1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Kitazawa, S. Kameda, T. Yagi-Utsumi, M. Kato, K. Kitahara, R. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 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 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 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 Biochemistry BICHAW 0033 0006-2960 52 1874 1885 10.1021/bi301420m 23421577 Solution Structure of the Q41N Variant of Ubiquitin as a Model for the Alternatively Folded N2 State of Ubiquitin 2013 10.2210/pdb2rsu/pdb pdb_00002rsu 8562.805 Ubiquitin Q41N 1 man polymer no no MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQNRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQNRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 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 human sample UBC 9606 Homo sapiens 562 Escherichia coli pGEX-6P1 vector High-energy state model mutant (Q41N) for ubiquitin database_2 pdbx_database_status pdbx_nmr_software struct_ref_seq_dif repository Initial release Data collection Database references Other 1 0 2013-03-27 1 1 2023-06-14 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_nmr_data _pdbx_nmr_software.name _struct_ref_seq_dif.details ubiquitin at 30 bar ubiquitin at 3 kbar BMRB Y PDBJ 2012-06-15 REL REL REL REL 1455 structures with the lowest energy 200 20 0 0.418 1 2D 1H-15N HSQC 2D 1H-13C HSQC 3D CBCA(CO)NH 3D C(CO)NH 3D HNCO 3D HNCA 3D HBHA(CO)NH 3D HN(CO)CA 3D H(CCO)NH 3D HCCH-TOCSY 3D HNHA 3D 1H-15N NOESY 3D 1H-15N TOCSY 3D 1H-13C NOESY 3D 1H-13C NOESY aromatic 2D 1H-15N HSQC 0.5 mM [U-15N] 20 mM [U-99% 2H] 1 mM 250 mM 6 mg/mL 2.0 mM [U-99% 13C; U-99% 15N] 20 mM [U-99% 2H] 1 mM 20 7.2 ambient 298 K torsion angle dynamics, Energy minimization 1 lowest energy 0.5 mM [U-15N] protein-1, 20 mM [U-99% 2H] TRIS-2, 1 mM DSS-3, 250 mM sodium chloride-4, 6 mg/mL Pf1 bacteriopharge-5, 93% H2O/7% D2O 93% H2O/7% D2O 2.0 mM [U-99% 13C; U-99% 15N] protein-6, 20 mM [U-99% 2H] TRIS-7, 1 mM DSS-8, 93% H2O/7% D2O 93% H2O/7% D2O Guntert, Mumenthaler and Wuthrich structure solution CYANA 3.93 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman refinement Amber 11 Johnson, One Moon Scientific processing NMRView 5.22 refinement CYANA 600 Bruker DRX Bruker DRX MET 1 n 1 MET 1 A GLN 2 n 2 GLN 2 A ILE 3 n 3 ILE 3 A PHE 4 n 4 PHE 4 A VAL 5 n 5 VAL 5 A LYS 6 n 6 LYS 6 A THR 7 n 7 THR 7 A LEU 8 n 8 LEU 8 A THR 9 n 9 THR 9 A GLY 10 n 10 GLY 10 A LYS 11 n 11 LYS 11 A THR 12 n 12 THR 12 A ILE 13 n 13 ILE 13 A THR 14 n 14 THR 14 A LEU 15 n 15 LEU 15 A GLU 16 n 16 GLU 16 A VAL 17 n 17 VAL 17 A GLU 18 n 18 GLU 18 A PRO 19 n 19 PRO 19 A SER 20 n 20 SER 20 A ASP 21 n 21 ASP 21 A THR 22 n 22 THR 22 A ILE 23 n 23 ILE 23 A GLU 24 n 24 GLU 24 A ASN 25 n 25 ASN 25 A VAL 26 n 26 VAL 26 A LYS 27 n 27 LYS 27 A ALA 28 n 28 ALA 28 A LYS 29 n 29 LYS 29 A ILE 30 n 30 ILE 30 A GLN 31 n 31 GLN 31 A ASP 32 n 32 ASP 32 A LYS 33 n 33 LYS 33 A GLU 34 n 34 GLU 34 A GLY 35 n 35 GLY 35 A ILE 36 n 36 ILE 36 A PRO 37 n 37 PRO 37 A PRO 38 n 38 PRO 38 A ASP 39 n 39 ASP 39 A GLN 40 n 40 GLN 40 A ASN 41 n 41 ASN 41 A ARG 42 n 42 ARG 42 A LEU 43 n 43 LEU 43 A ILE 44 n 44 ILE 44 A PHE 45 n 45 PHE 45 A ALA 46 n 46 ALA 46 A GLY 47 n 47 GLY 47 A LYS 48 n 48 LYS 48 A GLN 49 n 49 GLN 49 A LEU 50 n 50 LEU 50 A GLU 51 n 51 GLU 51 A ASP 52 n 52 ASP 52 A GLY 53 n 53 