2NV1 - Sequence, Chains, Asymmetric and Biological Units

• Title: STRUCTURE OF THE SYNTHASE SUBUNIT PDX1 (YAAD) OF PLP SYNTHAS BACILLUS SUBTILIS
• Keywords: (BETA/ALPHA)8-BARREL, SYNTHASE, LYASE
• Experiment: X-ray diffraction
• Number of Models: 1

Database	ID code	Status	Coordinate files
			Header	Asymmetric unit	Biological unit
PDB	2NV1	released	available	available	Quaternary Structure Server

Asymmetric unit from PDB

Unit	Type	Name	Chain ID	Residues	Atoms	Hetatoms
1	Protein	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	A	259	1920	0
2	Protein	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	B	252	1868	0
3	Protein	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	C	256	1905	0
4	Protein	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	D	256	1901	0
5	Protein	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	E	256	1901	0
6	Protein	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	F	250	1845	0
7	Ligand	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	A	7	0	13
8	Ligand	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	B	5	0	11
9	Ligand	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	C	8	0	17
10	Ligand	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	D	5	0	8
11	Ligand	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	E	5	0	8
12	Ligand	PYRIDOXAL BIOSYNTHESIS LYASE PDXS	F	5	0	11
13	Water			2367	0	2367
total				3931	11340	2435

Proteins

Unit 1	THR 6 GLU 7 ARG 8 VAL 9 LYS 10 ARG 11 GLY 12 MET 13 ALA 14 GLU 15 MET 16 GLN 17 LYS 18 GLY 19 GLY 20 VAL 21 ILE 22 MET 23 ASP 24 VAL 25 ILE 26 ASN 27 ALA 28 GLU 29 GLN 30 ALA 31 LYS 32 ILE 33 ALA 34 GLU 35 GLU 36 ALA 37 GLY 38 ALA 39 VAL 40 ALA 41 VAL 42 MET 43 ALA 44 LEU 45 GLU 46 ARG 47 ALA 55 GLY 56 GLY 57 VAL 58 ALA 59 ARG 60 MET 61 ALA 62 ASP 63 PRO 64 THR 65 ILE 66 VAL 67 GLU 68 GLU 69 VAL 70 MET 71 ASN 72 ALA 73 VAL 74 SER 75 ILE 76 PRO 77 VAL 78 MET 79 ALA 80 LYS 81 ALA 82 ARG 83 ILE 84 GLY 85 HIS 86 ILE 87 VAL 88 GLU 89 ALA 90 ARG 91 VAL 92 LEU 93 GLU 94 ALA 95 MET 96 GLY 97 VAL 98 ASP 99 TYR 100 ILE 101 ASP 102 GLU 103 SER 104 GLU 105 VAL 106 LEU 107 THR 108 PRO 109 ALA 110 ASP 111 GLU 112 GLU 113 PHE 114 HIS 115 LEU 116 ASN 117 LYS 118 ASN 119 GLU 120 TYR 121 THR 122 VAL 123 PRO 124 PHE 125 VAL 126 CYS 127 GLY 128 