0.024201 0.000000 0.000000 0.000000 0.024201 0.000000 0.000000 0.000000 0.018694 0.00000 0.00000 0.00000 3.54356 2.42580 25.62398 1.50364 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 23.42449 5.47274 2.18335 24.96234 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.01032 2.96436 19.97189 1.75589 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.49882 3.47563 15.80542 1.70748 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 0000-0002-9386-841X Dang, V.T. 0000-0003-4137-6453 Nguyen, A.I. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.000 90.000 90.000 41.320 41.320 53.493 91330.867 C6 H13 N O2 131.173 6-AMINOHEXANOIC ACID AMINOCAPROIC ACID peptide linking Cu 2 63.546 COPPER (II) ION non-polymer C H2 O2 46.025 FORMIC ACID non-polymer C5 H10 N2 O3 146.144 y GLUTAMINE L-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 H12 N2 O2 132.161 n L-ornithine L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking N 1 N C N 2 N O N 3 N O N 4 N C N 5 N C N 6 N C N 7 N C N 8 N C N 9 N N N 10 N H N 11 N H N 12 N H N 13 N H N 14 N H N 15 N H N 16 N H N 17 N H N 18 N H N 19 N H N 20 N H N 21 N H N 22 N H N 23 N CU N 24 N C N 25 N O N 26 N O N 27 N H N 28 N H N 29 N N N 30 S C N 31 N C N 32 N O N 33 N C N 34 N C N 35 N C N 36 N O N 37 N N N 38 N O N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H N 44 N H N 45 N H N 46 N H N 47 N H N 48 N H N 49 N N N 50 S C N 51 N C N 52 N O N 53 N C Y 54 N C Y 55 N N Y 56 N C Y 57 N C Y 58 N N N 59 N O N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N O N 71 N H N 72 N H N 73 N N N 74 S C N 75 N C N 76 N O N 77 S C N 78 N C N 79 N C N 80 N C N 81 N O N 82 N H N 83 N H 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 H N 95 N N N 96 S C N 97 N C N 98 N O N 99 N C N 100 N C N 101 N C N 102 N C 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 H N 114 N H N 115 N H N 116 N H N 117 N N N 118 S C N 119 N C N 120 N O N 121 N C N 122 N C N 123 N C N 124 N C N 125 N N N 126 N O N 127 N H N 128 N H N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H 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 N N 143 S C N 144 N C N 145 N C N 146 N C N 147 N N N 148 N C N 149 N O N 150 N O N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H 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 N N 164 S C N 165 N C N 166 N O N 167 N C Y 168 N C Y 169 N C Y 170 N C Y 171 N C Y 172 N C Y 173 N C N 174 N O N 175 N H N 176 N H N 177 N H 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 N N 187 S C N 188 N C N 189 N O N 190 N C N 191 N O N 192 N O N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N N N 201 S C N 202 N C N 203 N O N 204 N C Y 205 N C Y 206 N C Y 207 N C Y 208 N N Y 209 N C Y 210 N C Y 211 N C Y 212 N C Y 213 N C N 214 N O N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 1 N doub N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N sing 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 sing N 20 N sing N 21 N sing N 22 N doub 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 doub N 33 N sing 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 doub N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N doub N 52 N sing N 53 N sing N 54 N sing N 55 N sing Y 56 N sing Y 57 N doub Y 58 N doub N 59 N sing Y 