0.013114 0.007571 0.000000 0.000000 0.015143 0.000000 0.000000 0.000000 0.010933 0.00000 0.00000 0.00000 Chirgadze, N.Y. Schevitz, R.W. Wery, J.-P. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 76.254 76.254 91.465 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 Ca 2 40.078 CALCIUM ION non-polymer 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 C19 H19 N O3 309.359 1-BENZYL-5-METHOXY-2-METHYL-1H-INDOL-3-YL)-ACETIC ACID 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 C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking US Nat.Struct.Biol. NSBIEW 2024 1072-8368 2 458 465 10.1038/nsb0695-458 7664108 Structure-based design of the first potent and selective inhibitor of human non-pancreatic secretory phospholipase A2. 1995 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 297.0 1 IMAGE PLATE 1994-11-14 RIGAKU RAXIS IIC SINGLE WAVELENGTH M x-ray 1 1.54 1.0 1.54 ROTATING ANODE RIGAKU RU200 13945.012 PHOSPHOLIPASE A2 3.1.1.4 1 man polymer 40.078 CALCIUM ION 2 syn non-polymer 309.359 1-BENZYL-5-METHOXY-2-METHYL-1H-INDOL-3-YL)-ACETIC ACID 1 syn non-polymer 18.015 water 13 nat water HNP-SPLA2 no no NLVNFHRMIKLTTGKEAALSYGFYGCHCGVGGRGSPKDATDRCCVTHDCCYKRLEKRGCGTKFLSYKFSNSGSRITCAKQ DSCRSQLCECDKAAATCFARNKTTYNKKYQYYSNKHCRGSTPRC NLVNFHRMIKLTTGKEAALSYGFYGCHCGVGGRGSPKDATDRCCVTHDCCYKRLEKRGCGTKFLSYKFSNSGSRITCAKQ DSCRSQLCECDKAAATCFARNKTTYNKKYQYYSNKHCRGSTPRC 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 human Homo sample 9606 Homo sapiens 1 2.8 56 VAPOR DIFFUSION 7.0 10 MG/ML OF PROTEIN, 50 MM BUFFER (MES OF MOPS), 1% PYRIDINE, AN INHIBITOR CONCENTRATION OF 1.5 MOLAR EQUIVALENT, pH 7.0, VAPOR DIFFUSION, temperature 297K 297 repository Initial release Version format compliance Version format compliance 1 0 1999-11-12 1 1 2008-04-27 1 2 2011-07-13 S-PLA2 IN COMPLEX WITH INDOLE 8 S-PLA2 IN COMPLEX WITH INDOLE 6 RCSB Y RCSB 1999-11-05 REL CA CALCIUM ION I3N 1-BENZYL-5-METHOXY-2-METHYL-1H-INDOL-3-YL)-ACETIC ACID HOH water MCA 198 2 CA CA 198 A MCA 199 2 CA CA 199 A I3N 201 3 I3N I3N 1201 A HOH 201 4 HOH HOH 201 A HOH 202 4 HOH HOH 202 A HOH 203 4 HOH HOH 203 A HOH 204 4 HOH HOH 204 A HOH 205 4 HOH HOH 205 A HOH 206 4 HOH HOH 206 A HOH 207 4 HOH HOH 207 A HOH 208 4 HOH HOH 208 A HOH 209 4 HOH HOH 209 A HOH 210 4 HOH HOH 210 A HOH 211 4 HOH HOH 211 A HOH 212 4 HOH HOH 212 A HOH 214 4 HOH HOH 214 A ASN 1 n 1 ASN 1 A LEU 2 n 2 LEU 2 A VAL 3 n 3 VAL 3 A ASN 4 n 4 ASN 4 A PHE 5 n 5 PHE 5 A HIS 6 n 6 HIS 6 A ARG 7 n 7 ARG 7 A MET 8 n 8 MET 8 A ILE 9 n 9 ILE 9 A LYS 10 n 10 LYS 10 A LEU 11 n 11 LEU 11 A