOH HOH 113 A HOH 16 3 HOH HOH 114 A HOH 17 3 HOH HOH 115 A HOH 19 3 HOH HOH 116 A HOH 20 3 HOH HOH 117 A HOH 21 3 HOH HOH 118 A HOH 22 3 HOH HOH 119 A HOH 23 3 HOH HOH 120 A HOH 24 3 HOH HOH 121 A HOH 25 3 HOH HOH 122 A HOH 26 3 HOH HOH 123 A HOH 27 3 HOH HOH 124 A HOH 28 3 HOH HOH 125 A HOH 29 3 HOH HOH 126 A HOH 30 3 HOH HOH 127 A HOH 31 3 HOH HOH 128 A HOH 32 3 HOH HOH 129 A HOH 33 3 HOH HOH 130 A HOH 34 3 HOH HOH 131 A HOH 35 3 HOH HOH 132 A HOH 36 3 HOH HOH 133 A HOH 49 3 HOH HOH 134 A HOH 2 3 HOH HOH 135 A HOH 1 3 HOH HOH 136 A HOH 18 3 HOH HOH 100 B HOH 37 3 HOH HOH 101 B HOH 38 3 HOH HOH 102 B HOH 39 3 HOH HOH 103 B HOH 40 3 HOH HOH 104 B HOH 41 3 HOH HOH 105 B HOH 42 3 HOH HOH 106 B HOH 43 3 HOH HOH 107 B HOH 44 3 HOH HOH 108 B HOH 45 3 HOH HOH 109 B HOH 46 3 HOH HOH 110 B HOH 47 3 HOH HOH 111 B HOH 48 3 HOH HOH 112 B HOH 50 3 HOH HOH 113 B HOH 51 3 HOH HOH 114 B HOH 52 3 HOH HOH 115 B HOH 53 3 HOH HOH 116 B HOH 54 3 HOH HOH 117 B HOH 55 3 HOH HOH 118 B HOH 56 3 HOH HOH 119 B HOH 57 3 HOH HOH 120 B HOH 58 3 HOH HOH 121 B HOH 59 3 HOH HOH 122 B HOH 60 3 HOH HOH 123 B HOH 61 3 HOH HOH 124 B HOH 62 3 HOH HOH 125 B HOH 63 3 HOH HOH 126 B HOH 64 3 HOH HOH 127 B HOH 65 3 HOH HOH 128 B HOH 66 3 HOH HOH 129 B HOH 67 3 HOH HOH 130 B HOH 68 3 HOH HOH 131 B HOH 69 3 HOH HOH 132 B PRO 1 n 1 PRO 1 A GLN 2 n 2 GLN 2 A ILE 3 n 3 ILE 3 A THR 4 n 4 THR 4 A LEU 5 n 5 LEU 5 A TRP 6 n 6 TRP 6 A GLN 7 n 7 GLN 7 A ARG 8 n 8 ARG 8 A PRO 9 n 9 PRO 9 A LEU 10 n 10 LEU 10 A VAL 11 n 11 VAL 11 A THR 12 n 12 THR 12 A ILE 13 n 13 ILE 13 A LYS 14 n 14 LYS 14 A ILE 15 n 15 ILE 15 A GLY 16 n 16 GLY 16 A GLY 17 n 17 GLY 17 A GLN 18 n 18 GLN 18 A LEU 19 n 19 LEU 19 A LYS 20 n 20 LYS 20 A GLU 21 n 21 GLU 21 A ALA 22 n 22 ALA 22 A LEU 23 n 23 LEU 23 A LEU 24 n 24 LEU 24 A ASP 25 n 25 ASP 25 A THR 26 n 26 THR 26 A GLY 27 n 27 GLY 27 A ALA 28 n 28 ALA 28 A ASP 29 n 29 ASP 29 A ASP 30 n 30 ASP 30 A THR 31 n 31 THR 31 A VAL 32 n 32 VAL 32 A LEU 33 n 33 LEU 33 A GLU 34 n 34 GLU 34 A GLU 35 n 35 GLU 35 A MET 36 n 36 MET 36 A ASN 37 n 37 ASN 37 A LEU 38 n 38 LEU 38 A PRO 39 n 39 PRO 39 A GLY 40 n 40 GLY 40 A ARG 41 n 41 ARG 41 A TRP 42 n 42 TRP 42 A LYS 43 n 43 LYS 43 A PRO 44 n 44 PRO 44 A LYS 45 n 45 LYS 45 A MET 46 n 46 MET 46 A ILE 47 n 47 ILE 47 A GLY 48 n 48 GLY 48 A GLY 49 n 49 GLY 49 A ILE 50 n 50 ILE 50 A GLY 51 n 51 GLY 51 A GLY 52 n 52 GLY 52 A PHE 53 n 53 PHE 53 A ILE 54 n 54 ILE 