8.60202 0.38321 0.19541 -3.44539 A N LEU 1 ATOM A N LEU 1 1 1.000 1 N 6.60660 0.20616 -0.49868 -2.14361 A CA LEU 1 ATOM A CA LEU 1 1 1.000 1 C 5.37775 0.94551 0.30236 -1.05887 A C LEU 1 ATOM A C LEU 1 1 1.000 1 C 4.85309 2.15189 0.50962 -1.11363 A O LEU 1 ATOM A O LEU 1 1 1.000 1 O 8.34007 0.70453 -1.93256 -2.25659 A CB LEU 1 ATOM A CB LEU 1 1 1.000 1 C 16.61737 0.14593 -2.94086 -1.26915 A CG LEU 1 ATOM A CG LEU 1 1 1.000 1 C 18.61049 0.54954 -4.33358 -1.70638 A CD1 LEU 1 ATOM A CD1 LEU 1 1 1.000 1 C 17.25893 0.70601 -2.66381 0.06036 A CD2 LEU 1 ATOM A CD2 LEU 1 1 1.000 1 C 10.32735 0.81493 -0.33967 -4.01056 A H1 LEU 1 ATOM A H1 LEU 1 1 1.000 1 H 10.32735 -0.41424 0.40157 -3.78252 A H2 LEU 1 ATOM A H2 LEU 1 1 1.000 1 H 10.32735 0.85500 0.94005 -3.32279 A H3 LEU 1 ATOM A H3 LEU 1 1 1.000 1 H 7.93285 -0.72649 -0.55824 -1.88377 A HA LEU 1 ATOM A HA LEU 1 1 1.000 1 H 10.01301 0.48405 -2.25527 -3.14436 A HB2 LEU 1 ATOM A HB2 LEU 1 1 1.000 1 H 10.01301 1.66701 -1.92354 -2.13641 A HB3 LEU 1 ATOM A HB3 LEU 1 1 1.000 1 H 19.94577 -0.82162 -2.88400 -1.23038 A HG LEU 1 ATOM A HG LEU 1 1 1.000 1 H 22.33753 0.20014 -4.97775 -1.07088 A HD11 LEU 1 ATOM A HD11 LEU 1 1 1.000 1 H 22.33753 0.18331 -4.50641 -2.58780 A HD12 LEU 1 ATOM A HD12 LEU 1 1 1.000 1 H 22.33753 1.51763 -4.38779 -1.73397 A HD13 LEU 1 ATOM A HD13 LEU 1 1 1.000 1 H 20.71565 0.57459 -3.44042 0.62649 A HD21 LEU 1 ATOM A HD21 LEU 1 1 1.000 1 H 20.71565 1.65347 -2.47609 -0.02895 A HD22 LEU 1 ATOM A HD22 LEU 1 1 1.000 1 H 20.71565 0.25117 -1.89624 0.44096 A HD23 LEU 1 ATOM A HD23 LEU 1 1 1.000 1 H 4.28907 0.18198 0.76845 -0.07409 A N TYR 2 ATOM A N TYR 1 2 1.000 1 N 3.08646 0.68515 1.57955 1.02977 A CA TYR 2 ATOM A CA TYR 1 2 1.000 1 C 5.24875 0.06607 1.03308 2.30265 A C TYR 2 ATOM A C TYR 1 2 1.000 1 C 3.56655 -1.16546 0.93600 2.39741 A O TYR 2 ATOM A O TYR 1 2 1.000 1 O 3.34119 0.26533 3.03727 0.86590 A CB TYR 2 ATOM A CB TYR 1 2 1.000 1 C 2.14856 0.94738 4.11554 1.66530 A CG TYR 2 ATOM A CG TYR 1 2 1.000 1 C 2.57985 1.96513 3.84893 2.55323 A CD1 TYR 2 ATOM A CD1 TYR 1 2 1.000 1 C 3.28148 0.55644 5.42692 1.50727 A CD2 TYR 2 ATOM A CD2 TYR 1 2 1.000 1 C 4.14927 2.60203 4.88185 3.24862 A CE1 TYR 2 ATOM A CE1 TYR 1 2 1.000 1 C 2.89787 1.19746 6.46424 2.17190 A CE2 TYR 2 ATOM A CE2 TYR 1 2 1.000 1 C 2.78734 2.19864 6.19231 3.04826 A CZ TYR 2 ATOM A CZ TYR 1 2 1.000 1 C 6.15920 2.87007 7.22154 3.68213 A OH TYR 2 ATOM A OH TYR 1 2 1.000 1 O 5.15182 -0.66389 0.62246 -0.02130 A H TYR 