1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Mandard, N. Bulet, P. Caille, A. Daffre, S. Vovelle, F. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C6 H15 N4 O2 1 175.209 y ARGININE 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 C2 H5 N O2 75.067 y GLYCINE 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 H2 N 16.023 AMINO GROUP non-polymer C5 H7 N O3 129.114 n PYROGLUTAMIC ACID 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 IX Eur.J.Biochem. EJBCAI 0262 0014-2956 269 1190 1198 10.1046/j.0014-2956.2002.02760.x 11856345 The solution structure of gomesin, an antimicrobial cysteine-rich peptide from the spider. 2002 US J.Biol.Chem. JBCHA3 0071 0021-9258 275 33464 33470 10.1074/jbc.M001491200 Isolation and characterization of gomesin, an 18-residue cysteine-rich defense peptide from the spider Acanthoscurria gomesiana hemocytes with sequence similarities to horseshoe crab antimicrobial peptides of the tachyplesin family 2000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 2279.762 GOMESIN 1 syn polymer no yes (PCA)CRRLCYKQRCVTYCRGR(NH2) QCRRLCYKQRCVTYCRGRX A polypeptide(L) n n n n n n n n n n n n n n n n n n n entity_poly pdbx_entity_src_syn pdbx_struct_assembly pdbx_struct_mod_residue pdbx_struct_oper_list struct_conn struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Database references Derived calculations Polymer sequence Source and taxonomy 1 0 2002-04-10 1 1 2008-04-27 1 2 2011-07-13 2 0 2019-12-25 _entity_poly.pdbx_seq_one_letter_code_can _pdbx_entity_src_syn.details _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.organism_scientific _pdbx_struct_mod_residue.parent_comp_id _struct_conn.pdbx_leaving_atom_flag RCSB Y PDBJ 2001-11-22 REL 115339 mygalomorphae spider Acanthoscurria gomesiana sample This solution structure was determined using standard 2D homonuclear techniques. structures with acceptable covalent geometry,structures with favorable non-bond energy,structures with the least restraint violations,structures with the lowest energy 200 20 DQF-COSY 2D NOESY clean-TOCSY 2D NOESY Clean-TOCSY 2D NOESY Clean-TOCSY 3.5 ambient 278 K 3.5 ambient 285 K The 20 structures are based on a total of 289 restraints, 279 are NOE-derived distance constraints, 4 are used for hydrogen bonds modelling and 6 (i.e. 2x3) are used for disulfide bridge modelling. No dihedral angle restraints used. distance geometry simulated annealing energy minimization 3.3mM Gomesin 90% H2O/10% D2O 3.3mM Gomesin 100% D2O Guentert structure solution DYANA 1.5 Brunger refinement X-PLOR 3.1 Varian, Inc. processing VNMR 6.1 600 Varian INOVA PCA 1 n 1 PCA 1 A CYS 2 n 2 CYS 2 A ARG 3 n 3 ARG 3 A ARG 4 n 4 ARG 4 A LEU 5 n 5 LEU 5 A CYS 6 n 6 CYS 6 A TYR 7 n 7 TYR 7 A LYS 8 n 8 LYS 8 A GLN 9 n 9 GLN 9 A ARG 10 n 10 ARG 10 A CYS 11 n 11 CYS 11 A VAL 12 n 12 VAL 12 A THR 13 n 13 THR 13 A TYR 14 n 14 TYR 14 A CYS 15 n 15 CYS 15 A ARG 16 n 16 ARG 16 A GLY 17 n 17 GLY 17 A ARG 18 n 18 ARG 18 A NH2 19 n 19 NH2 19 A author_defined_assembly 1 monomeric A PCA 1 PYROGLUTAMIC ACID A PCA 1 GLN 