54 A LYS 55 n 55 LYS 55 A VAL 56 n 56 VAL 56 A ARG 57 n 57 ARG 57 A GLN 58 n 58 GLN 58 A TYR 59 n 59 TYR 59 A ASP 60 n 60 ASP 60 A GLN 61 n 61 GLN 61 A ILE 62 n 62 ILE 62 A LEU 63 n 63 LEU 63 A ILE 64 n 64 ILE 64 A GLU 65 n 65 GLU 65 A ILE 66 n 66 ILE 66 A CYS 67 n 67 CYS 67 A GLY 68 n 68 GLY 68 A HIS 69 n 69 HIS 69 A LYS 70 n 70 LYS 70 A ALA 71 n 71 ALA 71 A ILE 72 n 72 ILE 72 A GLY 73 n 73 GLY 73 A THR 74 n 74 THR 74 A VAL 75 n 75 VAL 75 A LEU 76 n 76 LEU 76 A VAL 77 n 77 VAL 77 A GLY 78 n 78 GLY 78 A PRO 79 n 79 PRO 79 A THR 80 n 80 THR 80 A PRO 81 n 81 PRO 81 A VAL 82 n 82 VAL 82 A ASN 83 n 83 ASN 83 A ILE 84 n 84 ILE 84 A ILE 85 n 85 ILE 85 A GLY 86 n 86 GLY 86 A ARG 87 n 87 ARG 87 A ASN 88 n 88 ASN 88 A LEU 89 n 89 LEU 89 A LEU 90 n 90 LEU 90 A THR 91 n 91 THR 91 A GLN 92 n 92 GLN 92 A ILE 93 n 93 ILE 93 A GLY 94 n 94 GLY 94 A CYS 95 n 95 CYS 95 A THR 96 n 96 THR 96 A LEU 97 n 97 LEU 97 A ASN 98 n 98 ASN 98 A PHE 99 n 99 PHE 99 A PRO 1 n 1 PRO 1 B GLN 2 n 2 GLN 2 B ILE 3 n 3 ILE 3 B THR 4 n 4 THR 4 B LEU 5 n 5 LEU 5 B TRP 6 n 6 TRP 6 B GLN 7 n 7 GLN 7 B ARG 8 n 8 ARG 8 B PRO 9 n 9 PRO 9 B LEU 10 n 10 LEU 10 B VAL 11 n 11 VAL 11 B THR 12 n 12 THR 12 B ILE 13 n 13 ILE 13 B LYS 14 n 14 LYS 14 B ILE 15 n 15 ILE 15 B GLY 16 n 16 GLY 16 B GLY 17 n 17 GLY 17 B GLN 18 n 18 GLN 18 B LEU 19 n 19 LEU 19 B LYS 20 n 20 LYS 20 B GLU 21 n 21 GLU 21 B ALA 22 n 22 ALA 22 B LEU 23 n 23 LEU 23 B LEU 24 n 24 LEU 24 B ASP 25 n 25 ASP 25 B THR 26 n 26 THR 26 B GLY 27 n 27 GLY 27 B ALA 28 n 28 ALA 28 B ASP 29 n 29 ASP 29 B ASP 30 n 30 ASP 30 B THR 31 n 31 THR 31 B VAL 32 n 32 VAL 32 B LEU 33 n 33 LEU 33 B GLU 34 n 34 GLU 34 B GLU 35 n 35 GLU 35 B MET 36 n 36 MET 36 B ASN 37 n 37 ASN 37 B LEU 38 n 38 LEU 38 B PRO 39 n 39 PRO 39 B GLY 40 n 40 GLY 40 B ARG 41 n 41 ARG 41 B TRP 42 n 42 TRP 42 B LYS 43 n 43 LYS 43 B PRO 44 n 44 PRO 44 B LYS 45 n 45 LYS 45 B MET 46 n 46 MET 46 B ILE 47 n 47 ILE 47 B GLY 48 n 48 GLY 48 B GLY 49 n 49 GLY 49 B ILE 50 n 50 ILE 50 B GLY 51 n 51 GLY 51 B GLY 52 n 52 GLY 52 B PHE 53 n 53 PHE 53 B ILE 54 n 54 ILE 54 B LYS 55 n 55 LYS 55 B VAL 56 n 56 VAL 56 B ARG 57 n 57 ARG 57 B GLN 58 n 58 GLN 58 B TYR 59 n 59 TYR 59 B ASP 60 n 60 ASP 60 B GLN 61 n 61 GLN 61 B ILE 62 n 62 ILE 62 B LEU 63 n 63 LEU 63 B ILE 64 n 64 ILE 64 B GLU 65 n 65 GLU 65 B ILE 66 n 66 ILE 66 B CYS 67 n 67 CYS 67 B GLY 68 n 68 GLY 68 B HIS 69 n 69 HIS 69 B LYS 70 n 70 LYS 70 B ALA 71 