2 ATOM A H TYR 1 2 1.000 1 H 3.70869 1.65301 1.53339 1.07458 A HA TYR 2 ATOM A HA TYR 1 2 1.000 1 H 4.01436 0.39723 3.27052 -0.06635 A HB2 TYR 2 ATOM A HB2 TYR 1 2 1.000 1 H 4.01436 -0.67655 3.09142 1.09138 A HB3 TYR 2 ATOM A HB3 TYR 1 2 1.000 1 H 3.10075 2.23301 2.96932 2.69266 A HD1 TYR 2 ATOM A HD1 TYR 1 2 1.000 1 H 3.94271 -0.15491 5.62262 0.94106 A HD2 TYR 2 ATOM A HD2 TYR 1 2 1.000 1 H 4.98405 3.29212 4.69034 3.84191 A HE1 TYR 2 ATOM A HE1 TYR 1 2 1.000 1 H 3.48238 0.94124 7.34472 2.01691 A HE2 TYR 2 ATOM A HE2 TYR 1 2 1.000 1 H 7.39597 2.41456 7.92643 3.64680 A HH TYR 2 ATOM A HH TYR 1 2 1.000 1 H 3.90442 0.89679 0.67733 3.27219 A N ILE 3 ATOM A N ILE 1 3 1.000 1 N 2.40421 0.43902 0.25661 4.59627 A CA ILE 3 ATOM A CA ILE 1 3 1.000 1 C 3.15324 1.02051 1.20820 5.61990 A C ILE 3 ATOM A C ILE 1 3 1.000 1 C 3.14933 2.24628 1.36915 5.69318 A O ILE 3 ATOM A O ILE 1 3 1.000 1 O 1.79646 0.85642 -1.18381 4.93752 A CB ILE 3 ATOM A CB ILE 1 3 1.000 1 C 5.17748 0.22049 -2.16578 3.95778 A CG1 ILE 3 ATOM A CG1 ILE 1 3 1.000 1 C 3.98227 0.43665 -1.53656 6.38377 A CG2 ILE 3 ATOM A CG2 ILE 1 3 1.000 1 C 7.24622 0.81547 -3.56734 4.04157 A CD1 ILE 3 ATOM A CD1 ILE 1 3 1.000 1 C 4.69024 1.75265 0.67021 3.18818 A H ILE 3 ATOM A H ILE 1 3 1.000 1 H 2.88999 -0.52912 0.31410 4.61365 A HA ILE 3 ATOM A HA ILE 1 3 1.000 1 H 2.16069 1.82161 -1.24662 4.86427 A HB ILE 3 ATOM A HB ILE 1 3 1.000 1 H 6.21791 -0.72786 -2.23206 4.15050 A HG12 ILE 3 ATOM A HG12 ILE 1 3 1.000 1 H 6.21791 0.35336 -1.83859 3.05434 A HG13 ILE 3 ATOM A HG13 ILE 1 3 1.000 1 H 4.78365 0.50061 -2.49672 6.50587 A HG21 ILE 3 ATOM A HG21 ILE 1 3 1.000 1 H 4.78365 1.02950 -1.08402 7.00395 A HG22 ILE 3 ATOM A HG22 ILE 1 3 1.000 1 H 4.78365 -0.47729 -1.24501 6.52734 A HG23 ILE 3 ATOM A HG23 ILE 1 3 1.000 1 H 8.70040 0.59682 -4.05225 3.23042 A HD11 ILE 3 ATOM A HD11 ILE 1 3 1.000 1 H 8.70040 1.77834 -3.49658 4.13528 A HD12 ILE 3 ATOM A HD12 ILE 1 3 1.000 1 H 8.70040 0.44090 -4.02395 4.81105 A HD13 ILE 3 ATOM A HD13 ILE 1 3 1.000 1 H 2.91973 0.16174 1.81702 6.43784 A N GLN 4 ATOM A N GLN 1 4 1.000 1 N 2.06873 0.57524 2.59406 7.60234 A CA GLN 4 ATOM A CA GLN 1 4 1.000 1 C 3.78353 -0.03138 1.90016 8.81600 A C GLN 4 ATOM A C GLN 1 4 1.000 1 C 5.17695 -1.26171 1.83894 8.94844 A O GLN 4 ATOM A O GLN 1 4 1.000 1 O 3.80705 0.13413 4.05347 7.51278 A CB GLN 4 ATOM A CB GLN 1 4 1.000 1 C 2.42742 0.79116 4.74800 6.32127 A CG GLN 4 ATOM A CG GLN 1 4 1.000 1 C 5.23381 0.41895 6.21715 6.18293 A CD GLN 