0.031153 -0.011524 0.011736 0.000000 0.023078 0.003710 0.000000 0.000000 0.043416 0.00000 0.00000 0.00000 THERE IS AN UNUSUAL ISOPEPTIDE BOND BETWEEN THE SIDE CHAIN OF LYS B 48 FROM ONE UBIQUITIN MOIETY AND THE CARBOXYL TERMINUS GLY A 76 OF THE OTHER UBIQUITIN MOIETY. Cook, W.J. Jeffrey, L.C. Carson, M. Chen, Z. Pickart, C.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 2 105.90 113.30 69.70 32.100 46.200 25.400 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 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 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 J.Biol.Chem. JBCHA3 0071 0021-9258 267 16467 16471 1322903 Structure of a diubiquitin conjugate and a model for interaction with ubiquitin conjugating enzyme (E2). 1992 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 x-ray 1 1.0 8576.831 DI-UBIQUITIN 2 man polymer 18.015 water 15 nat water no no MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG A,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 cattle Bos sample 9913 Bos taurus 1.87 34.12 repository Initial release Version format compliance Version format compliance 1 0 1993-10-31 1 1 2008-03-10 1 2 2011-07-13 Y 1992-04-17 REL REL HOH water THERE IS AN UNUSUAL ISOPEPTIDE BOND BETWEEN THE SIDE CHAIN OF LYS B 48 FROM ONE UBIQUITIN MOIETY AND THE CARBOXYL TERMINUS GLY A 76 OF THE OTHER UBIQUITIN MOIETY. HOH 202 2 HOH HOH 202 A HOH 203 2 HOH HOH 203 A HOH 206 2 HOH HOH 206 A HOH 208 2 HOH HOH 208 A HOH 210 2 HOH HOH 210 A HOH 211 2 HOH HOH 211 A HOH 214 2 HOH HOH 214 A HOH 201 2 HOH HOH 201 B HOH 204 2 HOH HOH 204 B HOH 205 2 HOH HOH 205 B HOH 207 2 HOH HOH 207 B HOH 209 2 HOH HOH 209 B HOH 212 2 HOH HOH 212 B HOH 213 2 HOH HOH 213 B HOH 215 2 HOH HOH 215 B 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 GLN 41 n 41 GLN 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 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_and_software_defined_assembly PISA 2 dimeric 1480 -8 7950 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 1 B B OE1 OE2 GLN GLU 2 64 2.19 1 3.40 0.50 120.30 123.70 A A A NE CZ NH1 ARG ARG ARG 42 42 42 N 1 7.91 1.20 123.30 131.21 A A A OE1 CD OE2 GLU GLU GLU 51 51 51 N 1 6.00 0.90 118.30 124.30 A A A CB CG OD1 ASP ASP ASP 52 52 52 N 1 3.15 0.50 120.30 123.45 A A A NE CZ NH1 ARG ARG ARG 54 54 54 N 1 -4.19 0.50 120.30 116.11 A A A NE CZ NH2 ARG ARG ARG 54 54 54 N 1 17.29 2.30 115.30 132.59 B B B CA CB CG LEU LEU LEU 15 15 15 N 1 17.88 2.20 113.40 131.28 B B B CA CB CG LYS LYS LYS 33 33 33 N 1 19.69 1.80 110.60 130.29 B B B N CA CB ARG ARG ARG 72 72 72 N 1 10.06 1.40 123.60 133.66 B B B CD NE CZ ARG ARG ARG 72 72 72 N 1 3.14 0.50 120.30 123.44 B B B NE CZ NH1 ARG ARG ARG 72 72 72 N 1 B ARG 74 -138.04 -65.02 0.1900000 0.1900000 2.3 1 2.3 15 1218 0 0 1203 0.020 4.0 model building X-PLOR refinement X-PLOR phasing X-PLOR DI-UBIQUITIN STRUCTURE OF A DIUBIQUITIN CONJUGATE AND A MODEL FOR INTERACTION WITH UBIQUITIN CONJUGATING ENZYME (E2) 1 N N 1 N N 2 N N 2 N N A ILE 23 A ILE 23 HELX_P A GLU 34 A GLU 34 1 A 12 A LEU 56 A LEU 56 HELX_P A TYR 59 A TYR 59 5 B 4 B ILE 23 B ILE 23 HELX_P B GLU 34 B GLU 34 1 C 12 B LEU 56 B LEU 56 HELX_P B TYR 59 B TYR 59 5 D 4 covale 1.308 A GLY 76 A C GLY 76 1_555 B LYS 48 B NZ LYS 48 1_555 UBIQUITIN UBIQUITIN UBIQ_BOVIN UNP 1 1 P62990 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 1 76 1AAR 1 76 P62990 A 1 1 76 1 76 1AAR 1 76 P62990 B 1 1 76 5 5 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A MET 1 A MET 1 A THR 7 A THR 7 A LYS 11 A LYS 11 A VAL 17 A VAL 17 A GLN 40 A GLN 40 A PHE 45 A PHE 45 A LYS 48 A LYS 48 A LEU 50 A LEU 50 A SER 65 A SER 65 A ARG 72 A ARG 72 B MET 1 B MET 1 B THR 7 B THR 7 B LYS 11 B LYS 11 B VAL 17 B VAL 17 B GLN 40 B GLN 40 B PHE 45 B PHE 45 B LYS 48 B LYS 48 B LEU 50 B LEU 50 B SER 65 B SER 65 B ARG 72 B ARG 72 1 P 1