60 N sing N 61 N sing Y 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing 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 doub N 75 N sing N 76 N sing 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 sing 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 sing 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 sing N 114 N sing N 115 N sing N 116 N doub N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 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 sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N doub 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 doub N 161 N sing N 162 N sing N 163 N sing N 164 N sing Y 165 N doub Y 166 N sing Y 167 N sing N 168 N sing Y 169 N doub N 170 N sing Y 171 N doub N 172 N sing Y 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 doub N 184 N sing N 185 N sing N 186 N sing N 187 N sing 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 doub N 197 N sing N 198 N sing N 199 N sing N 200 N sing Y 201 N doub Y 202 N sing Y 203 N sing N 204 N sing Y 205 N doub Y 206 N sing Y 207 N sing N 208 N sing Y 209 N sing Y 210 N doub N 211 N sing Y 212 N doub N 213 N sing Y 214 N sing N 215 N sing N 216 N sing N 217 N sing UK Dalton Trans 1477-9234 55 5877 5881 10.1039/d6dt00494f 41969027 A bis-macrocylic peptide ligand mimicking the beta-sandwich active site of multicopper oxidases. 2026 0000-0003-3307-2556 0000-0003-4137-6453 10.2210/pdb9ppu/pdb pdb_00009ppu 100 Nitrogen cryo 1 N PIXEL 2024-09-03 DECTRIS EIGER X 16M SINGLE WAVELENGTH M x-ray 1 1.362460 1.0 BioMAX MAX IV 1.362460 SYNCHROTRON MAX IV BEAMLINE BioMAX 1589.822 De novo designed metallopeptide 1 syn polymer 1516.770 De novo designed metallopeptide 1 syn polymer 63.546 COPPER (II) ION 2 syn non-polymer 46.025 FORMIC ACID 4 syn non-polymer 131.173 6-AMINOHEXANOIC ACID 1 syn non-polymer 18.015 water 41 nat water no yes (ORN)KIHWH(ORN)QFHSH AKIHWHAQFHSH B polypeptide(L) no yes (ORN)QLHSH(ORN)KFHLH AQLHSHAKFHLH 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 1 1.85 33.45 VAPOR DIFFUSION, SITTING DROP 7.0 6.0 M ammonium nitrate, 0.1 M BIS TRIS propane pH 7.0 293 Room temperature citation repository Initial release Database references 1 0 2026-04-22 1 1 2026-04-29 _citation.journal_volume _citation.page_first _citation.page_last United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) 1R35GM154793-01 andyn@uic.edu 0000-0003-4137-6453 Andy Nguyen I principal investigator/group leader N RCSB Y RCSB 2025-07-21 REL REL CU CU SUBJECT OF INVESTIGATION ACA ACA SUBJECT OF INVESTIGATION ORN ORN SUBJECT OF INVESTIGATION CU COPPER (II) ION FMT FORMIC ACID ACA 6-AMINOHEXANOIC ACID HOH water 32630 synthetic construct sample 1 12 32630 synthetic construct sample 1 12 Y Y B ORN 5 Named protein modification A ORN 1 ORN 1 1_555 Ornithine B ORN 11 Named protein modification A ORN 7 ORN 1 1_555 Ornithine A ORN 11 Named protein modification B ORN 1 ORN 1 1_555 Ornithine A ORN 5 Named protein modification B ORN 7 ORN 1 1_555 Ornithine B ACA 103 Isopeptide bond N E ACA B GLN 12 CD A GLN 8 1_555 1_555 None B ACA 103 Isopeptide bond C E ACA A LYS 6 NZ B LYS 8 1_555 1_555 None B HIS 10 Non-standard linkage C A HIS 6 B ORN 11 NE A ORN 7 1_555 1_555 None B HIS 4 Non-standard linkage C A HIS 12 B