1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Hamilton, K.S. Shaw, G.S. Williams, R.S. Huzil, J.T. McKenna, S. Ptak, C. Glover, M. Ellison, M.J. 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 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 C11 H12 N2 O2 204.225 y TRYPTOPHAN 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 UK Structure STRUE6 2005 0969-2126 9 897 904 10.1016/S0969-2126(01)00657-8 11591345 Structure of a conjugating enzyme-ubiquitin thiolester intermediate reveals a novel role for the ubiquitin tail. 2001 10.2210/pdb1fxt/pdb pdb_00001fxt 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 16697.064 UBIQUITIN-CONJUGATING ENZYME E2-24 KDA 6.3.2.19 1 man polymer 8576.831 UBIQUITIN 1 man polymer no no SRAKRIMKEIQAVKDDPAAHITLEFVSESDIHHLKGTFLGPPGTPYEGGKFVVDIEVPMEYPFKPPKMQFDTKVYHPNIS SVTGAICLDILKNAWSPVITLKSALISLQALLQSPEPNDPQDAEVAQHYLRDRESFNKTAALWTRLYAS SRAKRIMKEIQAVKDDPAAHITLEFVSESDIHHLKGTFLGPPGTPYEGGKFVVDIEVPMEYPFKPPKMQFDTKVYHPNIS SVTGAICLDILKNAWSPVITLKSALISLQALLQSPEPNDPQDAEVAQHYLRDRESFNKTAALWTRLYAS A polypeptide(L) no no MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG B 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 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 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 baker's yeast Saccharomyces Escherichia sample 4932 Saccharomyces cerevisiae 562 Escherichia coli PET3A human Homo Escherichia sample 9606 Homo sapiens 562 Escherichia coli PET3A-HUB database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2001-10-10 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name RCSB Y RCSB 2000-09-26 REL Spectra of thiolester formation were acquired every 10 minutes during the first 60 minutes of reaction time until a stable level of covalent complex was formed 1 1 enhanced 1H-15N HSQC 450mM NaCl 7.5 ambient 30 K Dynamic docking between Ubc1 and Ub System covalently bound and minimized 1 lowest energy Yeast Ubc1 0.8 mM Ubc1 10uM E1 0.8 mM Ub 10mM ATP, 5 mM MgCl, 40 mM Hepes, 450 mM NaCl,, 1 mM EDTA in water Human Ub 0.8 mM Ubc1 10uM E1 0.8 mM Ub 10mM ATP, 5 mM MgCl, 40 mM Hepes, 450 mM NaCl,, 1 mM EDTA in water Delagio and Garrett data analysis NMRDraw 1 Delagio and Garrett collection PIPP 1 Delagio and Garrett collection STAPP 1 500 Varian UNITY SER 2 n 1 SER 2 A ARG 3 n 2 ARG 3 A ALA 4 n 3 ALA 4 A LYS 5 n 4 LYS 5 A ARG 6 n 5 ARG 6 A ILE 7 n 6 ILE 7 A MET 8 n 7 MET 8 A LYS 9 n 8 LYS 9 A GLU 10 n 9 GLU 10 A ILE 11 n 10 ILE 11 A GLN 12 n 11 GLN 12 A ALA 13 n 12 ALA 13 A VAL 14 n 13 VAL 14 A LYS 15 n 14 LYS 15 A ASP 16 n 15 ASP 16 A ASP 17 n 16 ASP 17 A PRO 18 n 17 PRO 18 A ALA 19 n 18 ALA 19 A ALA 20 n 19 ALA 20 A HIS 21 n 20 HIS 21 A ILE 22 n 21 ILE 22 A