CYS 129 ARG 130 ASP 131 LEU 132 GLY 133 GLU 134 ALA 135 THR 136 ARG 137 ARG 138 ILE 139 ALA 140 GLU 141 GLY 142 ALA 143 SER 144 MET 145 LEU 146 ARG 147 THR 148 LYS 149 GLY 150 GLU 151 PRO 152 GLY 153 THR 154 GLY 155 ASN 156 ILE 157 VAL 158 GLU 159 ALA 160 VAL 161 ARG 162 HIS 163 MET 164 ARG 165 LYS 166 VAL 167 ASN 168 ALA 169 GLN 170 VAL 171 ARG 172 LYS 173 VAL 174 VAL 175 ALA 176 MET 177 SER 178 GLU 179 ASP 180 GLU 181 LEU 182 MET 183 THR 184 GLU 185 ALA 186 LYS 187 ASN 188 LEU 189 GLY 190 ALA 191 PRO 192 TYR 193 GLU 194 LEU 195 LEU 196 LEU 197 GLN 198 ILE 199 LYS 200 LYS 201 ASP 202 GLY 203 LYS 204 LEU 205 PRO 206 VAL 207 VAL 208 ASN 209 PHE 210 ALA 211 ALA 212 GLY 213 GLY 214 VAL 215 ALA 216 THR 217 PRO 218 ALA 219 ASP 220 ALA 221 ALA 222 LEU 223 MET 224 MET 225 GLN 226 LEU 227 GLY 228 ALA 229 ASP 230 GLY 231 VAL 232 PHE 233 VAL 234 GLY 235 SER 236 GLY 237 ILE 238 PHE 239 LYS 240 SER 241 ASP 242 ASN 243 PRO 244 ALA 245 LYS 246 PHE 247 ALA 248 LYS 249 ALA 250 ILE 251 VAL 252 GLU 253 ALA 254 THR 255 THR 256 HIS 257 PHE 258 THR 259 ASP 260 TYR 261 LYS 262 LEU 263 ILE 264 ALA 265 GLU 266 LEU 267 SER 268 LYS 269 GLU 270 LEU 271
Unit 2	LYS 10 ARG 11 GLY 12 MET 13 ALA 14 GLU 15 MET 16 GLN 17 LYS 18 GLY 19 GLY 20 VAL 21 ILE 22 MET 23 ASP 24 VAL 25 ILE 26 ASN 27 ALA 28 GLU 29 GLN 30 ALA 31 LYS 32 ILE 33 ALA 34 GLU 35 GLU 36 ALA 37 GLY 38 ALA 39 VAL 40 ALA 41 VAL 42 MET 43 ALA 44 LEU 45 GLU 46 ARG 47 GLY 57 VAL 58 ALA 59 ARG 60 MET 61 ALA 62 ASP 63 PRO 64 THR 65 ILE 66 VAL 67 GLU 68 GLU 69 VAL 70 MET 71 ASN 72 ALA 73 VAL 74 SER 75 ILE 76 PRO 77 VAL 78 MET 79 ALA 80 LYS 81 ALA 82 ARG 83 ILE 84 GLY 85 HIS 86 ILE 87 VAL 88 GLU 89 ALA 90 ARG 91 VAL 92 LEU 93 GLU 94 ALA 95 MET 96 GLY 97 VAL 98 ASP 99 TYR 100 ILE 101 ASP 102 GLU 103 SER 104 GLU 105 VAL 106 LEU 107 THR 108 PRO 109 ALA 110 ASP 111 GLU 112 GLU 113 PHE 114 HIS 115 LEU 116 ASN 117 LYS 118 ASN 119 GLU 120 TYR 121 THR 122 VAL 123 PRO 124 PHE 125 VAL 126 CYS 127 GLY 128 CYS 129 ARG 130 ASP 131 LEU 132 GLY 133 GLU 134 ALA 135 THR 136 ARG 137 ARG 138 ILE 139 ALA 140 GLU 141 GLY 142 ALA 143 SER 144 MET 145 LEU 146 ARG 147 THR 148 LYS 149 GLY 150 GLU 151 PRO 152 GLY 153 THR 154 GLY 155 ASN 156 ILE 157 VAL 158 GLU 159 ALA 160 VAL 161 ARG 162 HIS 163 MET 164 ARG 165 LYS 166 