THR 12 n 12 THR 12 A THR 13 n 13 THR 13 A GLY 14 n 14 GLY 14 A LYS 15 n 15 LYS 15 A GLU 16 n 16 GLU 16 A ALA 17 n 17 ALA 17 A ALA 18 n 18 ALA 18 A LEU 19 n 19 LEU 19 A SER 20 n 20 SER 20 A TYR 21 n 21 TYR 21 A GLY 22 n 22 GLY 22 A PHE 23 n 23 PHE 23 A TYR 24 n 24 TYR 24 A GLY 25 n 25 GLY 25 A CYS 26 n 26 CYS 26 A HIS 27 n 27 HIS 27 A CYS 28 n 28 CYS 28 A GLY 29 n 29 GLY 29 A VAL 30 n 30 VAL 30 A GLY 31 n 31 GLY 31 A GLY 32 n 32 GLY 32 A ARG 33 n 33 ARG 33 A GLY 34 n 34 GLY 34 A SER 35 n 35 SER 35 A PRO 36 n 36 PRO 36 A LYS 37 n 37 LYS 37 A ASP 38 n 38 ASP 38 A ALA 39 n 39 ALA 39 A THR 40 n 40 THR 40 A ASP 41 n 41 ASP 41 A ARG 42 n 42 ARG 42 A CYS 43 n 43 CYS 43 A CYS 44 n 44 CYS 44 A VAL 45 n 45 VAL 45 A THR 46 n 46 THR 46 A HIS 47 n 47 HIS 47 A ASP 48 n 48 ASP 48 A CYS 49 n 49 CYS 49 A CYS 50 n 50 CYS 50 A TYR 51 n 51 TYR 51 A LYS 52 n 52 LYS 52 A ARG 53 n 53 ARG 53 A LEU 54 n 54 LEU 54 A GLU 55 n 55 GLU 55 A LYS 56 n 56 LYS 56 A ARG 57 n 57 ARG 57 A GLY 58 n 58 GLY 58 A CYS 59 n 59 CYS 59 A GLY 60 n 60 GLY 60 A THR 61 n 61 THR 61 A LYS 62 n 62 LYS 62 A PHE 63 n 63 PHE 63 A LEU 64 n 64 LEU 64 A SER 65 n 65 SER 65 A TYR 66 n 66 TYR 66 A LYS 67 n 67 LYS 67 A PHE 68 n 68 PHE 68 A SER 69 n 69 SER 69 A ASN 70 n 70 ASN 70 A SER 71 n 71 SER 71 A GLY 72 n 72 GLY 72 A SER 73 n 73 SER 73 A ARG 74 n 74 ARG 74 A ILE 75 n 75 ILE 75 A THR 76 n 76 THR 76 A CYS 77 n 77 CYS 77 A ALA 78 n 78 ALA 78 A LYS 79 n 79 LYS 79 A GLN 80 n 80 GLN 80 A ASP 81 n 81 ASP 81 A SER 82 n 82 SER 82 A CYS 83 n 83 CYS 83 A ARG 84 n 84 ARG 84 A SER 85 n 85 SER 85 A GLN 86 n 86 GLN 86 A LEU 87 n 87 LEU 87 A CYS 88 n 88 CYS 88 A GLU 89 n 89 GLU 89 A CYS 90 n 90 CYS 90 A ASP 91 n 91 ASP 91 A LYS 92 n 92 LYS 92 A ALA 93 n 93 ALA 93 A ALA 94 n 94 ALA 94 A ALA 95 n 95 ALA 95 A THR 96 n 96 THR 96 A CYS 97 n 97 CYS 97 A PHE 98 n 98 PHE 98 A ALA 99 n 99 ALA 99 A ARG 100 n 100 ARG 100 A ASN 101 n 101 ASN 101 A LYS 102 n 102 LYS 102 A THR 103 n 103 THR 103 A THR 104 n 104 THR 104 A TYR 105 n 105 TYR 105 A ASN 106 n 106 ASN 106 A LYS 107 n 107 LYS 107 A LYS 108 n 108 LYS 108 A TYR 109 n 109 TYR 109 A GLN 110 n 110 GLN 110 A TYR 111 n 111 TYR 111 A TYR 112 n 112 TYR 112 A SER 113 n 113 SER 113 A ASN 114 n 114 ASN 114 A LYS 115 n 115 LYS 115 A HIS 116 n 116 HIS 116 A CYS 117 n 117 CYS 117 A ARG 118 n 118 ARG 118 A GLY 119 n 119 GLY 119 A SER 120 n 120 SER 120 A THR 121 n 121 THR 121 A PRO 122 n 122 PRO 122 A ARG 123 n 123 ARG 123 A CYS 124 n 124 CYS 124 A author_defined_assembly 1 monomeric A HIS 27 A O HIS 27 1_555 A CA 198 B CA CA 1_555 A ASP 48 A OD1 ASP 48 