THR 23 n 22 THR 23 A LEU 24 n 23 LEU 24 A GLU 25 n 24 GLU 25 A PHE 26 n 25 PHE 26 A VAL 27 n 26 VAL 27 A SER 28 n 27 SER 28 A GLU 29 n 28 GLU 29 A SER 30 n 29 SER 30 A ASP 31 n 30 ASP 31 A ILE 32 n 31 ILE 32 A HIS 33 n 32 HIS 33 A HIS 34 n 33 HIS 34 A LEU 35 n 34 LEU 35 A LYS 36 n 35 LYS 36 A GLY 37 n 36 GLY 37 A THR 38 n 37 THR 38 A PHE 39 n 38 PHE 39 A LEU 40 n 39 LEU 40 A GLY 41 n 40 GLY 41 A PRO 42 n 41 PRO 42 A PRO 43 n 42 PRO 43 A GLY 44 n 43 GLY 44 A THR 45 n 44 THR 45 A PRO 46 n 45 PRO 46 A TYR 47 n 46 TYR 47 A GLU 48 n 47 GLU 48 A GLY 49 n 48 GLY 49 A GLY 50 n 49 GLY 50 A LYS 51 n 50 LYS 51 A PHE 52 n 51 PHE 52 A VAL 53 n 52 VAL 53 A VAL 54 n 53 VAL 54 A ASP 55 n 54 ASP 55 A ILE 56 n 55 ILE 56 A GLU 57 n 56 GLU 57 A VAL 58 n 57 VAL 58 A PRO 59 n 58 PRO 59 A MET 60 n 59 MET 60 A GLU 61 n 60 GLU 61 A TYR 62 n 61 TYR 62 A PRO 63 n 62 PRO 63 A PHE 64 n 63 PHE 64 A LYS 65 n 64 LYS 65 A PRO 66 n 65 PRO 66 A PRO 67 n 66 PRO 67 A LYS 68 n 67 LYS 68 A MET 69 n 68 MET 69 A GLN 70 n 69 GLN 70 A PHE 71 n 70 PHE 71 A ASP 72 n 71 ASP 72 A THR 73 n 72 THR 73 A LYS 74 n 73 LYS 74 A VAL 75 n 74 VAL 75 A TYR 76 n 75 TYR 76 A HIS 77 n 76 HIS 77 A PRO 78 n 77 PRO 78 A ASN 79 n 78 ASN 79 A ILE 80 n 79 ILE 80 A SER 81 n 80 SER 81 A SER 82 n 81 SER 82 A VAL 83 n 82 VAL 83 A THR 84 n 83 THR 84 A GLY 85 n 84 GLY 85 A ALA 86 n 85 ALA 86 A ILE 87 n 86 ILE 87 A CYS 88 n 87 CYS 88 A LEU 89 n 88 LEU 89 A ASP 90 n 89 ASP 90 A ILE 91 n 90 ILE 91 A LEU 92 n 91 LEU 92 A LYS 93 n 92 LYS 93 A ASN 94 n 93 ASN 94 A ALA 95 n 94 ALA 95 A TRP 96 n 95 TRP 96 A SER 97 n 96 SER 97 A PRO 98 n 97 PRO 98 A VAL 99 n 98 VAL 99 A ILE 100 n 99 ILE 100 A THR 101 n 100 THR 101 A LEU 102 n 101 LEU 102 A LYS 103 n 102 LYS 103 A SER 104 n 103 SER 104 A ALA 105 n 104 ALA 105 A LEU 106 n 105 LEU 106 A ILE 107 n 106 ILE 107 A SER 108 n 107 SER 108 A LEU 109 n 108 LEU 109 A GLN 110 n 109 GLN 110 A ALA 111 n 110 ALA 111 A LEU 112 n 111 LEU 112 A LEU 113 n 112 LEU 113 A GLN 114 n 113 GLN 114 A SER 115 n 114 SER 115 A PRO 116 n 115 PRO 116 A GLU 117 n 116 GLU 117 A PRO 118 n 117 PRO 118 A ASN 119 n 118 ASN 119 A ASP 120 n 119 ASP 120 A PRO 121 n 120 PRO 121 A GLN 122 n 121 GLN 122 A ASP 123 n 122 ASP 123 A ALA 124 n 123 ALA 124 A GLU 125 n 124 GLU 125 A VAL 126 n 125 VAL 126 A ALA 127 n 126 ALA 127 A GLN 128 n 127 GLN 128 A HIS 129 n 128 HIS 129 A TYR 130 n 129 TYR 130 A LEU 131 n 130 LEU 131 A ARG 132 n 131 ARG 132 A ASP 133 n 132 ASP 133 A ARG 134 n 133 ARG 134 A GLU 135 n 134 GLU 135 A SER 136 n 135 SER 136 A PHE 137 n 136 PHE 137 A ASN 138 n 137 ASN 138 A LYS 139 n 138 LYS 139 A THR 140 n 139 THR 140 A ALA 141 n 140 ALA 141 A ALA 142 n 141 ALA 142 A LEU 143 n 142 LEU 143 A TRP 144 n 143 TRP 144 A THR 145 n 