2YVL - Sequence, Chains, Asymmetric and Biological Units

• Title: CRYSTAL STRUCTURE OF TRNA (M1A58) METHYLTRANSFERASE TRMI FRO AEOLICUS
• Keywords: TRNA, METHYLTRANSFERASE, S-ADENOSYLMETHIONINE, STRUCTURAL GE NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTION ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, TRANSFERASE
• Experiment: X-ray diffraction
• Number of Models: 1

Database	ID code	Status	Coordinate files
			Header	Asymmetric unit	Biological unit
PDB	2YVL	released	available	available	Quaternary Structure Server

Asymmetric unit from PDB

Unit	Type	Name	Chain ID	Residues	Atoms	Hetatoms
1	Protein	HYPOTHETICAL PROTEIN	A	247	2023	0
2	Protein	HYPOTHETICAL PROTEIN	B	247	2023	0
3	Protein	HYPOTHETICAL PROTEIN	C	247	2023	0
4	Protein	HYPOTHETICAL PROTEIN	D	247	2023	0
5	Ligand	HYPOTHETICAL PROTEIN	A	1	0	27
6	Ligand	HYPOTHETICAL PROTEIN	B	1	0	27
7	Ligand	HYPOTHETICAL PROTEIN	C	1	0	27
8	Ligand	HYPOTHETICAL PROTEIN	D	1	0	27
9	Water			537	0	537
total				1529	8092	645