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 A N LEU 5 A N LEU 5 A O VAL 12 A O VAL 12 1 A ARG 3 0.233 SIDE CHAIN 1 A ARG 4 0.314 SIDE CHAIN 1 A ARG 10 0.317 SIDE CHAIN 1 A ARG 16 0.311 SIDE CHAIN 1 A ARG 18 0.301 SIDE CHAIN 2 A ARG 3 0.301 SIDE CHAIN 2 A ARG 4 0.279 SIDE CHAIN 2 A ARG 10 0.314 SIDE CHAIN 2 A ARG 16 0.302 SIDE CHAIN 2 A ARG 18 0.156 SIDE CHAIN 3 A ARG 3 0.305 SIDE CHAIN 3 A ARG 4 0.286 SIDE CHAIN 3 A ARG 10 0.308 SIDE CHAIN 3 A ARG 16 0.239 SIDE CHAIN 3 A ARG 18 0.317 SIDE CHAIN 4 A ARG 3 0.308 SIDE CHAIN 4 A ARG 4 0.292 SIDE CHAIN 4 A ARG 10 0.308 SIDE CHAIN 4 A ARG 16 0.322 SIDE CHAIN 4 A ARG 18 0.318 SIDE CHAIN 5 A ARG 3 0.269 SIDE CHAIN 5 A ARG 4 0.313 SIDE CHAIN 5 A ARG 10 0.107 SIDE CHAIN 5 A ARG 16 0.309 SIDE CHAIN 5 A ARG 18 0.317 SIDE CHAIN 6 A ARG 3 0.331 SIDE CHAIN 6 A ARG 4 0.304 SIDE CHAIN 6 A ARG 10 0.283 SIDE CHAIN 6 A ARG 16 0.253 SIDE CHAIN 6 A ARG 18 0.305 SIDE CHAIN 7 A ARG 3 0.301 SIDE CHAIN 7 A ARG 4 0.304 SIDE CHAIN 7 A ARG 10 0.208 SIDE CHAIN 7 A ARG 16 0.269 SIDE CHAIN 7 A ARG 18 0.305 SIDE CHAIN 8 A ARG 3 0.122 SIDE CHAIN 8 A ARG 4 0.293 SIDE CHAIN 8 A ARG 10 0.205 SIDE CHAIN 8 A ARG 16 0.314 SIDE CHAIN 8 A ARG 18 0.302 SIDE CHAIN 9 A ARG 3 0.206 SIDE CHAIN 9 A ARG 4 0.313 SIDE CHAIN 9 A ARG 16 0.237 SIDE CHAIN 9 A ARG 18 0.295 SIDE CHAIN 10 A ARG 3 0.249 SIDE CHAIN 10 A ARG 4 0.312 SIDE CHAIN 10 A ARG 10 0.320 SIDE CHAIN 10 A ARG 16 0.322 SIDE CHAIN 10 A ARG 18 0.279 SIDE CHAIN 11 A ARG 3 0.284 SIDE CHAIN 11 A ARG 4 0.312 SIDE CHAIN 11 A ARG 10 0.303 SIDE CHAIN 11 A ARG 16 0.306 SIDE CHAIN 11 A ARG 18 0.309 SIDE CHAIN 12 A ARG 3 0.136 SIDE CHAIN 12 A ARG 4 0.278 SIDE CHAIN 12 A ARG 10 0.313 SIDE CHAIN 12 A ARG 16 0.312 SIDE CHAIN 12 A ARG 18 0.315 SIDE CHAIN 13 A ARG 3 0.088 SIDE CHAIN 13 A ARG 4 0.294 SIDE CHAIN 13 A ARG 10 0.316 SIDE CHAIN 13 A ARG 16 0.165 SIDE CHAIN 13 A ARG 18 0.312 SIDE CHAIN 14 A ARG 3 0.281 SIDE CHAIN 14 A ARG 4 0.314 SIDE CHAIN 14 A ARG 10 0.309 SIDE CHAIN 14 A ARG 16 0.287 SIDE CHAIN 14 A ARG 18 0.310 SIDE CHAIN 15 A ARG 3 0.328 SIDE CHAIN 15 A ARG 4 0.298 SIDE CHAIN 15 A ARG 10 0.295 SIDE CHAIN 15 A ARG 16 0.316 SIDE CHAIN 15 A ARG 18 0.321 SIDE CHAIN 16 A ARG 3 0.316 SIDE CHAIN 16 A ARG 4 0.300 SIDE CHAIN 16 A ARG 10 0.304 SIDE CHAIN 16 A ARG 16 0.311 SIDE CHAIN 16 A ARG 18 0.309 SIDE CHAIN 17 A ARG 3 0.321 SIDE CHAIN 17 A ARG 4 0.282 SIDE CHAIN 17 A ARG 10 0.159 SIDE CHAIN 17 A ARG 16 0.317 SIDE CHAIN 17 A ARG 18 0.309 SIDE CHAIN 18 A ARG 3 0.075 SIDE CHAIN 18 A ARG 4 0.309 SIDE CHAIN 18 A ARG 10 0.291 SIDE CHAIN 18 A ARG 16 0.314 SIDE CHAIN 18 A ARG 18 0.310 SIDE CHAIN 19 A ARG 3 0.312 SIDE CHAIN 19 A ARG 4 0.266 SIDE CHAIN 19 A ARG 10 0.141 SIDE CHAIN 19 A ARG 16 0.189 SIDE CHAIN 19 A ARG 18 0.312 SIDE CHAIN 20 A ARG 3 0.322 SIDE CHAIN 20 A ARG 4 0.290 SIDE CHAIN 20 A ARG 10 0.312 SIDE CHAIN 20 A ARG 16 0.311 SIDE CHAIN 20 A ARG 18 0.316 SIDE CHAIN 2 -6.19 0.50 120.30 114.11 A A A NE CZ NH2 ARG ARG ARG 3 3 3 N 2 6.95 1.10 119.40 126.35 A A A NH1 CZ NH2 ARG ARG ARG 4 4 4 N 2 -4.87 0.50 120.30 115.43 