1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Miyamoto, K. Kigawa, T. Tomizawa, T. Koshiba, S. Inoue, M. Yokoyama, S. RIKEN Structural Genomics/Proteomics Initiative (RSGI) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE 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 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 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 Zn 2 65.409 ZINC ION non-polymer To be Published 0353 Solution structure of the B-box domain of the human tripartite motif-containing 63 protein 10.2210/pdb2d8u/pdb pdb_00002d8u 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 6784.683 Ubiquitin ligase TRIM63 6.3.2.- zf-B box 1 man polymer 65.409 ZINC ION 2 syn non-polymer Tripartite motif-containing 63, Muscle-specific RING finger protein 1, MuRF1, MURF-1, RING finger protein 28, Striated muscle RING zinc finger protein, Iris RING finger protein no no GSSGSSGHPMCKEHEDEKINIYCLTCEVPTCSMCKVFGIHKACEVAPLQSVFQGQKTESGPSSG GSSGSSGHPMCKEHEDEKINIYCLTCEVPTCSMCKVFGIHKACEVAPLQSVFQGQKTESGPSSG A hsi002010152.1 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 human Homo sample Cell-free protein synthesis TRIM63 9606 Homo sapiens PLASMID P050302-45 RIKEN Structural Genomics/Proteomics Initiative RSGI NPPSFA, National Project on Protein Structural and Functional Analyses database_2 pdbx_nmr_software pdbx_nmr_spectrometer pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2006-06-08 1 1 2008-04-30 1 2 2011-07-13 1 3 2022-03-09 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y PDBJ Y PDBJ 2005-12-08 REL ZN ZINC ION target function, structures with the least restraint violations 100 20 3D_15N-separated_NOESY 3D_13C-separated_NOESY 120 7.0 ambient 296 K torsion angle dynamics 1 lowest energy 2.09mM zf-B_box U-13C, 15N; 20mM d-Tris-HCl(pH7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 0.05mM ZNCl2; 1.0mM IDA; 90% H2O, 10% D2O 90% H2O/10% D2O Bruker collection XwinNMR 3.5 Delaglio, F. processing NMRPipe 20031121 Johnson, B. A. data analysis NMRView 5.0.4 Kobayashi, N. data analysis KUJIRA 0.9321 Guntert, P. structure solution CYANA 2.0.17 Guntert, P. refinement CYANA 2.0.17 700 Bruker AVANCE ZN 201 2 ZN ZN 201 A ZN 401 2 ZN ZN 401 A GLY 1 n 1 GLY 1 A SER 2 n 2 SER 2 A SER 3 n 3 SER 3 A GLY 4 n 4 GLY 4 A SER 5 n 5 SER 5 A SER 6 n 6 SER 6 A GLY 7 n 7 