Proteins

Unit 1	ASN 2 SER 3 PHE 4 LYS 5 GLU 6 GLY 7 GLU 8 TYR 9 VAL 10 LEU 11 ILE 12 ARG 13 PHE 14 GLY 15 GLU 16 LYS 17 LYS 18 PHE 19 LEU 20 ARG 21 LYS 22 LEU 23 LEU 24 PRO 25 LYS 26 GLN 27 SER 28 LEU 29 SER 30 VAL 31 LYS 32 LYS 33 SER 34 VAL 35 LEU 36 LYS 37 PHE 38 ASP 39 GLU 40 VAL 41 ILE 42 GLY 43 LYS 44 PRO 45 GLU 46 GLY 47 VAL 48 LYS 49 ILE 50 ASN 51 GLY 52 PHE 53 GLU 54 VAL 55 TYR 56 ARG 57 PRO 58 THR 59 LEU 60 GLU 61 GLU 62 ILE 63 ILE 64 LEU 65 LEU 66 GLY 67 PHE 68 GLU 69 ARG 70 LYS 71 THR 72 GLN 73 ILE 74 ILE 75 TYR 76 PRO 77 LYS 78 ASP 79 SER 80 PHE 81 TYR 82 ILE 83 ALA 84 LEU 85 LYS 86 LEU 87 ASN 88 LEU 89 ASN 90 LYS 91 GLU 92 LYS 93 ARG 94 VAL 95 LEU 96 GLU 97 PHE 98 GLY 99 THR 100 GLY 101 SER 102 GLY 103 ALA 104 LEU 105 LEU 106 ALA 107 VAL 108 LEU 109 SER 110 GLU 111 VAL 112 ALA 113 GLY 114 GLU 115 VAL 116 TRP 117 THR 118 PHE 119 GLU 120 ALA 121 VAL 122 GLU 123 GLU 124 PHE 125 TYR 126 LYS 127 THR 128 ALA 129 GLN 130 LYS 131 ASN 132 LEU 133 LYS 134 LYS 135 PHE 136 ASN 137 LEU 138 GLY 139 LYS 140 ASN 141 VAL 142 LYS 143 PHE 144 PHE 145 ASN 146 VAL 147 ASP 148 PHE 149 LYS 150 ASP 151 ALA 152 GLU 153 VAL 154 PRO 155 GLU 156 GLY 157 ILE 158 PHE 159 HIS 160 ALA 161 ALA 162 PHE 163 VAL 164 ASP 165 VAL 166 ARG 167 GLU 168 PRO 169 TRP 170 HIS 171 TYR 172 LEU 173 GLU 174 LYS 175 VAL 176 HIS 177 LYS 178 SER 179 LEU 180 MET 181 GLU 182 GLY 183 ALA 184 PRO 185 VAL 186 GLY 187 PHE 188 LEU 189 LEU 190 PRO 191 THR 192 ALA 193 ASN 194 GLN 195 VAL 196 ILE 197 LYS 198 LEU 199 LEU 200 GLU 201 SER 202 ILE 203 GLU 204 ASN 205 TYR 206 PHE 207 GLY 208 ASN 209 LEU 210 GLU 211 VAL 212 VAL 213 GLU 214 ILE 215 LEU 216 HIS 217 ARG 218 HIS 219 TYR 220 LYS 221 THR 222 ILE 223 SER 224 GLU 225 ARG 226 PHE 227 ARG 228 PRO 229 GLU 230 ASP 231 GLN 232 MET 233 VAL 234 ALA 235 HIS 236 THR 237 ALA 238 TYR 239 LEU 240 VAL 241 PHE 242 GLY 243 ARG 244 LYS 245 LEU 246 LYS 247 THR 248
Unit 2	ASN 2 SER 3 PHE 4 LYS 5 GLU 6 GLY 7 GLU 8 TYR 9 VAL 10 LEU 11 ILE 12 ARG 13 PHE 14 GLY 15 GLU 16 LYS 17 LYS 18 PHE 19 LEU 20 ARG 21 LYS 22 LEU 23 LEU 24 PRO 25 LYS 26 GLN 27 SER 28 LEU 29 SER 30 VAL 31 LYS 32 LYS 33 SER 34 VAL 35 LEU 36 LYS 37 PHE 38 ASP 39 GLU 40 VAL 41 ILE 42 GLY 43 LYS 44 PRO 45 GLU 46 GLY 47 VAL 48 LYS 49 ILE 50 ASN 51 GLY 52 PHE 53 GLU 54 VAL 55 TYR 56 ARG 57 PRO 58 THR 59 LEU 60 GLU 61 GLU 62 ILE 63 ILE 64 LEU 65 LEU 66 GLY 67 PHE 68 GLU 69 ARG 70 LYS 71 THR 72 GLN 73 ILE 74 ILE 75 TYR 76 PRO 77 LYS 78 ASP 79 SER 80 PHE 81 TYR 82 ILE 83 ALA 84 LEU 85 LYS 86 LEU 87 ASN 88 LEU 89 ASN 90 LYS 91 GLU 92 LYS 93 