VAL 167 ASN 168 ALA 169 GLN 170 VAL 171 ARG 172 LYS 173 VAL 174 VAL 175 ALA 176 MET 177 SER 178 GLU 179 ASP 180 GLU 181 LEU 182 MET 183 THR 184 GLU 185 ALA 186 LYS 187 ASN 188 LEU 189 GLY 190 ALA 191 PRO 192 TYR 193 GLU 194 LEU 195 LEU 196 LEU 197 GLN 198 ILE 199 LYS 200 LYS 201 ASP 202 GLY 203 LYS 204 LEU 205 PRO 206 VAL 207 VAL 208 ASN 209 PHE 210 ALA 211 ALA 212 GLY 213 GLY 214 VAL 215 ALA 216 THR 217 PRO 218 ALA 219 ASP 220 ALA 221 ALA 222 LEU 223 MET 224 MET 225 GLN 226 LEU 227 GLY 228 ALA 229 ASP 230 GLY 231 VAL 232 PHE 233 VAL 234 GLY 235 SER 236 GLY 237 ILE 238 PHE 239 LYS 240 SER 241 ASP 242 ASN 243 PRO 244 ALA 245 LYS 246 PHE 247 ALA 248 LYS 249 ALA 250 ILE 251 VAL 252 GLU 253 ALA 254 THR 255 THR 256 HIS 257 PHE 258 THR 259 ASP 260 TYR 261 LYS 262 LEU 263 ILE 264 ALA 265 GLU 266 LEU 267 SER 268 LYS 269 GLU 270
Unit 3	GLU 7 ARG 8 VAL 9 LYS 10 ARG 11 GLY 12 MET 13 ALA 14 GLU 15 MET 16 GLN 17 LYS 18 GLY 19 GLY 20 VAL 21 ILE 22 MET 23 ASP 24 VAL 25 ILE 26 ASN 27 ALA 28 GLU 29 GLN 30 ALA 31 LYS 32 ILE 33 ALA 34 GLU 35 GLU 36 ALA 37 GLY 38 ALA 39 VAL 40 ALA 41 VAL 42 MET 43 ALA 44 LEU 45 GLU 46 ARG 47 GLY 57 VAL 58 ALA 59 ARG 60 MET 61 ALA 62 ASP 63 PRO 64 THR 65 ILE 66 VAL 67 GLU 68 GLU 69 VAL 70 MET 71 ASN 72 ALA 73 VAL 74 SER 75 ILE 76 PRO 77 VAL 78 MET 79 ALA 80 LYS 81 ALA 82 ARG 83 ILE 84 GLY 85 HIS 86 ILE 87 VAL 88 GLU 89 ALA 90 ARG 91 VAL 92 LEU 93 GLU 94 ALA 95 MET 96 GLY 97 VAL 98 ASP 99 TYR 100 ILE 101 ASP 102 GLU 103 SER 104 GLU 105 VAL 106 LEU 107 THR 108 PRO 109 ALA 110 ASP 111 GLU 112 GLU 113 PHE 114 HIS 115 LEU 116 ASN 117 LYS 118 ASN 119 GLU 120 TYR 121 THR 122 VAL 123 PRO 124 PHE 125 VAL 126 CYS 127 GLY 128 CYS 129 ARG 130 ASP 131 LEU 132 GLY 133 GLU 134 ALA 135 THR 136 ARG 137 ARG 138 ILE 139 ALA 140 GLU 141 GLY 142 ALA 143 SER 144 MET 145 LEU 146 ARG 147 THR 148 LYS 149 GLY 150 GLU 151 PRO 152 GLY 153 THR 154 GLY 155 ASN 156 ILE 157 VAL 158 GLU 159 ALA 160 VAL 161 ARG 162 HIS 163 MET 164 ARG 165 LYS 166 VAL 167 ASN 168 ALA 169 GLN 170 VAL 171 ARG 172 LYS 173 VAL 174 VAL 175 ALA 176 MET 177 SER 178 GLU 179 ASP 180 GLU 181 LEU 182 MET 183 THR 184 GLU 185 ALA 186 LYS 187 ASN 188 LEU 189 GLY 190 ALA 191 PRO 192 TYR 193 GLU 194 LEU 195 LEU 196 LEU 197 GLN 198 ILE 199 LYS 200 LYS 201 ASP 202 GLY 