GLY 7 A HIS 8 n 8 HIS 8 A PRO 9 n 9 PRO 9 A MET 10 n 10 MET 10 A CYS 11 n 11 CYS 11 A LYS 12 n 12 LYS 12 A GLU 13 n 13 GLU 13 A HIS 14 n 14 HIS 14 A GLU 15 n 15 GLU 15 A ASP 16 n 16 ASP 16 A GLU 17 n 17 GLU 17 A LYS 18 n 18 LYS 18 A ILE 19 n 19 ILE 19 A ASN 20 n 20 ASN 20 A ILE 21 n 21 ILE 21 A TYR 22 n 22 TYR 22 A CYS 23 n 23 CYS 23 A LEU 24 n 24 LEU 24 A THR 25 n 25 THR 25 A CYS 26 n 26 CYS 26 A GLU 27 n 27 GLU 27 A VAL 28 n 28 VAL 28 A PRO 29 n 29 PRO 29 A THR 30 n 30 THR 30 A CYS 31 n 31 CYS 31 A SER 32 n 32 SER 32 A MET 33 n 33 MET 33 A CYS 34 n 34 CYS 34 A LYS 35 n 35 LYS 35 A VAL 36 n 36 VAL 36 A PHE 37 n 37 PHE 37 A GLY 38 n 38 GLY 38 A ILE 39 n 39 ILE 39 A HIS 40 n 40 HIS 40 A LYS 41 n 41 LYS 41 A ALA 42 n 42 ALA 42 A CYS 43 n 43 CYS 43 A GLU 44 n 44 GLU 44 A VAL 45 n 45 VAL 45 A ALA 46 n 46 ALA 46 A PRO 47 n 47 PRO 47 A LEU 48 n 48 LEU 48 A GLN 49 n 49 GLN 49 A SER 50 n 50 SER 50 A VAL 51 n 51 VAL 51 A PHE 52 n 52 PHE 52 A GLN 53 n 53 GLN 53 A GLY 54 n 54 GLY 54 A GLN 55 n 55 GLN 55 A LYS 56 n 56 LYS 56 A THR 57 n 57 THR 57 A GLU 58 n 58 GLU 58 A SER 59 n 59 SER 59 A GLY 60 n 60 GLY 60 A PRO 61 n 61 PRO 61 A SER 62 n 62 SER 62 A SER 63 n 63 SER 63 A GLY 64 n 64 GLY 64 A author_defined_assembly 1 monomeric A CYS 11 A SG CYS 11 1_555 A ZN 201 B ZN ZN 1_555 A HIS 14 A ND1 HIS 14 1_555 115.2 A CYS 11 A SG CYS 11 1_555 A ZN 201 B ZN ZN 1_555 A CYS 31 A SG CYS 31 1_555 119.8 A HIS 14 A ND1 HIS 14 1_555 A ZN 201 B ZN ZN 1_555 A CYS 31 A SG CYS 31 1_555 109.4 A CYS 11 A SG CYS 11 1_555 A ZN 201 B ZN ZN 1_555 A CYS 34 A SG CYS 34 1_555 107.4 A HIS 14 A ND1 HIS 14 1_555 A ZN 201 B ZN ZN 1_555 A CYS 34 A SG CYS 34 1_555 102.7 A CYS 31 A SG CYS 31 1_555 A ZN 201 B ZN ZN 1_555 A CYS 34 A SG CYS 34 1_555 99.6 A CYS 23 A SG CYS 23 1_555 A ZN 401 C ZN ZN 1_555 A CYS 26 A SG CYS 26 1_555 87.8 A CYS 23 A SG CYS 23 1_555 A ZN 401 C ZN ZN 1_555 A HIS 40 A ND1 HIS 40 1_555 119.7 A CYS 26 A SG CYS 26 1_555 A ZN 401 C ZN ZN 1_555 A HIS 40 A ND1 HIS 40 1_555 118.6 A CYS 23 A SG CYS 23 1_555 A ZN 401 C ZN ZN 1_555 A CYS 43 A SG CYS 43 1_555 98.7 A CYS 26 A SG CYS 26 1_555 A ZN 401 C ZN ZN 1_555 A CYS 43 A SG CYS 43 1_555 120.0 A HIS 40 A ND1 HIS 40 1_555 A ZN 401 C ZN ZN 1_555 A CYS 43 A SG CYS 43 1_555 109.2 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 TYR 22 A N TYR 22 A O ALA 46 A O ALA 46 1 A