144 THR 145 A ARG 146 n 145 ARG 146 A LEU 147 n 146 LEU 147 A TYR 148 n 147 TYR 148 A ALA 149 n 148 ALA 149 A SER 150 n 149 SER 150 A MET 1 n 1 MET 1 B GLN 2 n 2 GLN 2 B ILE 3 n 3 ILE 3 B PHE 4 n 4 PHE 4 B VAL 5 n 5 VAL 5 B LYS 6 n 6 LYS 6 B THR 7 n 7 THR 7 B LEU 8 n 8 LEU 8 B THR 9 n 9 THR 9 B GLY 10 n 10 GLY 10 B LYS 11 n 11 LYS 11 B THR 12 n 12 THR 12 B ILE 13 n 13 ILE 13 B THR 14 n 14 THR 14 B LEU 15 n 15 LEU 15 B GLU 16 n 16 GLU 16 B VAL 17 n 17 VAL 17 B GLU 18 n 18 GLU 18 B PRO 19 n 19 PRO 19 B SER 20 n 20 SER 20 B ASP 21 n 21 ASP 21 B THR 22 n 22 THR 22 B ILE 23 n 23 ILE 23 B GLU 24 n 24 GLU 24 B ASN 25 n 25 ASN 25 B VAL 26 n 26 VAL 26 B LYS 27 n 27 LYS 27 B ALA 28 n 28 ALA 28 B LYS 29 n 29 LYS 29 B ILE 30 n 30 ILE 30 B GLN 31 n 31 GLN 31 B ASP 32 n 32 ASP 32 B LYS 33 n 33 LYS 33 B GLU 34 n 34 GLU 34 B GLY 35 n 35 GLY 35 B ILE 36 n 36 ILE 36 B PRO 37 n 37 PRO 37 B PRO 38 n 38 PRO 38 B ASP 39 n 39 ASP 39 B GLN 40 n 40 GLN 40 B GLN 41 n 41 GLN 41 B ARG 42 n 42 ARG 42 B LEU 43 n 43 LEU 43 B ILE 44 n 44 ILE 44 B PHE 45 n 45 PHE 45 B ALA 46 n 46 ALA 46 B GLY 47 n 47 GLY 47 B LYS 48 n 48 LYS 48 B GLN 49 n 49 GLN 49 B LEU 50 n 50 LEU 50 B GLU 51 n 51 GLU 51 B ASP 52 n 52 ASP 52 B GLY 53 n 53 GLY 53 B ARG 54 n 54 ARG 54 B THR 55 n 55 THR 55 B LEU 56 n 56 LEU 56 B SER 57 n 57 SER 57 B ASP 58 n 58 ASP 58 B TYR 59 n 59 TYR 59 B ASN 60 n 60 ASN 60 B ILE 61 n 61 ILE 61 B GLN 62 n 62 GLN 62 B LYS 63 n 63 LYS 63 B GLU 64 n 64 GLU 64 B SER 65 n 65 SER 65 B THR 66 n 66 THR 66 B LEU 67 n 67 LEU 67 B HIS 68 n 68 HIS 68 B LEU 69 n 69 LEU 69 B VAL 70 n 70 VAL 70 B LEU 71 n 71 LEU 71 B ARG 72 n 72 ARG 72 B LEU 73 n 73 LEU 73 B ARG 74 n 74 ARG 74 B GLY 75 n 75 GLY 75 B GLY 76 n 76 GLY 76 B author_defined_assembly 2 dimeric 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 GLU 25 A O GLU 24 A N LYS 36 A N LYS 35 A O PHE 39 A O PHE 38 A N PHE 52 A N PHE 51 A O GLU 57 A O GLU 56 A N LYS 68 A N LYS 67 B N LEU 15 B N LEU 15 B O ILE 3 B O ILE 3 B N LYS 6 B N LYS 6 B O LEU 67 B O LEU 67 B N VAL 70 B N VAL 70 B O ARG 42 B O ARG 42 1 A A HG OD1 SER ASP 81 123 1.54 1 A A HG1 OE1 THR GLU 23 25 1.56 1 A A HG OD2 SER ASP 28 31 1.58 1 A B SG C CYS GLY 88 76 1.79 1 A A TYR PRO 62 63 33.01 1 A A ASP ARG 133 134 149.47 1 B B VAL GLU 17 18 147.08 1 B B ILE GLU 23 24 144.49 1 A TYR 47 0.077 SIDE CHAIN 1 B ARG 42 0.076 SIDE CHAIN 1 B ARG 72 0.089 SIDE CHAIN 1 3.53 0.50 120.30 123.83 A A A NE CZ NH1 ARG ARG ARG 3 3 3 N 1 3.95 0.50 120.30 124.25 A A A NE CZ NH1 ARG ARG ARG 6 6 6 N 1 8.51 1.30 111.50 120.01 A A A ND1 CE1 NE2 HIS HIS HIS 21 21 21 N 1 8.60 1.30 111.50 120.10 A A A ND1 CE1 NE2 HIS HIS HIS 33 33 33 N 1 8.45 1.30 111.50 119.95 A A A ND1 CE1 NE2 HIS HIS HIS 34 34 34 N 1 8.57 1.30 