1_555 90.9 A HIS 27 A O HIS 27 1_555 A CA 198 B CA CA 1_555 A GLY 31 A O GLY 31 1_555 84.3 A ASP 48 A OD1 ASP 48 1_555 A CA 198 B CA CA 1_555 A GLY 31 A O GLY 31 1_555 88.5 A HIS 27 A O HIS 27 1_555 A CA 198 B CA CA 1_555 A ASP 48 A OD2 ASP 48 1_555 120.5 A ASP 48 A OD1 ASP 48 1_555 A CA 198 B CA CA 1_555 A ASP 48 A OD2 ASP 48 1_555 50.6 A GLY 31 A O GLY 31 1_555 A CA 198 B CA CA 1_555 A ASP 48 A OD2 ASP 48 1_555 128.4 A HIS 27 A O HIS 27 1_555 A CA 198 B CA CA 1_555 A I3N 1201 D O14 I3N 1_555 70.8 A ASP 48 A OD1 ASP 48 1_555 A CA 198 B CA CA 1_555 A I3N 1201 D O14 I3N 1_555 101.8 A GLY 31 A O GLY 31 1_555 A CA 198 B CA CA 1_555 A I3N 1201 D O14 I3N 1_555 153.1 A ASP 48 A OD2 ASP 48 1_555 A CA 198 B CA CA 1_555 A I3N 1201 D O14 I3N 1_555 75.3 A HIS 27 A O HIS 27 1_555 A CA 198 B CA CA 1_555 A GLY 29 A O GLY 29 1_555 89.4 A ASP 48 A OD1 ASP 48 1_555 A CA 198 B CA CA 1_555 A GLY 29 A O GLY 29 1_555 178.7 A GLY 31 A O GLY 31 1_555 A CA 198 B CA CA 1_555 A GLY 29 A O GLY 29 1_555 90.2 A ASP 48 A OD2 ASP 48 1_555 A CA 198 B CA CA 1_555 A GLY 29 A O GLY 29 1_555 130.2 A I3N 1201 D O14 I3N 1_555 A CA 198 B CA CA 1_555 A GLY 29 A O GLY 29 1_555 79.5 A TYR 112 A O TYR 112 1_555 A CA 199 C CA CA 1_555 A PHE 23 A O PHE 23 1_555 84.8 A TYR 112 A O TYR 112 1_555 A CA 199 C CA CA 1_555 A ASN 114 A OD1 ASN 114 1_555 95.1 A PHE 23 A O PHE 23 1_555 A CA 199 C CA CA 1_555 A ASN 114 A OD1 ASN 114 1_555 178.0 A TYR 112 A O TYR 112 1_555 A CA 199 C CA CA 1_555 A GLY 25 A O GLY 25 1_555 86.4 A PHE 23 A O PHE 23 1_555 A CA 199 C CA CA 1_555 A GLY 25 A O GLY 25 1_555 93.5 A ASN 114 A OD1 ASN 114 1_555 A CA 199 C CA CA 1_555 A GLY 25 A O GLY 25 1_555 84.5 A TYR 112 A O TYR 112 1_555 A CA 199 C CA CA 1_555 A HOH 210 E O HOH 12_556 163.1 A PHE 23 A O PHE 23 1_555 A CA 199 C CA CA 1_555 A HOH 210 E O HOH 12_556 82.8 A ASN 114 A OD1 ASN 114 1_555 A CA 199 C CA CA 1_555 A HOH 210 E O HOH 12_556 96.8 A GLY 25 A O GLY 25 1_555 A CA 199 C CA CA 1_555 A HOH 210 E O HOH 12_556 83.0 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 N SER 71 A N SER 71 A O ARG 74 A O ARG 74 1 A THR 61 -135.71 -76.00 1 A ASP 81 -46.37 156.00 1 A TYR 111 -116.29 50.71 0.269 0.218 0.218 2.70 20.00 242 4448 93.4 93.6 RANDOM 1 2.000 2.70 20.00 21 1012 25 0 966 0.008 1.157 24.41 0.595 0.336 0.297 2.82 25 496 8 3.9 83.2 25.50 2.700 30.000 1DCY 4448 0.081 1 27.8000 5.900 98.7 0.26 2.70 2.75 6.4 5.90 100.0 data reduction DENZO data scaling SCALEPACK model building X-PLOR refinement X-PLOR 98.0 phasing X-PLOR PHOSPHOLIPASE A2 (E.C.3.1.1.4) CRYSTAL STRUCTURE OF HUMAN