203 LYS 204 LEU 205 PRO 206 VAL 207 VAL 208 ASN 209 PHE 210 ALA 211 ALA 212 GLY 213 GLY 214 VAL 215 ALA 216 THR 217 PRO 218 ALA 219 ASP 220 ALA 221 ALA 222 LEU 223 MET 224 MET 225 GLN 226 LEU 227 GLY 228 ALA 229 ASP 230 GLY 231 VAL 232 PHE 233 VAL 234 GLY 235 SER 236 GLY 237 ILE 238 PHE 239 LYS 240 SER 241 ASP 242 ASN 243 PRO 244 ALA 245 LYS 246 PHE 247 ALA 248 LYS 249 ALA 250 ILE 251 VAL 252 GLU 253 ALA 254 THR 255 THR 256 HIS 257 PHE 258 THR 259 ASP 260 TYR 261 LYS 262 LEU 263 ILE 264 ALA 265 GLU 266 LEU 267 SER 268 LYS 269 GLU 270 LEU 271
Unit 4	ARG 8 VAL 9 LYS 10 ARG 11 GLY 12 MET 13 ALA 14 GLU 15 MET 16 GLN 17 LYS 18 GLY 19 GLY 20 VAL 21 ILE 22 MET 23 ASP 24 VAL 25 ILE 26 ASN 27 ALA 28 GLU 29 GLN 30 ALA 31 LYS 32 ILE 33 ALA 34 GLU 35 GLU 36 ALA 37 GLY 38 ALA 39 VAL 40 ALA 41 VAL 42 MET 43 ALA 44 LEU 45 GLU 46 ARG 47 GLY 57 VAL 58 ALA 59 ARG 60 MET 61 ALA 62 ASP 63 PRO 64 THR 65 ILE 66 VAL 67 GLU 68 GLU 69 VAL 70 MET 71 ASN 72 ALA 73 VAL 74 SER 75 ILE 76 PRO 77 VAL 78 MET 79 ALA 80 LYS 81 ALA 82 ARG 83 ILE 84 GLY 85 HIS 86 ILE 87 VAL 88 GLU 89 ALA 90 ARG 91 VAL 92 LEU 93 GLU 94 ALA 95 MET 96 GLY 97 VAL 98 ASP 99 TYR 100 ILE 101 ASP 102 GLU 103 SER 104 GLU 105 VAL 106 LEU 107 THR 108 PRO 109 ALA 110 ASP 111 GLU 112 GLU 113 PHE 114 HIS 115 LEU 116 ASN 117 LYS 118 ASN 119 GLU 120 TYR 121 THR 122 VAL 123 PRO 124 PHE 125 VAL 126 CYS 127 GLY 128 CYS 129 ARG 130 ASP 131 LEU 132 GLY 133 GLU 134 ALA 135 THR 136 ARG 137 ARG 138 ILE 139 ALA 140 GLU 141 GLY 142 ALA 143 SER 144 MET 145 LEU 146 ARG 147 THR 148 LYS 149 GLY 150 GLU 151 PRO 152 GLY 153 THR 154 GLY 155 ASN 156 ILE 157 VAL 158 GLU 159 ALA 160 VAL 161 ARG 162 HIS 163 MET 164 ARG 165 LYS 166 VAL 167 ASN 168 ALA 169 GLN 170 VAL 171 ARG 172 LYS 173 VAL 174 VAL 175 ALA 176 MET 177 SER 178 GLU 179 ASP 180 GLU 181 LEU 182 MET 183 THR 184 GLU 185 ALA 186 LYS 187 ASN 188 LEU 189 GLY 190 ALA 191 PRO 192 TYR 193 GLU 194 LEU 195 LEU 196 LEU 197 GLN 198 ILE 199 LYS 200 LYS 201 ASP 202 GLY 203 LYS 204 LEU 205 PRO 206 VAL 207 VAL 208 ASN 209 PHE 210 ALA 211 ALA 212 GLY 213 GLY 214 VAL 215 ALA 216 THR 217 PRO 218 ALA 219 ASP 220 ALA 221 ALA 222 LEU 223 MET 224 MET 225 GLN 226 LEU 227 GLY 228 ALA 229 ASP 230 GLY 231 VAL 232 PHE 233 VAL 234 GLY 235 SER 236 GLY 237 ILE 238 PHE 239 LYS 240 SER 241 ASP 242 ASN 243 PRO 244 ALA 245 LYS 246 PHE 247 ALA 248 LYS 249 ALA 250 ILE 251 VAL 252 GLU 253 ALA 254 THR 255 THR 256 HIS 257 PHE 258 THR 259 ASP 260 TYR 261 LYS 262 LEU 263 ILE 264 ALA 265 GLU 266 LEU 267 SER 268 LYS 269 GLU 270 LEU 271 GLY 272