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 2 -4.32 0.50 120.30 115.98 A A A NE CZ NH1 ARG ARG ARG 10 10 10 N 2 -3.39 0.50 120.30 116.91 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 3 -5.56 0.50 120.30 114.74 A A A NE CZ NH2 ARG ARG ARG 3 3 3 N 3 6.69 1.10 119.40 126.09 A A A NH1 CZ NH2 ARG ARG ARG 4 4 4 N 3 -4.74 0.50 120.30 115.56 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 3 -4.43 0.60 121.00 116.57 A A A CB CG CD2 TYR TYR TYR 7 7 7 N 3 4.16 0.60 121.00 125.16 A A A CB CG CD1 TYR TYR TYR 7 7 7 N 3 -4.73 0.50 120.30 115.57 A A A NE CZ NH1 ARG ARG ARG 10 10 10 N 3 4.06 0.60 121.00 125.06 A A A CB CG CD1 TYR TYR TYR 14 14 14 N 3 -3.59 0.50 120.30 116.71 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 4 -3.96 0.50 120.30 116.34 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 4 -4.01 0.50 120.30 116.29 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 5 -5.35 0.50 120.30 114.95 A A A NE CZ NH2 ARG ARG ARG 3 3 3 N 6 -3.63 0.50 120.30 116.67 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 6 -4.03 0.50 120.30 116.27 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 6 -4.66 0.50 120.30 115.64 A A A NE CZ NH1 ARG ARG ARG 10 10 10 N 6 -3.50 0.50 120.30 116.80 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 6 -3.34 0.50 120.30 116.96 A A A NE CZ NH2 ARG ARG ARG 18 18 18 N 7 -4.01 0.50 120.30 116.29 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 7 -3.27 0.50 120.30 117.03 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 8 -4.36 0.50 120.30 115.94 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 8 -4.52 0.50 120.30 115.78 A A A NE CZ NH1 ARG ARG ARG 10 10 10 N 9 -3.11 0.50 120.30 117.19 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 9 -3.44 0.50 120.30 116.86 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 9 -3.83 0.50 120.30 116.47 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 9 -3.31 0.50 120.30 116.99 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 10 -4.17 0.50 120.30 116.13 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 10 -3.70 0.50 120.30 116.60 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 10 -3.51 0.50 120.30 116.79 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 11 -3.24 0.50 120.30 117.06 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 11 -3.24 0.50 120.30 117.06 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 11 -3.41 0.50 120.30 116.89 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 12 -4.22 0.50 120.30 116.08 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 13 -3.38 0.50 120.30 116.92 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 13 -4.16 0.50 120.30 116.14 A A A NE CZ NH2 ARG ARG ARG 10 10 10 N 13 -3.34 0.50 120.30 116.96 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 14 -4.52 0.50 120.30 115.78 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 14 -3.06 0.50 120.30 117.24 A A A NE CZ NH2 ARG ARG ARG 18 18 18 N 15 -4.67 0.50 120.30 115.63 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 15 -3.32 0.50 120.30 116.98 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 