SER 2 -131.05 -48.18 1 A LEU 24 -108.26 -61.03 1 A THR 25 -33.05 -70.02 1 A GLU 27 70.77 53.48 1 A PRO 29 -69.73 88.54 1 A CYS 31 -68.62 -176.63 1 A CYS 43 -65.59 -178.03 1 A PRO 47 -69.76 89.78 1 A LEU 48 -36.56 -32.95 1 A GLN 53 -44.79 150.67 2 A GLU 17 -60.00 92.21 2 A LEU 24 -104.71 -61.43 2 A PRO 29 -69.78 95.69 2 A CYS 31 -57.04 171.42 2 A ALA 42 -82.31 34.28 2 A PRO 47 -69.74 85.24 2 A PHE 52 -169.93 105.12 2 A GLN 53 36.59 42.55 3 A LEU 24 -104.05 -62.79 3 A THR 25 -32.62 -73.86 3 A HIS 40 -69.33 69.94 3 A ALA 42 -82.91 34.20 3 A GLN 49 -32.60 -72.91 3 A VAL 51 33.02 53.28 3 A GLN 55 35.50 45.39 3 A GLU 58 -37.22 112.35 3 A SER 59 -80.84 42.42 3 A PRO 61 -69.78 86.90 4 A LEU 24 -97.32 -64.17 4 A THR 25 -29.90 -72.39 4 A PRO 29 -69.74 91.74 4 A HIS 40 -69.35 69.38 4 A ALA 42 -83.17 32.00 4 A PRO 47 -69.78 91.00 4 A LEU 48 -39.33 -39.81 4 A GLN 53 -39.06 126.80 4 A GLN 55 -39.57 148.87 4 A THR 57 -108.93 43.80 5 A PRO 29 -69.76 83.89 5 A CYS 31 -52.70 -174.88 5 A PHE 37 -125.98 -58.61 5 A HIS 40 -74.91 45.13 5 A CYS 43 -65.04 -177.88 5 A PRO 47 -69.76 95.06 5 A LEU 48 -31.96 -36.73 5 A GLN 49 -68.11 88.71 5 A VAL 51 -57.90 98.89 5 A GLN 55 36.62 41.35 5 A LYS 56 -170.76 106.22 6 A SER 2 -79.46 45.61 6 A PRO 9 -69.75 -172.69 6 A MET 10 -36.82 155.50 6 A HIS 14 -57.87 -173.55 6 A LYS 18 -32.84 115.32 6 A ILE 19 -39.94 132.99 6 A LEU 24 -109.87 -60.66 6 A PRO 29 -69.70 88.18 6 A CYS 31 -52.77 -174.08 6 A ALA 42 -85.28 31.81 6 A PRO 47 -69.78 89.78 6 A SER 62 -69.46 96.33 7 A PRO 29 -69.77 94.00 7 A CYS 31 -53.38 -174.05 7 A HIS 40 -82.11 36.67 7 A CYS 43 -67.16 -175.48 7 A PRO 47 -69.70 88.34 7 A LEU 48 -32.92 -38.23 7 A SER 50 70.12 54.14 7 A VAL 51 -63.75 95.02 7 A PHE 52 -134.93 -64.27 7 A GLN 55 -34.53 136.58 7 A SER 62 39.96 41.09 8 A SER 3 -57.74 90.50 8 A HIS 14 -58.39 -178.43 8 A LYS 18 -33.89 131.70 8 A LEU 24 -106.01 -60.34 8 A THR 25 -33.88 -76.03 8 A GLU 27 70.97 54.52 8 A PRO 29 -69.78 86.45 8 A CYS 31 -53.86 175.86 8 A ALA 42 -81.64 34.03 8 A SER 59 -66.17 97.54 8 A SER 62 -94.71 41.57 9 A SER 3 -163.66 115.28 9 A SER 6 -79.53 45.69 9 A CYS 11 -44.61 108.86 9 A ASP 16 -86.47 -71.36 9 A LEU 24 -103.28 -62.90 9 A PRO 29 -69.74 89.41 9 A CYS 31 -50.33 -176.27 9 A CYS 34 -39.22 -25.01 9 A ALA 42 -82.24 33.40 9 A PRO 47 -69.77 89.70 9 A LEU 48 -39.25 -36.38 9 A GLN 49 -54.61 106.35 