ORN 5 NE A ORN 1 1_555 1_555 None A HIS 4 Non-standard linkage C B HIS 6 A ORN 5 NE B ORN 7 1_555 1_555 None A HIS 10 Non-standard linkage C B HIS 12 A ORN 11 NE B ORN 1 1_555 1_555 None CU 1 3 CU CU 101 B FMT 3 4 FMT FMT 102 B ACA 1 5 ACA ACA 103 B CU 2 3 CU CU 101 A FMT 1 4 FMT FMT 102 A FMT 2 4 FMT FMT 103 A FMT 4 4 FMT FMT 104 A HOH 31 6 HOH HOH 201 B HOH 18 6 HOH HOH 202 B HOH 17 6 HOH HOH 203 B HOH 2 6 HOH HOH 204 B HOH 1 6 HOH HOH 205 B HOH 3 6 HOH HOH 206 B HOH 40 6 HOH HOH 207 B HOH 5 6 HOH HOH 208 B HOH 6 6 HOH HOH 209 B HOH 24 6 HOH HOH 210 B HOH 34 6 HOH HOH 211 B HOH 19 6 HOH HOH 212 B HOH 33 6 HOH HOH 213 B HOH 20 6 HOH HOH 214 B HOH 27 6 HOH HOH 215 B HOH 32 6 HOH HOH 216 B HOH 12 6 HOH HOH 217 B HOH 16 6 HOH HOH 218 B HOH 30 6 HOH HOH 219 B HOH 8 6 HOH HOH 220 B HOH 37 6 HOH HOH 221 B HOH 35 6 HOH HOH 222 B HOH 36 6 HOH HOH 223 B HOH 41 6 HOH HOH 224 B HOH 28 6 HOH HOH 225 B HOH 21 6 HOH HOH 226 B HOH 23 6 HOH HOH 201 A HOH 13 6 HOH HOH 202 A HOH 9 6 HOH HOH 203 A HOH 22 6 HOH HOH 204 A HOH 4 6 HOH HOH 205 A HOH 10 6 HOH HOH 206 A HOH 11 6 HOH HOH 207 A HOH 14 6 HOH HOH 208 A HOH 25 6 HOH HOH 209 A HOH 7 6 HOH HOH 210 A HOH 38 6 HOH HOH 211 A HOH 29 6 HOH HOH 212 A HOH 15 6 HOH HOH 213 A HOH 26 6 HOH HOH 214 A HOH 39 6 HOH HOH 215 A ORN 5 n 1 ORN 5 B LYS 6 n 2 LYS 6 B ILE 7 n 3 ILE 7 B HIS 8 n 4 HIS 8 B TRP 9 n 5 TRP 9 B HIS 10 n 6 HIS 10 B ORN 11 n 7 ORN 11 B GLN 12 n 8 GLN 12 B PHE 1 n 9 PHE 1 B HIS 2 n 10 HIS 2 B SER 3 n 11 SER 3 B HIS 4 n 12 HIS 4 B ORN 11 n 1 ORN 11 A GLN 12 n 2 GLN 12 A LEU 1 n 3 LEU 1 A HIS 2 n 4 HIS 2 A SER 3 n 5 SER 3 A HIS 4 n 6 HIS 4 A ORN 5 n 7 ORN 5 A LYS 6 n 8 LYS 6 A PHE 7 n 9 PHE 7 A HIS 8 n 10 HIS 8 A LEU 9 n 11 LEU 9 A HIS 10 n 12 HIS 10 A author_and_software_defined_assembly PISA 2 dimeric DOSY results show diffusion constant of 1.21 which corresponds to a mass 6x larger than the monomer. Mass and diffusion was compared to publish internal standard. NMR relaxation study 1510 -22 2310 B HIS 2 A NE2 HIS 10 1_555 A CU 101 F CU CU 1_555 A HIS 4 B NE2 HIS 6 1_555 93.3 B HIS 2 A NE2 HIS 10 1_555 A CU 101 F CU CU 1_555 A HIS 8 B ND1 HIS 10 1_555 171.0 A HIS 4 B NE2 HIS 6 1_555 A CU 101 F CU CU 1_555 A HIS 8 B ND1 HIS 10 1_555 85.4 B HIS 2 A NE2 HIS 10 1_555 A CU 101 F CU CU 1_555 A HIS 10 B NE2 HIS 12 1_555 95.2 A HIS 4 B NE2 HIS 6 1_555 A CU 101 F CU CU 1_555 A HIS 10 B NE2 HIS 12 1_555 158.4 A HIS 8 B ND1 HIS 10 1_555 A CU 101 F CU CU 1_555 A HIS 10 B NE2 HIS 12 1_555 89.2 B HIS 2 A NE2 HIS 10 1_555 A CU 101 F CU CU 1_555 A FMT 103 H O2 FMT 1_555 88.8 A HIS 4 B NE2 HIS 6 1_555 A CU 101 F CU CU 1_555 A FMT 103 H O2 FMT 1_555 97.5 A HIS 8 B ND1 HIS 10 1_555 A CU 101 F CU CU 1_555 A FMT 103 H O2 FMT 1_555 82.6 A HIS 10 B NE2 HIS 12 1_555 A CU 101 F CU CU 1_555 A FMT 103 H O2 FMT 1_555 102.5 B HIS 4 A NE2 HIS 12 1_555 B CU 101 C CU CU 1_555 B HIS 8 A ND1 HIS 4 1_555 89.1 B HIS 4 A NE2 HIS 12 1_555 B CU 101 C CU CU 1_555 B HIS 10 A NE2 HIS 6 1_555 164.8 B HIS 8 A ND1 HIS 4 1_555 B CU 101 C CU CU 1_555 B HIS 10 A NE2 HIS 6 1_555 90.0 B HIS 4 A NE2 HIS 12 1_555 B CU 101 C CU CU 1_555 A HIS 2 B NE2 HIS 4 1_555 92.7 B HIS 8 A ND1 HIS 4 1_555 B CU 101 C CU CU 1_555 A HIS 2 B NE2 HIS 4 1_555 170.3 B HIS 10 A NE2 HIS 6 1_555 B CU 101 C CU CU 1_555 A HIS 2 B NE2 HIS 4 1_555 