Unit 5	THR 6 GLU 7 ARG 8 VAL 9 LYS 10 ARG 11 GLY 12 MET 13 ALA 14 GLU 15 MET 16 GLN 17 LYS 18 GLY 19 GLY 20 VAL 21 ILE 22 MET 23 ASP 24 VAL 25 ILE 26 ASN 27 ALA 28 GLU 29 GLN 30 ALA 31 LYS 32 ILE 33 ALA 34 GLU 35 GLU 36 ALA 37 GLY 38 ALA 39 VAL 40 ALA 41 VAL 42 MET 43 ALA 44 LEU 45 GLU 46 ARG 47 GLY 57 VAL 58 ALA 59 ARG 60 MET 61 ALA 62 ASP 63 PRO 64 THR 65 ILE 66 VAL 67 GLU 68 GLU 69 VAL 70 MET 71 ASN 72 ALA 73 VAL 74 SER 75 ILE 76 PRO 77 VAL 78 MET 79 ALA 80 LYS 81 ALA 82 ARG 83 ILE 84 GLY 85 HIS 86 ILE 87 VAL 88 GLU 89 ALA 90 ARG 91 VAL 92 LEU 93 GLU 94 ALA 95 MET 96 GLY 97 VAL 98 ASP 99 TYR 100 ILE 101 ASP 102 GLU 103 SER 104 GLU 105 VAL 106 LEU 107 THR 108 PRO 109 ALA 110 ASP 111 GLU 112 GLU 113 PHE 114 HIS 115 LEU 116 ASN 117 LYS 118 ASN 119 GLU 120 TYR 121 THR 122 VAL 123 PRO 124 PHE 125 VAL 126 CYS 127 GLY 128 CYS 129 ARG 130 ASP 131 LEU 132 GLY 133 GLU 134 ALA 135 THR 136 ARG 137 ARG 138 ILE 139 ALA 140 GLU 141 GLY 142 ALA 143 SER 144 MET 145 LEU 146 ARG 147 THR 148 LYS 149 GLY 150 GLU 151 PRO 152 GLY 153 THR 154 GLY 155 ASN 156 ILE 157 VAL 158 GLU 159 ALA 160 VAL 161 ARG 162 HIS 163 MET 164 ARG 165 LYS 166 VAL 167 ASN 168 ALA 169 GLN 170 VAL 171 ARG 172 LYS 173 VAL 174 VAL 175 ALA 176 MET 177 SER 178 GLU 179 ASP 180 GLU 181 LEU 182 MET 183 THR 184 GLU 185 ALA 186 LYS 187 ASN 188 LEU 189 GLY 190 ALA 191 PRO 192 TYR 193 GLU 194 LEU 195 LEU 196 LEU 197 GLN 198 ILE 199 LYS 200 LYS 201 ASP 202 GLY 203 LYS 204 LEU 205 PRO 206 VAL 207 VAL 208 ASN 209 PHE 210 ALA 211 ALA 212 GLY 213 GLY 214 VAL 215 ALA 216 THR 217 PRO 218 ALA 219 ASP 220 ALA 221 ALA 222 LEU 223 MET 224 MET 225 GLN 226 LEU 227 GLY 228 ALA 229 ASP 230 GLY 231 VAL 232 PHE 233 VAL 234 GLY 235 SER 236 GLY 237 ILE 238 PHE 239 LYS 240 SER 241 ASP 242 ASN 243 PRO 244 ALA 245 LYS 246 PHE 247 ALA 248 LYS 249 ALA 250 ILE 251 VAL 252 GLU 253 ALA 254 THR 255 THR 256 HIS 257 PHE 258 THR 259 ASP 260 TYR 261 LYS 262 LEU 263 ILE 264 ALA 265 GLU 266 LEU 267 SER 268 LYS 269 GLU 270