111.50 120.07 A A A ND1 CE1 NE2 HIS HIS HIS 77 77 77 N 1 8.00 1.30 111.50 119.50 A A A ND1 CE1 NE2 HIS HIS HIS 129 129 129 N 1 4.62 0.50 120.30 124.92 A A A NE CZ NH1 ARG ARG ARG 132 132 132 N 1 3.53 0.50 120.30 123.83 A A A NE CZ NH1 ARG ARG ARG 134 134 134 N 1 3.19 0.50 120.30 123.49 A A A NE CZ NH1 ARG ARG ARG 146 146 146 N 1 4.52 0.50 120.30 124.82 B B B NE CZ NH1 ARG ARG ARG 42 42 42 N 1 3.63 0.50 120.30 123.93 B B B NE CZ NH1 ARG ARG ARG 54 54 54 N 1 -3.13 0.50 120.30 117.17 B B B NE CZ NH2 ARG ARG ARG 54 54 54 N 1 8.60 1.30 111.50 120.10 B B B ND1 CE1 NE2 HIS HIS HIS 68 68 68 N 1 3.75 0.50 120.30 124.05 B B B NE CZ NH1 ARG ARG ARG 72 72 72 N 1 4.70 0.50 120.30 125.00 B B B NE CZ NH1 ARG ARG ARG 74 74 74 N 1 A A CG CD2 HIS HIS 21 21 0.057 0.009 1.354 1.411 N 1 A A CG CD2 HIS HIS 34 34 0.055 0.009 1.354 1.409 N 1 A A C OXT SER SER 150 150 0.136 0.019 1.229 1.365 N 1 A LYS 5 -84.34 43.61 1 A ARG 6 -142.92 -66.92 1 A LEU 24 -100.34 79.90 1 A SER 28 -81.13 -93.39 1 A GLU 29 -136.82 -73.45 1 A ASP 31 -83.89 -142.47 1 A HIS 33 -159.20 -57.65 1 A THR 45 -173.93 149.24 1 A PRO 46 -47.08 -10.46 1 A ASN 94 -120.30 -63.22 1 A ASN 119 -126.73 -59.09 1 A GLN 122 -105.77 -89.52 1 A ARG 134 -141.90 42.86 1 A GLU 135 -140.85 -60.57 1 A LEU 147 -90.82 -65.02 1 B LEU 8 -96.01 57.85 1 B THR 9 -137.46 -33.65 1 B PRO 19 -49.53 -18.35 1 B ASP 32 -51.79 -85.48 1 B ALA 46 51.41 86.72 1 B LEU 73 -90.00 -136.12 1 B ARG 74 -152.70 60.01 STRUCTURE OF A CONJUGATING ENZYME-UBIQUITIN THIOLESTER COMPLEX 1 N N 2 N N A ARG 3 A ARG 2 HELX_P A ASP 17 A ASP 16 1 1 15 A PRO 18 A PRO 17 HELX_P A HIS 21 A HIS 20 5 2 4 A LEU 89 A LEU 88 HELX_P A ASN 94 A ASN 93 1 3 6 A THR 101 A THR 100 HELX_P A SER 115 A SER 114 1 4 15 A ASP 123 A ASP 122 HELX_P A ASP 133 A ASP 132 1 5 11 A GLU 135 A GLU 134 HELX_P A ALA 149 A ALA 148 1 6 15 B THR 22 B THR 22 HELX_P B GLU 34 B GLU 34 1 7 13 B LEU 56 B LEU 56 HELX_P B ASN 60 B ASN 60 5 8 5 LIGASE Model of the interaction between yeast Ubc1 and Ubiquitin after the formation of a covalent thiolester, LIGASE UBC1_YEAST UNP 1 2 P21734 SRAKRIMKEIQAVKDDPAAHITLEFVSESDIHHLKGTFLGPPGTPYEGGKFVVDIEVPMEYPFKPPKMQFDTKVYHPNIS SVTGAICLDILKNAWSPVITLKSALISLQALLQSPEPNDPQDAEVAQHYLRDRESFNKTAALWTRLYAS UBIQ_HUMAN UNP 2 1 P62988 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 2 150 1FXT 2 150 P21734 A 1 1 149 1 76 1FXT 1 76 P62988 B 2 1 76 4 4 anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel A THR 23 A THR 22 A PHE 26 A PHE 25 A HIS 34 A HIS 33 A LEU 40 A LEU 39 A LYS 51 A LYS 50 A GLU 57 A GLU 56 A LYS 68 A LYS 67 A PHE 71 A PHE 70 B ILE 13 B ILE 13 B GLU 16 B GLU 16 B GLN 2 B GLN 2 B LYS 6 B LYS 6 B THR 66 B THR 66 B LEU 71 B LEU 71 B GLN 41 B GLN 41 B ILE 44 B ILE 44