9 A VAL 51 -38.58 98.45 9 A GLN 53 -127.76 -52.19 9 A SER 63 -104.65 44.22 10 A LEU 24 -103.28 -61.33 10 A THR 25 -33.34 -70.18 10 A PRO 29 -69.74 85.97 10 A CYS 31 -61.68 -176.95 10 A ALA 42 -83.53 33.82 10 A PRO 47 -69.77 87.42 10 A GLN 49 -58.87 96.04 10 A VAL 51 -53.25 95.81 10 A PHE 52 -133.45 -64.23 10 A PRO 61 -69.82 13.12 11 A ASP 16 72.63 54.95 11 A PRO 29 -69.79 99.50 11 A CYS 31 -60.03 -174.36 11 A ALA 42 -82.92 30.11 11 A PRO 47 -69.73 82.38 11 A GLN 49 -67.79 93.83 11 A SER 50 74.47 53.48 11 A VAL 51 -59.21 99.89 11 A PHE 52 -127.96 -58.62 12 A SER 3 39.98 42.49 12 A GLU 17 -174.57 113.89 12 A ILE 19 -34.19 113.44 12 A THR 25 -36.59 -75.40 12 A PRO 29 -69.72 99.27 12 A MET 33 -37.98 -37.47 12 A ALA 42 -83.50 33.37 12 A THR 57 -36.17 143.43 13 A HIS 14 -66.07 -173.88 13 A LEU 24 -107.58 -60.96 13 A PRO 29 -69.77 83.05 13 A CYS 31 -53.83 -176.48 13 A ALA 42 -82.38 33.98 13 A LEU 48 -36.11 -31.64 13 A SER 50 -124.49 -72.73 13 A SER 63 -132.09 -62.25 14 A LEU 24 -107.27 -62.29 14 A PRO 29 -69.75 89.38 14 A PRO 47 -69.73 92.56 14 A GLN 49 -63.86 94.54 14 A SER 50 73.21 47.18 14 A GLU 58 -68.41 91.61 15 A SER 5 -99.43 46.67 15 A GLU 15 -106.20 -66.77 15 A LYS 18 34.32 47.16 15 A ILE 19 31.31 54.88 15 A LEU 24 -100.29 -63.02 15 A THR 25 -29.39 -76.20 15 A HIS 40 -65.77 71.67 15 A ALA 42 -87.93 33.39 15 A LEU 48 -29.89 -50.72 15 A GLN 53 -47.85 158.65 15 A PRO 61 -69.77 90.06 16 A PRO 29 -69.78 96.25 16 A ALA 42 -81.98 34.24 16 A LEU 48 -31.68 -36.82 16 A VAL 51 -56.83 96.01 16 A SER 59 -175.00 105.21 16 A PRO 61 -69.77 0.83 17 A SER 2 -162.04 118.59 17 A PRO 9 -69.75 -173.93 17 A CYS 11 -45.95 105.76 17 A ILE 19 -33.60 110.74 17 A LEU 24 -103.44 -61.82 17 A THR 25 -29.67 -66.03 17 A PRO 29 -69.79 97.24 17 A CYS 31 -62.73 -177.44 17 A HIS 40 -68.80 69.63 17 A ALA 42 -82.83 33.89 17 A LEU 48 -27.89 -44.32 17 A PRO 61 -69.81 2.87 18 A CYS 11 -46.81 156.32 18 A LEU 24 -98.93 -61.02 18 A THR 25 -32.56 -74.24 18 A PRO 29 -69.81 92.34 18 A CYS 31 -55.27 -174.44 18 A HIS 40 -107.05 54.18 18 A ALA 42 -83.14 32.59 18 A PRO 47 -69.77 16.67 18 A SER 50 31.38 47.61 18 A PRO 61 -69.72 -173.82 19 A SER 2 -59.59 104.84 19 A GLU 13 -133.46 -36.05 19 A LEU 24 -105.02 -61.39 19 A THR 25 -33.62 -72.71 19 A PRO 29 -69.78 81.87 19 A ALA 42 -82.80 32.81 19 A PRO 47 -69.76 91.83 19 A LEU 48 -34.94 -36.70 