Unit 6	GLY 12 MET 13 ALA 14 GLU 15 MET 16 GLN 17 LYS 18 GLY 19 GLY 20 VAL 21 ILE 22 MET 23 ASP 24 VAL 25 ILE 26 ASN 27 ALA 28 GLU 29 GLN 30 ALA 31 LYS 32 ILE 33 ALA 34 GLU 35 GLU 36 ALA 37 GLY 38 ALA 39 VAL 40 ALA 41 VAL 42 MET 43 ALA 44 LEU 45 GLU 46 GLY 57 VAL 58 ALA 59 ARG 60 MET 61 ALA 62 ASP 63 PRO 64 THR 65 ILE 66 VAL 67 GLU 68 GLU 69 VAL 70 MET 71 ASN 72 ALA 73 VAL 74 SER 75 ILE 76 PRO 77 VAL 78 MET 79 ALA 80 LYS 81 ALA 82 ARG 83 ILE 84 GLY 85 HIS 86 ILE 87 VAL 88 GLU 89 ALA 90 ARG 91 VAL 92 LEU 93 GLU 94 ALA 95 MET 96 GLY 97 VAL 98 ASP 99 TYR 100 ILE 101 ASP 102 GLU 103 SER 104 GLU 105 VAL 106 LEU 107 THR 108 PRO 109 ALA 110 ASP 111 GLU 112 GLU 113 PHE 114 HIS 115 LEU 116 ASN 117 LYS 118 ASN 119 GLU 120 TYR 121 THR 122 VAL 123 PRO 124 PHE 125 VAL 126 CYS 127 GLY 128 CYS 129 ARG 130 ASP 131 LEU 132 GLY 133 GLU 134 ALA 135 THR 136 ARG 137 ARG 138 ILE 139 ALA 140 GLU 141 GLY 142 ALA 143 SER 144 MET 145 LEU 146 ARG 147 THR 148 LYS 149 GLY 150 GLU 151 PRO 152 GLY 153 THR 154 GLY 155 ASN 156 ILE 157 VAL 158 GLU 159 ALA 160 VAL 161 ARG 162 HIS 163 MET 164 ARG 165 LYS 166 VAL 167 ASN 168 ALA 169 GLN 170 VAL 171 ARG 172 LYS 173 VAL 174 VAL 175 ALA 176 MET 177 SER 178 GLU 179 ASP 180 GLU 181 LEU 182 MET 183 THR 184 GLU 185 ALA 186 LYS 187 ASN 188 LEU 189 GLY 190 ALA 191 PRO 192 TYR 193 GLU 194 LEU 195 LEU 196 LEU 197 GLN 198 ILE 199 LYS 200 LYS 201 ASP 202 GLY 203 LYS 204 LEU 205 PRO 206 VAL 207 VAL 208 ASN 209 PHE 210 ALA 211 ALA 212 GLY 213 GLY 214 VAL 215 ALA 216 THR 217 PRO 218 ALA 219 ASP 220 ALA 221 ALA 222 LEU 223 MET 224 MET 225 GLN 226 LEU 227 GLY 228 ALA 229 ASP 230 GLY 231 VAL 232 PHE 233 VAL 234 GLY 235 SER 236 GLY 237 ILE 238 PHE 239 LYS 240 SER 241 ASP 242 ASN 243 PRO 244 ALA 245 LYS 246 PHE 247 ALA 248 LYS 249 ALA 250 ILE 251 VAL 252 GLU 253 ALA 254 THR 255 THR 256 HIS 257 PHE 258 THR 259 ASP 260 TYR 261 LYS 262 LEU 263 ILE 264 ALA 265 GLU 266 LEU 267 SER 268 LYS 269 GLU 270 LEU 271

Ligands

Unit 7	CL 3001 CL 3002 MG 3003 MG 3004 EDO 3005 EDO 3006 MG 3009
Unit 8	CL 3007 CL 3008 MG 3010 EDO 3011 EDO 3012
Unit 9	CL 3013 CL 3014 MG 3015 MG 3016 EDO 3017 EDO 3018 EDO 3019 MG 3022
Unit 10	CL 3020 CL 3021 MG 3023 EDO 3024 MG 3027
Unit 11	CL 3025 CL 3026 MG 3028 EDO 3029 MG 3032
Unit 12	CL 3030 CL 3031 MG 3033 EDO 3034 EDO 3035