GLY 53 A ARG 54 n 54 ARG 54 A THR 55 n 55 THR 55 A LEU 56 n 56 LEU 56 A SER 57 n 57 SER 57 A ASP 58 n 58 ASP 58 A TYR 59 n 59 TYR 59 A ASN 60 n 60 ASN 60 A ILE 61 n 61 ILE 61 A GLN 62 n 62 GLN 62 A LYS 63 n 63 LYS 63 A GLU 64 n 64 GLU 64 A SER 65 n 65 SER 65 A THR 66 n 66 THR 66 A LEU 67 n 67 LEU 67 A HIS 68 n 68 HIS 68 A LEU 69 n 69 LEU 69 A VAL 70 n 70 VAL 70 A LEU 71 n 71 LEU 71 A ARG 72 n 72 ARG 72 A LEU 73 n 73 LEU 73 A ARG 74 n 74 ARG 74 A GLY 75 n 75 GLY 75 A GLY 76 n 76 GLY 76 A author_defined_assembly 1 monomeric 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 LEU 15 A O LEU 15 A N ILE 3 A N ILE 3 A N LYS 6 A N LYS 6 A O LEU 67 A O LEU 67 A O VAL 70 A O VAL 70 A N ARG 42 A N ARG 42 A N PHE 45 A N PHE 45 A O LYS 48 A O LYS 48 4 A A OE1 HG GLU SER 18 20 1.54 14 A A OE1 HG GLU SER 18 20 1.57 15 A A OE1 HG GLU SER 18 20 1.60 20 A A OE1 HG GLU SER 18 20 1.55 4 A ARG 42 0.141 SIDE CHAIN 10 A ARG 42 0.105 SIDE CHAIN 1 3.32 0.50 120.30 123.62 A A A NE CZ NH1 ARG ARG ARG 72 72 72 N 3 3.32 0.50 120.30 123.62 A A A NE CZ NH1 ARG ARG ARG 72 72 72 N 5 3.17 0.50 120.30 123.47 A A A NE CZ NH1 ARG ARG ARG 72 72 72 N 5 3.50 0.50 120.30 123.80 A A A NE CZ NH1 ARG ARG ARG 74 74 74 N 7 4.34 0.50 120.30 124.64 A A A NE CZ NH1 ARG ARG ARG 74 74 74 N 10 3.51 0.50 120.30 123.81 A A A NE CZ NH1 ARG ARG ARG 42 42 42 N 12 3.19 0.50 120.30 123.49 A A A NE CZ NH1 ARG ARG ARG 54 54 54 N 12 3.68 0.50 120.30 123.98 A A A NE CZ NH1 ARG ARG ARG 74 74 74 N 15 3.08 0.50 120.30 123.38 A A A NE CZ NH1 ARG ARG ARG 74 74 74 N 18 3.75 0.50 120.30 124.05 A A A NE CZ NH1 ARG ARG ARG 54 54 54 N 1 A PRO 38 -68.97 2.79 1 A LEU 73 56.27 92.87 3 A PRO 38 -69.59 5.41 3 A ARG 42 -116.31 -167.00 4 A GLU 34 -125.62 -62.88 4 A PRO 38 -67.50 2.90 4 A LEU 73 -124.16 -60.04 4 A ARG 74 -137.62 -76.28 5 A GLU 34 -108.64 -70.75 6 A GLU 34 -106.73 -61.28 7 A GLU 34 -132.41 -56.00 7 A ARG 74 -140.15 30.40 8 A GLU 34 -106.81 -73.15 8 A PRO 38 -66.35 2.52 8 A LEU 73 56.55 17.29 8 A ARG 74 62.98 174.55 9 A GLU 34 -118.17 -70.27 9 A PRO 38 -68.39 0.59 9 A ARG 72 -101.56 71.28 10 A GLU 34 -112.58 -73.18 11 A GLU 34 -126.92 -61.21 11 A PRO 38 -68.38 4.72 11 A LEU 73 -130.58 -43.43 12 A PRO 38 -67.70 3.62 13 A ARG 74 -89.54 47.46 14 A ARG 72 -85.63 47.05 14 A LEU 73 -143.61 31.81 14 A ARG 74 -137.90 -65.09 15 A GLU 34 -99.60 -70.31 15 A ARG 74 -152.94 38.33 16 A GLU 34 -125.00 -55.68 16 A PRO 38 -68.56 1.06 16 A ASP 52 -87.13 42.28 17 A GLU 34 -125.78 -64.21 17 A LEU 73 -63.32 95.73 18 A GLU 34 -132.47 -56.84 18 A PRO 38 -69.83 0.90 18 A ARG 74 -136.70 -45.05 19 A GLU 34 -121.29 -63.03 19 A ASP 52 -83.95 44.45 19 A LEU 73 59.43 -162.43 20 A PRO 38 -69.94 1.49 20 A ARG 74 -135.11 -62.23 lowest energy, model1 Alternative structure of Ubiquitin 1 N N A THR 22 A THR 22 HELX_P A GLU 34 A GLU 34 1 1 13 A THR 55 A THR 55 HELX_P A ASN 60 A ASN 60 1 2 6 PROTEIN BINDING ubiquitin, Q41N, high energy, N2, PROTEIN BINDING UBC_HUMAN UNP 1 1 P0CG48 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 1 76 2RSU 1 76 P0CG48 A 1 1 76 1 GLN engineered mutation ASN 41 2RSU A P0CG48 UNP 41 41 4 2 anti-parallel parallel anti-parallel anti-parallel A THR 12 A THR 12 A GLU 16 A GLU 16 A GLN 2 A GLN 2 A THR 7 A THR 7 A THR 66 A THR 66 A LEU 71 A LEU 71 A ASN 41 A ASN 41 A ARG 42 A ARG 42 A ILE 44 A ILE 44 A PHE 45 A PHE 45 A LYS 48 A LYS 48 A GLN 49 A GLN 49