4 ATOM A CD GLN 1 4 1.000 1 C 8.54211 1.27621 7.11792 6.20211 A OE1 GLN 4 ATOM A OE1 GLN 1 4 1.000 1 O 2.91560 -0.84677 6.46434 6.02528 A NE2 GLN 4 ATOM A NE2 GLN 1 4 1.000 1 N 3.50861 -0.69159 1.79237 6.33380 A H GLN 4 ATOM A H GLN 1 4 1.000 1 H 2.48741 1.54270 2.60109 7.67211 A HA GLN 4 ATOM A HA GLN 1 4 1.000 1 H 4.57339 -0.82854 4.09360 7.40074 A HB2 GLN 4 ATOM A HB2 GLN 1 4 1.000 1 H 4.57339 0.39355 4.51957 8.32294 A HB3 GLN 4 ATOM A HB3 GLN 1 4 1.000 1 H 2.91784 1.75448 4.69575 6.42222 A HG2 GLN 4 ATOM A HG2 GLN 1 4 1.000 1 H 2.91784 0.51789 4.29633 5.50750 A HG3 GLN 4 ATOM A HG3 GLN 1 4 1.000 1 H 3.50366 -1.41211 5.81660 6.00480 A HE21 GLN 4 ATOM A HE21 GLN 1 4 1.000 1 H 3.50366 -1.11925 7.27571 5.94141 A HE22 GLN 4 ATOM A HE22 GLN 1 4 1.000 1 H 2.88173 0.82423 1.36483 9.68577 A N ASN 5 ATOM A N ASN 1 5 1.000 1 N 2.53504 0.40385 0.49879 10.77903 A CA ASN 5 ATOM A CA ASN 1 5 1.000 1 C 4.76526 0.84650 1.05522 12.12342 A C ASN 5 ATOM A C ASN 1 5 1.000 1 C 5.54853 2.02798 1.34742 12.34059 A O ASN 5 ATOM A O ASN 1 5 1.000 1 O 4.65647 0.97548 -0.89896 10.59449 A CB ASN 5 ATOM A CB ASN 1 5 1.000 1 C 7.08245 0.53970 -1.83574 11.66740 A CG ASN 5 ATOM A CG ASN 1 5 1.000 1 C 5.77765 -0.58616 -2.29076 11.68706 A OD1 ASN 5 ATOM A OD1 ASN 1 5 1.000 1 O 8.88110 1.44070 -2.10451 12.59785 A ND2 ASN 5 ATOM A ND2 ASN 1 5 1.000 1 N 3.46301 1.67410 1.49388 9.65977 A H ASN 5 ATOM A H ASN 1 5 1.000 1 H 3.04698 -0.56545 0.46315 10.78802 A HA ASN 5 ATOM A HA ASN 1 5 1.000 1 H 5.59269 0.67580 -1.25483 9.74335 A HB2 ASN 5 ATOM A HB2 ASN 1 5 1.000 1 H 5.59269 1.94414 -0.85072 10.61136 A HB3 ASN 5 ATOM A HB3 ASN 1 5 1.000 1 H 10.66225 1.24637 -2.63900 13.24296 A HD21 ASN 5 ATOM A HD21 ASN 1 5 1.000 1 H 10.66225 2.22081 -1.74476 12.55767 A HD22 ASN 5 ATOM A HD22 ASN 1 5 1.000 1 H 3.88663 -0.11919 1.19889 13.02008 A N TYR 6 ATOM A N TYR 1 6 1.000 1 N 3.43751 0.11160 1.58428 14.39713 A CA TYR 6 ATOM A CA TYR 1 6 1.000 1 C 8.01901 -0.54172 0.56019 15.32736 A C TYR 6 ATOM A C TYR 1 6 1.000 1 C 9.70451 -1.33071 -0.31119 14.90222 A O TYR 6 ATOM A O TYR 1 6 1.000 1 O 5.05545 -0.48524 2.96349 14.69447 A CB TYR 6 ATOM A CB TYR 1 6 1.000 1 C 3.88241 0.10203 4.10465 13.91320 A CG TYR 6 ATOM A CG TYR 1 6 1.000 1 C 4.41264 -0.36444 4.41697 12.64113 A CD1 TYR 6 ATOM A CD1 TYR 1 6 1.000 1 C 3.63340 1.09883 4.87978 14.45070 A CD2 TYR 6 ATOM A CD2 TYR 1 6 1.000 1 C 4.92063 0.17163 5.46787 11.91819 A CE1 TYR 6 ATOM A CE1 TYR 1 6 1.000 1 C 5.87501 1.65587 5.92328 