19 A GLN 49 -58.71 86.66 19 A VAL 51 -38.54 102.09 19 A PHE 52 -103.07 -63.59 19 A GLN 53 -125.82 -61.02 19 A SER 62 -81.33 44.34 20 A HIS 8 -173.62 134.05 20 A CYS 11 -51.63 98.42 20 A LEU 24 -104.79 -61.51 20 A HIS 40 -101.08 54.30 20 A PRO 47 -69.75 87.61 Solution structure of the B-box domain of the human tripartite motif-containing 63 protein 1 N N 2 N N 2 N N A SER 32 A SER 32 HELX_P A PHE 37 A PHE 37 1 1 6 metalc 2.315 A CYS 11 A SG CYS 11 1_555 A ZN 201 B ZN ZN 1_555 metalc 2.329 A HIS 14 A ND1 HIS 14 1_555 A ZN 201 B ZN ZN 1_555 metalc 2.308 A CYS 23 A SG CYS 23 1_555 A ZN 401 C ZN ZN 1_555 metalc 2.272 A CYS 26 A SG CYS 26 1_555 A ZN 401 C ZN ZN 1_555 metalc 2.318 A CYS 31 A SG CYS 31 1_555 A ZN 201 B ZN ZN 1_555 metalc 2.320 A CYS 34 A SG CYS 34 1_555 A ZN 201 B ZN ZN 1_555 metalc 2.327 A HIS 40 A ND1 HIS 40 1_555 A ZN 401 C ZN ZN 1_555 metalc 2.398 A CYS 43 A SG CYS 43 1_555 A ZN 401 C ZN ZN 1_555 LIGASE tripartite motif-containing 63, TRIM63, Muscle-specific RING finger protein 1, MuRF1, RING finger protein 28, Striated muscle RING zinc finger protein, Iris ring finger protein, zf-B_box, structural genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Ligase TRI63_HUMAN UNP 1 119 Q969Q1 HPMCKEHEDEKINIYCLTCEVPTCSMCKVFGIHKACEVAPLQSVFQGQKTE 119 169 2D8U 8 58 Q969Q1 A 1 8 58 1 cloning artifact GLY 1 2D8U A Q969Q1 UNP 1 1 cloning artifact SER 2 2D8U A Q969Q1 UNP 2 1 cloning artifact SER 3 2D8U A Q969Q1 UNP 3 1 cloning artifact GLY 4 2D8U A Q969Q1 UNP 4 1 cloning artifact SER 5 2D8U A Q969Q1 UNP 5 1 cloning artifact SER 6 2D8U A Q969Q1 UNP 6 1 cloning artifact GLY 7 2D8U A Q969Q1 UNP 7 1 cloning artifact SER 59 2D8U A Q969Q1 UNP 59 1 cloning artifact GLY 60 2D8U A Q969Q1 UNP 60 1 cloning artifact PRO 61 2D8U A Q969Q1 UNP 61 1 cloning artifact SER 62 2D8U A Q969Q1 UNP 62 1 cloning artifact SER 63 2D8U A Q969Q1 UNP 63 1 cloning artifact GLY 64 2D8U A Q969Q1 UNP 64 2 anti-parallel A TYR 22 A TYR 22 A CYS 23 A CYS 23 A VAL 45 A VAL 45 A ALA 46 A ALA 46 BINDING SITE FOR RESIDUE ZN A 201 A ZN 201 Software 5 BINDING SITE FOR RESIDUE ZN A 401 A ZN 401 Software 4 A CYS 11 A CYS 11 5 1_555 A HIS 14 A HIS 14 5 1_555 A GLU 17 A GLU 17 5 1_555 A CYS 31 A CYS 31 5 1_555 A CYS 34 A CYS 34 5 1_555 A CYS 23 A CYS 23 4 1_555 A CYS 26 A CYS 26 4 1_555 A HIS 40 A HIS 40 4 1_555 A CYS 43 A CYS 43 4 1_555