n 71 ALA 71 B ILE 72 n 72 ILE 72 B GLY 73 n 73 GLY 73 B THR 74 n 74 THR 74 B VAL 75 n 75 VAL 75 B LEU 76 n 76 LEU 76 B VAL 77 n 77 VAL 77 B GLY 78 n 78 GLY 78 B PRO 79 n 79 PRO 79 B THR 80 n 80 THR 80 B PRO 81 n 81 PRO 81 B VAL 82 n 82 VAL 82 B ASN 83 n 83 ASN 83 B ILE 84 n 84 ILE 84 B ILE 85 n 85 ILE 85 B GLY 86 n 86 GLY 86 B ARG 87 n 87 ARG 87 B ASN 88 n 88 ASN 88 B LEU 89 n 89 LEU 89 B LEU 90 n 90 LEU 90 B THR 91 n 91 THR 91 B GLN 92 n 92 GLN 92 B ILE 93 n 93 ILE 93 B GLY 94 n 94 GLY 94 B CYS 95 n 95 CYS 95 B THR 96 n 96 THR 96 B LEU 97 n 97 LEU 97 B ASN 98 n 98 ASN 98 B PHE 99 n 99 PHE 99 B author_and_software_defined_assembly PISA 2 dimeric 5650 -28 9230 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 VAL 11 A O VAL 11 A N ALA 22 A N ALA 22 A O LEU 33 A O LEU 33 A N LEU 76 A N LEU 76 A O VAL 75 A O VAL 75 A N TYR 59 A N TYR 59 A O GLY 52 A O GLY 52 A N GLY 49 A N GLY 49 A O ILE 62 A O ILE 62 A N GLY 73 A N GLY 73 B O GLN 18 B O GLN 18 B N ILE 15 B N ILE 15 B O LYS 14 B O LYS 14 B N GLU 65 B N GLU 65 B O ILE 62 B O ILE 62 B N GLY 73 B N GLY 73 B O LYS 43 B O LYS 43 B N GLN 58 B N GLN 58 B O ARG 57 B O ARG 57 B N VAL 77 B N VAL 77 1 6.68 0.80 106.30 112.98 A A A CD1 CG CD2 TRP TRP TRP 6 6 6 N 1 -5.82 0.80 107.30 101.48 A A A CE2 CD2 CG TRP TRP TRP 6 6 6 N 1 -12.63 2.00 111.60 98.97 A A A CB CA C ILE ILE ILE 15 15 15 N 1 14.52 2.30 115.30 129.82 A A A CA CB CG LEU LEU LEU 23 23 23 N 1 6.11 0.80 106.30 112.41 A A A CD1 CG CD2 TRP TRP TRP 42 42 42 N 1 -5.69 0.80 107.30 101.61 A A A CE2 CD2 CG TRP TRP TRP 42 42 42 N 1 8.45 1.10 114.20 122.65 A A A CA CB SG CYS CYS CYS 95 95 95 N 1 7.17 0.80 106.30 113.47 B B B CD1 CG CD2 TRP TRP TRP 6 6 6 N 1 -5.83 0.80 107.30 101.47 B B B CE2 CD2 CG TRP TRP TRP 6 6 6 N 1 7.15 0.80 106.30 113.45 B B B CD1 CG CD2 TRP TRP TRP 42 42 42 N 1 -6.49 0.80 107.30 100.81 B B B CE2 CD2 CG TRP TRP TRP 42 42 42 N 1 -3.19 0.50 120.30 117.11 B B B NE CZ NH2 ARG ARG ARG 57 57 57 N 1 B B NE2 CD2 HIS HIS 69 69 -0.069 0.011 1.373 1.304 N 1 A GLU 35 -35.91 126.89 1 A CYS 67 38.13 55.61 1 B CYS 67 38.96 66.02 PARAM19X.PRO TOPH19X.PRO PARAM19.SOL TOPH19.PEP PARAM19X.I TOPH19.PEPI TOPH19X.I 22.8 0.244 0.010 0.15 0.15 2.50 8.00 598 5566 10.7 87.4 RANDOM 100000000.00 0.00010 1 RESTRAINED A POSTERIORI 0.0 DIFFERENCE FOURIER PDB ENTRY 9HVP 0.33 0.20 5.00 0.44 0.27 2.50 8.00 69 1649 60 0 1520 0.016 3.5 28.2 1.40 3.01 1.50 4.53 2.00 4.90 2.00 7.31 