13.72951 A CE2 TYR 6 ATOM A CE2 TYR 1 6 1.000 1 C 3.96826 1.18183 6.22234 12.47401 A CZ TYR 6 ATOM A CZ TYR 1 6 1.000 1 C 7.66493 1.76339 7.29248 11.81552 A OH TYR 6 ATOM A OH TYR 1 6 1.000 1 O 9.61915 -0.32801 0.66525 16.53639 A OXT TYR 6 ATOM A OXT TYR 1 6 1.000 1 O 4.66889 -0.95172 1.07275 12.84522 A H TYR 6 ATOM A H TYR 1 6 1.000 1 H 4.12994 1.06709 1.62817 14.55844 A HA TYR 6 ATOM A HA TYR 1 6 1.000 1 H 6.07148 -1.43398 2.93487 14.49452 A HB2 TYR 6 ATOM A HB2 TYR 1 6 1.000 1 H 6.07148 -0.35016 3.15799 15.63512 A HB3 TYR 6 ATOM A HB3 TYR 1 6 1.000 1 H 5.30010 -1.04966 3.90996 12.26921 A HD1 TYR 6 ATOM A HD1 TYR 1 6 1.000 1 H 4.36501 1.40458 4.70213 15.31085 A HD2 TYR 6 ATOM A HD2 TYR 1 6 1.000 1 H 5.90968 -0.14643 5.66292 11.06631 A HE1 TYR 6 ATOM A HE1 TYR 1 6 1.000 1 H 7.05495 2.35083 6.42177 14.09481 A HE2 TYR 6 ATOM A HE2 TYR 1 6 1.000 1 H 9.20284 1.55749 7.27508 11.00133 A HH TYR 6 ATOM A HH TYR 1 6 1.000 1 H 0.206186 0.000000 0.000000 0.000000 0.048690 0.000000 0.000000 0.000000 0.023626 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. 0.51345 0.48472 24.73122 6.32584 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. 0000-0002-2652-4916 Durvanger, Z. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.000 90.000 90.000 4.850 20.538 42.326 4216.063 C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N C N 7 N O N 8 N N N 9 N O 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 N N 19 S C N 20 N C N 21 N O N 22 N C N 23 N C N 24 N C N 25 N O N 26 N N N 27 N O N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N N N 39 S C N 40 N C N 41 N O N 42 S C N 43 N C N 44 N C N 45 N C N 46 N O N 47 N H N 48 N H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N N N 61 S C N 62 N C N 63 N O N 64 N C N 65 N C N 66 N C N 67 N C N 68 N O N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N H N 79 N H N 80 N H N 81 N H N 82 N N N 83 S C N 84 N C N 85 N O N 86 N C Y 87 N C Y 88 N C Y 89 N C Y 90 N C Y 91 N C Y 92 N C N 93 N O N 94 N O N 95 N H N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N doub 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 sing N 23 N doub 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 doub N 32 N sing 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 sing N 41 N sing N 42 N doub 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 sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N doub 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 sing 