90.7 B HIS 4 A NE2 HIS 12 1_555 B CU 101 C CU CU 1_555 A HOH 206 K O HOH 1_555 101.4 B HIS 8 A ND1 HIS 4 1_555 B CU 101 C CU CU 1_555 A HOH 206 K O HOH 1_555 87.1 B HIS 10 A NE2 HIS 6 1_555 B CU 101 C CU CU 1_555 A HOH 206 K O HOH 1_555 93.7 A HIS 2 B NE2 HIS 4 1_555 B CU 101 C CU CU 1_555 A HOH 206 K O HOH 1_555 83.1 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 B N LYS 6 A N LYS 2 B O HIS 4 A O HIS 12 A N HIS 2 B N HIS 4 A O HIS 8 B O HIS 10 1 B B NE O ORN HIS 5 4 2.13 1 B B O O HOH HOH 207 224 2.13 19.63 0.1909 0.1555 0.1591 1.49 32.70 1425 12636 14061 10.13 97.22 0.1428 1 FREE R-VALUE 1.40 SAD 17.9324 0.9000 1.1100 GeoStd + Monomer Library + CDL v1.2 FLAT BULK SOLVENT MODEL 1.49 32.70 41 282 22 0 219 0.0089 249 1.3462 317 0.0966 28 0.0049 34 13.4163 80 0.2130 0.2091 1.54 110 994 76.51 0.1989 0.1509 1.61 143 1262 96.83 0.1456 0.1434 1.68 144 1283 99.93 0.1749 0.1476 1.77 143 1323 100.00 0.1675 0.1452 1.88 149 1306 100.00 0.1824 0.1262 2.02 148 1279 100.00 0.1634 0.1464 2.23 146 1299 100.00 0.2136 0.1777 2.55 145 1307 99.79 0.1856 0.1649 3.21 151 1295 99.86 0.2093 0.1536 32.70 146 1288 99.31 14.50 1.49 32.70 9PPU 148327 0.998 1 0.1256 0.0272 0.1286 1 19.31 18.9 97.98 0.3702 1.49 1.543 3.06 3336 0.905 0.975 0.1664 0.4084 1 5.3 80.41 refinement PHENIX 1.20.1_4487 data reduction XDS data scaling XDS phasing PHENIX 1.20.1_4487 92 tetragonal P 41 21 2 P 4abw 2nw x,y,z -y+1/2,x+1/2,z+1/4 y+1/2,-x+1/2,z+3/4 x+1/2,-y+1/2,-z+3/4 -x+1/2,y+1/2,-z+1/4 -x,-y,z+1/2 y,x,-z -y,-x,-z+1/2 N Beta-sandwich forming metallopeptide 1 N N 2 N N 3 N N 4 N N 5 N N 3 N N 4 N N 4 N N 4 N N 6 N N 6 N N covale 1.429 both B HIS 4 A C HIS 12 1_555 B ORN 5 A NE ORN 1 1_555 covale 1.330 both B ORN 5 A C ORN 1 1_555 B LYS 6 A N LYS 2 1_555 covale 1.428 both B HIS 10 A C HIS 6 1_555 B ORN 11 A NE ORN 7 1_555 covale 1.331 both B ORN 11 A C ORN 7 1_555 B GLN 12 A N GLN 8 1_555 covale 1.428 one B GLN 12 A CD GLN 8 1_555 B ACA 103 E N ACA 1_555 covale 1.430 one B ACA 103 E C ACA 1_555 A LYS 6 B NZ LYS 8 1_555 covale 1.429 both A HIS 4 B C HIS 6 1_555 A ORN 5 B NE ORN 7 1_555 covale 1.331 both A ORN 5 B C ORN 7 1_555 A LYS 6 B N LYS 8 1_555 covale 1.428 both A HIS 10 B C HIS 12 1_555 A ORN 11 B NE ORN 1 1_555 covale 1.335 both A ORN 11 B C ORN 1 1_555 A GLN 12 B N GLN 2 1_555 metalc 2.129 B HIS 2 A NE2 HIS 10 1_555 A CU 101 F CU CU 1_555 metalc 1.990 B HIS 4 A NE2 HIS 12 1_555 B CU 101 C CU CU 1_555 metalc 2.260 B HIS 8 A ND1 HIS 4 1_555 B CU 101 C CU CU 1_555 metalc 2.080 B HIS 10 A NE2 HIS 6 1_555 B CU 101 C CU CU 1_555 metalc 2.208 B CU 101 C CU CU 1_555 A HIS 2 B NE2 HIS 4 1_555 metalc 2.384 B CU 101 C CU CU 1_555 A HOH 206 K O HOH 1_555 metalc 2.027 A HIS 4 B NE2 HIS 6 1_555 A CU 101 F CU CU 1_555 metalc 2.367 A HIS 8 B ND1 HIS 10 1_555 A CU 101 F CU CU 1_555 metalc 2.032 A HIS 10 B NE2 HIS 12 1_555 A CU 101 F CU CU 1_555 metalc 2.477 A CU 101 F CU CU 1_555 A FMT 103 H O2 FMT 1_555 DE NOVO PROTEIN Beta-sandwich, Copper, metallopeptide, DE NOVO PROTEIN 9PPU PDB 1 1 9PPU 9PPU PDB 2 1 9PPU 5 4 9PPU 5 4 9PPU B 1 1 12 11 10 9PPU 11 10 9PPU A 2 1 12 2 2 anti-parallel anti-parallel B LYS 6 A LYS 2 B TRP 9 A TRP 5 B PHE 1 A PHE 9 B HIS 4 A HIS 12 A GLN 12 B GLN 2 A SER 3 B SER 5 A PHE 7 B PHE 9 A HIS 10 B HIS 12 92 P 41 21 2 P 4abw 2nw