15 -3.08 0.50 120.30 117.22 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 16 -3.22 0.50 120.30 117.08 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 16 -4.67 0.50 120.30 115.63 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 16 -3.30 0.50 120.30 117.00 A A A NE CZ NH2 ARG ARG ARG 10 10 10 N 16 -3.20 0.50 120.30 117.10 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 17 7.16 1.10 114.20 121.36 A A A CA CB SG CYS CYS CYS 2 2 2 N 17 -3.21 0.50 120.30 117.09 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 17 -3.03 0.50 120.30 117.27 A A A NE CZ NH1 ARG ARG ARG 16 16 16 N 17 -3.01 0.50 120.30 117.29 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 18 -3.13 0.50 120.30 117.17 A A A NE CZ NH2 ARG ARG ARG 3 3 3 N 18 -3.49 0.50 120.30 116.81 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 18 -3.81 0.50 120.30 116.49 A A A NE CZ NH1 ARG ARG ARG 10 10 10 N 18 -3.05 0.50 120.30 117.25 A A A NE CZ NH1 ARG ARG ARG 18 18 18 N 19 -3.94 0.50 120.30 116.36 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 20 -3.76 0.50 120.30 116.54 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 20 -3.32 0.50 120.30 116.98 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 20 -3.44 0.50 120.30 116.86 A A A NE CZ NH2 ARG ARG ARG 10 10 10 N 20 -3.13 0.50 120.30 117.17 A A A NE CZ NH2 ARG ARG ARG 16 16 16 N 1 A LYS 8 25.14 25.59 1 A GLN 9 -175.34 -47.03 2 A LYS 8 39.93 18.82 2 A GLN 9 -170.27 -47.65 3 A TYR 7 -102.15 57.40 3 A LYS 8 67.98 -47.45 4 A LYS 8 41.03 11.24 4 A GLN 9 -158.35 -51.97 5 A LYS 8 36.87 13.98 5 A GLN 9 -157.07 -53.73 6 A TYR 7 -101.91 78.32 6 A LYS 8 18.68 34.98 6 A GLN 9 178.04 -40.10 7 A TYR 7 -102.98 79.24 7 A LYS 8 16.41 40.52 7 A GLN 9 172.19 -39.32 8 A LYS 8 39.54 9.77 8 A GLN 9 -144.81 -52.84 9 A LYS 8 43.29 14.57 9 A GLN 9 -161.58 -55.49 10 A TYR 7 -101.30 65.28 10 A LYS 8 38.68 12.85 10 A GLN 9 -149.59 -51.83 11 A LYS 8 21.99 73.76 11 A GLN 9 129.05 -55.12 12 A TYR 7 -106.78 61.76 12 A LYS 8 30.43 42.75 12 A GLN 9 -176.64 -64.12 13 A TYR 7 -101.06 74.47 13 A LYS 8 41.81 23.62 13 A GLN 9 -173.77 -50.62 14 A LYS 8 0.72 76.88 14 A GLN 9 148.62 -46.87 15 A LYS 8 37.66 7.58 15 A GLN 9 -157.30 -45.98 16 A LYS 8 68.10 -67.66 16 A GLN 9 -141.49 -10.28 17 A LYS 8 17.50 44.73 17 A GLN 9 170.55 -53.06 18 A LYS 8 35.11 13.92 18 A GLN 9 -168.38 -47.53 19 A LYS 8 32.04 51.03 19 A GLN 9 169.81 -62.55 20 A LYS 8 69.25 -62.22 GOMESIN Solution structure of the antimicrobial 18-residue gomesin 1 N N disulf 2.022 A CYS 2 A SG CYS 2 1_555 A CYS 15 A SG CYS 15 1_555 disulf 2.024 A CYS 6 A SG CYS 6 1_555 A CYS 11 A SG CYS 11 1_555 covale 1.286 both A PCA 1 A C PCA 1 1_555 A CYS 2 A N CYS 2 1_555 covale 1.298 both A ARG 18 A C ARG 18 1_555 A NH2 19 A N NH2 19 1_555 ANTIBIOTIC hairpin-like, beta-sheet, disulfide bridges, ANTIBIOTIC GOME_ACAGO UNP 1 1 P82358 QCRRLCYKQRCVTYCRGR 1 18 1KFP 1 18 P82358 A 1 1 18 2 anti-parallel A CYS 2 A CYS 2 A TYR 7 A TYR 7 A ARG 10 A ARG 10 A CYS 15 A CYS 15 BINDING SITE FOR RESIDUE NH2 A 19 Software 1 A ARG 18 A ARG 18 1 1_555