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 doub N 85 N sing N 86 N sing N 87 N sing N 88 N sing Y 89 N doub Y 90 N sing Y 91 N sing N 92 N sing Y 93 N doub N 94 N sing Y 95 N doub N 96 N sing Y 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing GE Chemistry 0947-6539 31 e202404669 e202404669 10.1002/chem.202404669 40197673 Chemical Evolution of Early Macromolecules: From Prebiotic Oligopeptides to Self-Organizing Biosystems via Amyloid Formation. 2025 0009-0003-9246-2228 0000-0002-9721-953X 0000-0002-2652-4916 0000-0001-8239-3933 0000-0001-5007-4807 0000-0001-9456-8876 0000-0002-8815-2783 0000-0003-1252-6416 10.2210/pdb9gj3/pdb pdb_00009gj3 100 1 N PIXEL 2021-10-07 RIGAKU HyPix-6000HE SINGLE WAVELENGTH M x-ray 1 1.54184 1.0 1.54184 ROTATING ANODE RIGAKU PhotonJet-R 812.910 Peptide LYIQNY 1 syn polymer no no LYIQNY LYIQNY A polypeptide(L) n n n n n n 1 EVAPORATION, RECRYSTALLIZATION water (containing 0.1% TFA), 310K 310 repository Initial release 1 0 2025-07-09 Hungary Hungarian National Research, Development and Innovation Office 2018-1.2.1-NKP-2018-00005 European Union European Regional Development Fund VEKOP-2.3.2-16-2017-00014, VEKOP-2.3.3-15-2017-00018 Hungary Hungarian National Research, Development and Innovation Office Thematic Excellence Program Synth+ perczel.andras@ttk.elte.hu 0000-0003-1252-6416 Andras Perczel principal investigator/group leader N PDBE Y PDBE 2024-08-21 REL REL 32630 synthetic construct sample 1 6 N ideal 5 residue beta strand Other in silico model LEU 1 n 1 LEU 1 A TYR 2 n 2 TYR 2 A ILE 3 n 3 ILE 3 A GLN 4 n 4 GLN 4 A ASN 5 n 5 ASN 5 A TYR 6 n 6 TYR 6 A author_defined_assembly 1 monomeric none 0 0 1040 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 5.41 0.1097 0.1004 0.1014 1.50 21.16 87 762 849 10.25 100.00 0.0000 1 FREE R-VALUE 1.36 MOLECULAR REPLACEMENT 5.7338 0.9000 1.1100 GeoStd + Monomer Library + CDL v1.2 FLAT BULK SOLVENT MODEL 1.50 21.16 0 58 0 0 58 0.0120 59 1.3870 80 0.0800 8 0.0098 10 16.4419 21 0.1097 0.1004 21.16 87 762 100.00 7.26 1.50 21.17 9GJ3 849 0.995 0.120 1 8.4 4.49 100 1.50 1.55 2.4 86 0.864 0.432 1 refinement PHENIX 1.20.1_4487 refinement BUSTER data reduction CrysalisPro data scaling CrysalisPro phasing PHASER 19 orthorhombic P 21 21 21 P 2ac 2ab x,y,z x+1/2,-y+1/2,-z -x,y+1/2,-z+1/2 -x+1/2,-y,z+1/2 N Structure of the amyloid-forming peptide LYIQNY 1 N N PROTEIN FIBRIL amyloid, PROTEIN FIBRIL 9GJ3 PDB 1 1 9GJ3 1 6 9GJ3 1 6 9GJ3 A 1 1 6 19 P 21 21 21 P 2ac 2ab