ARG 94 VAL 95 LEU 96 GLU 97 PHE 98 GLY 99 THR 100 GLY 101 SER 102 GLY 103 ALA 104 LEU 105 LEU 106 ALA 107 VAL 108 LEU 109 SER 110 GLU 111 VAL 112 ALA 113 GLY 114 GLU 115 VAL 116 TRP 117 THR 118 PHE 119 GLU 120 ALA 121 VAL 122 GLU 123 GLU 124 PHE 125 TYR 126 LYS 127 THR 128 ALA 129 GLN 130 LYS 131 ASN 132 LEU 133 LYS 134 LYS 135 PHE 136 ASN 137 LEU 138 GLY 139 LYS 140 ASN 141 VAL 142 LYS 143 PHE 144 PHE 145 ASN 146 VAL 147 ASP 148 PHE 149 LYS 150 ASP 151 ALA 152 GLU 153 VAL 154 PRO 155 GLU 156 GLY 157 ILE 158 PHE 159 HIS 160 ALA 161 ALA 162 PHE 163 VAL 164 ASP 165 VAL 166 ARG 167 GLU 168 PRO 169 TRP 170 HIS 171 TYR 172 LEU 173 GLU 174 LYS 175 VAL 176 HIS 177 LYS 178 SER 179 LEU 180 MET 181 GLU 182 GLY 183 ALA 184 PRO 185 VAL 186 GLY 187 PHE 188 LEU 189 LEU 190 PRO 191 THR 192 ALA 193 ASN 194 GLN 195 VAL 196 ILE 197 LYS 198 LEU 199 LEU 200 GLU 201 SER 202 ILE 203 GLU 204 ASN 205 TYR 206 PHE 207 GLY 208 ASN 209 LEU 210 GLU 211 VAL 212 VAL 213 GLU 214 ILE 215 LEU 216 HIS 217 ARG 218 HIS 219 TYR 220 LYS 221 THR 222 ILE 223 SER 224 GLU 225 ARG 226 PHE 227 ARG 228 PRO 229 GLU 230 ASP 231 GLN 232 MET 233 VAL 234 ALA 235 HIS 236 THR 237 ALA 238 TYR 239 LEU 240 VAL 241 PHE 242 GLY 243 ARG 244 LYS 245 LEU 246 LYS 247 THR 248
Unit 3	ASN 2 SER 3 PHE 4 LYS 5 GLU 6 GLY 7 GLU 8 TYR 9 VAL 10 LEU 11 ILE 12 ARG 13 PHE 14 GLY 15 GLU 16 LYS 17 LYS 18 PHE 19 LEU 20 ARG 21 LYS 22 LEU 23 LEU 24 PRO 25 LYS 26 GLN 27 SER 28 LEU 29 SER 30 VAL 31 LYS 32 LYS 33 SER 34 VAL 35 LEU 36 LYS 37 PHE 38 ASP 39 GLU 40 VAL 41 ILE 42 GLY 43 LYS 44 PRO 45 GLU 46 GLY 47 VAL 48 LYS 49 ILE 50 ASN 51 GLY 52 PHE 53 GLU 54 VAL 55 TYR 56 ARG 57 PRO 58 THR 59 LEU 60 GLU 61 GLU 62 ILE 63 ILE 64 LEU 65 LEU 66 GLY 67 PHE 68 GLU 69 ARG 70 LYS 71 THR 72 GLN 73 ILE 74 ILE 75 TYR 76 PRO 77 LYS 78 ASP 79 SER 80 PHE 81 TYR 82 ILE 83 ALA 84 LEU 85 LYS 86 LEU 87 ASN 88 LEU 89 ASN 90 LYS 91 GLU 92 LYS 93 ARG 94 VAL 95 LEU 96 GLU 97 PHE 98 GLY 99 THR 100 GLY 101 SER 102 GLY 103 ALA 104 LEU 105 LEU 106 ALA 107 VAL 108 LEU 109 SER 110 GLU 111 VAL 112 ALA 113 GLY 114 GLU 115 VAL 116 TRP 117 THR 118 PHE 119 GLU 120 ALA 121 VAL 122 GLU 123 GLU 124 PHE 125 TYR 126 LYS 127 THR 128 ALA 129 GLN 130 LYS 131 ASN 132 LEU 133 LYS 134 LYS 135 PHE 136 ASN 137 LEU 138 GLY 139 LYS 140 ASN 141 VAL 142 LYS 143 PHE 144 PHE 145 ASN 146 VAL 147 ASP 148 PHE 149 LYS 150 ASP 151 ALA 152 GLU 153 VAL 154 PRO 155 GLU 156 GLY 157 ILE 158 PHE 159 HIS 160 ALA 161 ALA 162 PHE 163 VAL 164 ASP 165 VAL 166 ARG 167 GLU 168 PRO 169 TRP 170 HIS 171 TYR 172 LEU 173 GLU 174 LYS 175 