2.50 0.322 0.033 0.218 2.65 93 752 6 11.0 80.9 39.4 2.50 15.0 1A8G 5696 3 0.087 1 12 4.0 81 2.50 2.67 3 0.27 1 4.1 77 model building X-PLOR 3.1 refinement X-PLOR 3.1 data reduction MADNES data scaling PROCOR phasing X-PLOR 3.1 HIV-1 PROTEASE IN COMPLEX WITH SDZ283-910 1 N N 1 N N 2 N N 3 N N 3 N N A ILE 66 A ILE 66 HELX_P A GLY 68 A GLY 68 5 1 3 A ARG 87 A ARG 87 HELX_P A LEU 90 A LEU 90 1 2 4 B ARG 87 B ARG 87 HELX_P B LEU 90 B LEU 90 1 3 4 HYDROLASE/HYDROLASE INHIBITOR ACID PROTEINASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX given -0.503232 -0.864148 -0.002343 -0.864148 0.503236 0.001680 -0.002631 0.001179 -0.999996 -0.16340 -0.03180 55.47930 AAF93099 GB 1 1 9939861 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT PVNIIGRNLLTQIGCTLNFPISPIETVPIKLKPGMDGPKVKQWPLTEEKIKALMEICAEMEKEGKISRIGPENPYNTPVF AIKKKDSTKWRKLVDFRELNKKTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETPG IRYQYNVLPQEWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYVDDLYVGSDLEIGQHRTKVEELRQHLLRWGFTTPDKKH QKEPPFLW 1 99 1A8G 1 99 9939861 A 1 1 99 1 99 1A8G 1 99 9939861 B 1 1 99 2 4 2 4 3 anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A LEU 10 A LEU 10 A ILE 15 A ILE 15 A GLN 18 A GLN 18 A LEU 23 A LEU 23 A VAL 32 A VAL 32 A GLU 34 A GLU 34 A VAL 75 A VAL 75 A GLY 78 A GLY 78 A GLY 52 A GLY 52 A TYR 59 A TYR 59 A TRP 42 A TRP 42 A GLY 49 A GLY 49 A ILE 62 A ILE 62 A ILE 66 A ILE 66 A HIS 69 A HIS 69 A GLY 73 A GLY 73 B GLN 18 B GLN 18 B LEU 23 B LEU 23 B LEU 10 B LEU 10 B ILE 15 B ILE 15 B ILE 62 B ILE 62 B ILE 66 B ILE 66 B HIS 69 B HIS 69 B GLY 73 B GLY 73 B LYS 43 B LYS 43 B GLY 49 B GLY 49 B GLY 52 B GLY 52 B TYR 59 B TYR 59 B VAL 75 B VAL 75 B GLY 78 B GLY 78 BINDING SITE FOR RESIDUE 2Z4 A 100 A 2Z4 100 Software 24 A ASP 25 A ASP 25 24 1_555 A GLY 27 A GLY 27 24 1_555 A ASP 29 A ASP 29 24 1_555 A ASP 30 A ASP 30 24 1_555 A LYS 45 A LYS 45 24 1_555 A ILE 47 A ILE 47 24 1_555 A GLY 48 A GLY 48 24 1_555 A GLY 49 A GLY 49 24 1_555 A ILE 50 A ILE 50 24 1_555 A VAL 82 A VAL 82 24 1_555 A ILE 84 A ILE 84 24 1_555 A HOH 136 D HOH 24 1_555 B ASP 25 B ASP 25 24 1_555 B GLY 27 B GLY 27 24 1_555 B ALA 28 B ALA 28 24 1_555 B ASP 29 B ASP 29 24 1_555 B ASP 30 B ASP 30 24 1_555 B MET 46 B MET 46 24 1_555 B ILE 47 B ILE 47 24 1_555 B GLY 48 B GLY 48 24 1_555 B GLY 49 B GLY 49 24 1_555 B ILE 50 B ILE 50 24 1_555 B PRO 81 B PRO 81 24 6_555 B VAL 82 B VAL 82 24 1_555 169 P 61