S-PLA2 IN COMPLEX WITH INDOLE 3 ACTIVE SITE INHIBITOR 1 N N 2 N N 2 N N 3 N N 4 N N A ASN 1 A ASN 1 HELX_P A GLY 14 A GLY 14 1 1 14 A GLU 16 A GLU 16 HELX_P A GLY 22 A GLY 22 1 2 7 A ASP 38 A ASP 38 HELX_P A ARG 57 A ARG 57 1 3 20 A ASP 81 A ASP 81 HELX_P A ASN 101 A ASN 101 1 4 21 A LYS 102 A LYS 102 HELX_P A TYR 105 A TYR 105 5 5 4 A SER 113 A SER 113 HELX_P A CYS 117 A CYS 117 5 6 5 disulf 2.028 A CYS 26 A SG CYS 26 1_555 A CYS 117 A SG CYS 117 1_555 disulf 2.041 A CYS 28 A SG CYS 28 1_555 A CYS 44 A SG CYS 44 1_555 disulf 2.048 A CYS 43 A SG CYS 43 1_555 A CYS 97 A SG CYS 97 1_555 disulf 2.040 A CYS 49 A SG CYS 49 1_555 A CYS 124 A SG CYS 124 1_555 disulf 2.015 A CYS 50 A SG CYS 50 1_555 A CYS 90 A SG CYS 90 1_555 disulf 2.030 A CYS 59 A SG CYS 59 1_555 A CYS 83 A SG CYS 83 1_555 disulf 2.033 A CYS 77 A SG CYS 77 1_555 A CYS 88 A SG CYS 88 1_555 metalc 2.396 A CA 198 B CA CA 1_555 A HIS 27 A O HIS 27 1_555 metalc 2.556 A CA 198 B CA CA 1_555 A ASP 48 A OD1 ASP 48 1_555 metalc 2.507 A CA 198 B CA CA 1_555 A GLY 31 A O GLY 31 1_555 metalc 2.587 A CA 198 B CA CA 1_555 A ASP 48 A OD2 ASP 48 1_555 metalc 2.631 A CA 198 B CA CA 1_555 A I3N 1201 D O14 I3N 1_555 metalc 2.450 A CA 198 B CA CA 1_555 A GLY 29 A O GLY 29 1_555 metalc 2.464 A CA 199 C CA CA 1_555 A TYR 112 A O TYR 112 1_555 metalc 2.603 A CA 199 C CA CA 1_555 A PHE 23 A O PHE 23 1_555 metalc 2.464 A CA 199 C CA CA 1_555 A ASN 114 A OD1 ASN 114 1_555 metalc 2.706 A CA 199 C CA CA 1_555 A GLY 25 A O GLY 25 1_555 metalc 2.333 A CA 199 C CA CA 1_555 A HOH 210 E O HOH 12_556 HYDROLASE/HYDROLASE INHIBITOR S-PLA2; STRUCTURE-BASED DRUG DESIGN, HYDROLASE/HYDROLASE INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR complex PA2GA_HUMAN UNP 1 P14555 21 144 1DCY 1 124 P14555 A 1 1 124 2 anti-parallel A PHE 68 A PHE 68 A SER 71 A SER 71 A ARG 74 A ARG 74 A CYS 77 A CYS 77 BINDING SITE FOR RESIDUE CA A 198 Software 5 BINDING SITE FOR RESIDUE CA A 199 Software 5 BINDING SITE FOR RESIDUE I3N A 1201 Software 11 A HIS 27 A HIS 27 5 1_555 A GLY 29 A GLY 29 5 1_555 A GLY 31 A GLY 31 5 1_555 A ASP 48 A ASP 48 5 1_555 A I3N 1201 D I3N 5 1_555 A PHE 23 A PHE 23 5 1_555 A GLY 25 A GLY 25 5 1_555 A TYR 112 A TYR 112 5 1_555 A ASN 114 A ASN 114 5 1_555 A HOH 210 E HOH 5 12_556 A LEU 2 A LEU 2 11 1_555 A HIS 6 A HIS 6 11 1_555 A HIS 27 A HIS 27 11 1_555 A CYS 28 A CYS 28 11 1_555 A GLY 29 A GLY 29 11 1_555 A CYS 44 A CYS 44 11 1_555 A HIS 47 A HIS 47 11 1_555 A ASP 48 A ASP 48 11 1_555 A TYR 51 A TYR 51 11 1_555 A LYS 62 A LYS 62 11 1_555 A CA 198 B CA 11 1_555 178 P 61 2 2