VAL 176 HIS 177 LYS 178 SER 179 LEU 180 MET 181 GLU 182 GLY 183 ALA 184 PRO 185 VAL 186 GLY 187 PHE 188 LEU 189 LEU 190 PRO 191 THR 192 ALA 193 ASN 194 GLN 195 VAL 196 ILE 197 LYS 198 LEU 199 LEU 200 GLU 201 SER 202 ILE 203 GLU 204 ASN 205 TYR 206 PHE 207 GLY 208 ASN 209 LEU 210 GLU 211 VAL 212 VAL 213 GLU 214 ILE 215 LEU 216 HIS 217 ARG 218 HIS 219 TYR 220 LYS 221 THR 222 ILE 223 SER 224 GLU 225 ARG 226 PHE 227 ARG 228 PRO 229 GLU 230 ASP 231 GLN 232 MET 233 VAL 234 ALA 235 HIS 236 THR 237 ALA 238 TYR 239 LEU 240 VAL 241 PHE 242 GLY 243 ARG 244 LYS 245 LEU 246 LYS 247 THR 248
Unit 4	ASN 2 SER 3 PHE 4 LYS 5 GLU 6 GLY 7 GLU 8 TYR 9 VAL 10 LEU 11 ILE 12 ARG 13 PHE 14 GLY 15 GLU 16 LYS 17 LYS 18 PHE 19 LEU 20 ARG 21 LYS 22 LEU 23 LEU 24 PRO 25 LYS 26 GLN 27 SER 28 LEU 29 SER 30 VAL 31 LYS 32 LYS 33 SER 34 VAL 35 LEU 36 LYS 37 PHE 38 ASP 39 GLU 40 VAL 41 ILE 42 GLY 43 LYS 44 PRO 45 GLU 46 GLY 47 VAL 48 LYS 49 ILE 50 ASN 51 GLY 52 PHE 53 GLU 54 VAL 55 TYR 56 ARG 57 PRO 58 THR 59 LEU 60 GLU 61 GLU 62 ILE 63 ILE 64 LEU 65 LEU 66 GLY 67 PHE 68 GLU 69 ARG 70 LYS 71 THR 72 GLN 73 ILE 74 ILE 75 TYR 76 PRO 77 LYS 78 ASP 79 SER 80 PHE 81 TYR 82 ILE 83 ALA 84 LEU 85 LYS 86 LEU 87 ASN 88 LEU 89 ASN 90 LYS 91 GLU 92 LYS 93 ARG 94 VAL 95 LEU 96 GLU 97 PHE 98 GLY 99 THR 100 GLY 101 SER 102 GLY 103 ALA 104 LEU 105 LEU 106 ALA 107 VAL 108 LEU 109 SER 110 GLU 111 VAL 112 ALA 113 GLY 114 GLU 115 VAL 116 TRP 117 THR 118 PHE 119 GLU 120 ALA 121 VAL 122 GLU 123 GLU 124 PHE 125 TYR 126 LYS 127 THR 128 ALA 129 GLN 130 LYS 131 ASN 132 LEU 133 LYS 134 LYS 135 PHE 136 ASN 137 LEU 138 GLY 139 LYS 140 ASN 141 VAL 142 LYS 143 PHE 144 PHE 145 ASN 146 VAL 147 ASP 148 PHE 149 LYS 150 ASP 151 ALA 152 GLU 153 VAL 154 PRO 155 GLU 156 GLY 157 ILE 158 PHE 159 HIS 160 ALA 161 ALA 162 PHE 163 VAL 164 ASP 165 VAL 166 ARG 167 GLU 168 PRO 169 TRP 170 HIS 171 TYR 172 LEU 173 GLU 174 LYS 175 VAL 176 HIS 177 LYS 178 SER 179 LEU 180 MET 181 GLU 182 GLY 183 ALA 184 PRO 185 VAL 186 GLY 187 PHE 188 LEU 189 LEU 190 PRO 191 THR 192 ALA 193 ASN 194 GLN 195 VAL 196 ILE 197 LYS 198 LEU 199 LEU 200 GLU 201 SER 202 ILE 203 GLU 204 ASN 205 TYR 206 PHE 207 GLY 208 ASN 209 LEU 210 GLU 211 VAL 212 VAL 213 GLU 214 ILE 215 LEU 216 HIS 217 ARG 218 HIS 219 TYR 220 LYS 221 THR 222 ILE 223 SER 224 GLU 225 ARG 226 PHE 227 ARG 228 PRO 229 GLU 230 ASP 231 GLN 232 MET 233 VAL 234 ALA 235 HIS 236 THR 237 ALA 238 TYR 239 LEU 240 VAL 241 PHE 242 GLY 243 ARG 244 LYS 245 LEU 246 LYS 247 THR 248

Ligands

Unit 5	SAM 601
Unit 6	SAM 602
Unit 7	SAM 604
Unit 8	SAM 603