3J9Y

Cryo-EM structure of tetracycline resistance protein TetM bound to a translating E.coli ribosome


Sequence Similarity Clusters for the Entities in PDB 3J9Y

Entity #1 | Chains: a
16S ribosomal RNA rna, length: 1539 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: p
30S ribosomal protein S16 protein, length: 82 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 171 212 150
95 % 171 212 190
90 % 171 212 203
70 % 171 212 221
50 % 175 216 225
40 % 175 216 234
30 % 175 216 244
Entity #11 | Chains: q
30S ribosomal protein S17 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 170 211 143
95 % 170 211 182
90 % 170 211 195
70 % 174 215 213
50 % 174 215 224
40 % 174 215 232
30 % 174 215 241
Entity #12 | Chains: r
30S ribosomal protein S18 protein, length: 75 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 156 205
95 % 138 160 267
90 % 138 160 278
70 % 144 166 305
50 % 144 166 365
40 % 144 166 376
30 % 144 166 391
Entity #13 | Chains: t
30S ribosomal protein S20 protein, length: 87 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 170 210 147
95 % 170 210 189
90 % 170 210 202
70 % 170 210 220
50 % 178 218 219
40 % 178 218 226
30 % 201 242 216
Entity #14 | Chains: u
30S ribosomal protein S21 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 155 211
95 % 137 155 272
90 % 137 155 287
70 % 142 160 311
50 % 142 160 372
40 % 142 160 387
30 % 142 160 400
Entity #15 | Chains: v
P-site fMet-tRNAfMet rna, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #16 | Chains: x
mRNA rna, length: 11 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #17 | Chains: w
Tetracycline resistance protein TetM protein, length: 639 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 2 58040
95 % 2 3 28247
90 % 2 3 27273
70 % 2 4 19293
50 % 2 4 17264
40 % 2 4 15935
30 % 2 4 14420
Entity #18 | Chains: c
30S ribosomal protein S3 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 65 85 418
95 % 66 86 529
90 % 66 86 564
70 % 66 86 592
50 % 346 373 87
40 % 346 373 104
30 % 346 373 105
Entity #19 | Chains: g
30S ribosomal protein S7 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 74 469
95 % 169 208 196
90 % 169 208 210
70 % 54 74 686
50 % 54 74 723
40 % 54 74 752
30 % 54 74 784
Entity #2 | Chains: b
30S ribosomal protein S2 protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 207 152
95 % 168 207 192
90 % 168 207 207
70 % 176 215 214
50 % 525 575 30
40 % 530 581 37
30 % 530 581 40
Entity #20 | Chains: i
30S ribosomal protein S9 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 169 210 148
95 % 169 210 186
90 % 169 210 199
70 % 177 218 212
50 % 521 572 31
40 % 521 572 40
30 % 521 572 44
Entity #21 | Chains: j
30S ribosomal protein S10 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 173 213 140
95 % 174 214 175
90 % 178 218 184
70 % 182 222 201
50 % 534 583 26
40 % 534 583 35
30 % 570 621 33
Entity #22 | Chains: m
30S ribosomal protein S13 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 172 214 142
95 % 172 214 181
90 % 172 214 193
70 % 180 222 207
50 % 530 583 27
40 % 533 586 36
30 % 533 586 39
Entity #23 | Chains: n
30S ribosomal protein S14 protein, length: 102 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 26 27 2091
95 % 169 207 191
90 % 169 207 205
70 % 169 207 223
50 % 179 217 220
40 % 184 223 221
30 % 185 224 228
Entity #24 | Chains: s
30S ribosomal protein S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 170 210 146
95 % 170 210 188
90 % 170 210 201
70 % 178 218 211
50 % 532 584 25
40 % 532 584 34
30 % 532 584 38
Entity #25 | Chains: A
23S ribosomal RNA rna, length: 2903 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #26 | Chains: B
5S ribosomal RNA rna, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #27 | Chains: C
50S ribosomal protein L2 protein, length: 273 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 188 232 115
95 % 188 232 151
90 % 188 232 162
70 % 196 240 176
50 % 474 525 37
40 % 474 525 48
30 % 475 526 51
Entity #28 | Chains: D
50S ribosomal protein L3 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 197 244 109
95 % 197 244 146
90 % 197 244 157
70 % 205 252 169
50 % 478 531 36
40 % 482 535 44
30 % 482 536 47
Entity #29 | Chains: E
50S ribosomal protein L4 protein, length: 201 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 189 235 113
95 % 189 235 149
90 % 189 235 160
70 % 193 239 177
50 % 197 243 196
40 % 232 281 183
30 % 465 517 56
Entity #3 | Chains: d
30S ribosomal protein S4 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 170 210 149
95 % 171 211 183
90 % 171 211 196
70 % 179 219 208
50 % 179 219 216
40 % 538 589 33
30 % 538 589 37
Entity #30 | Chains: F
50S ribosomal protein L5 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 180 229 124
95 % 180 229 159
90 % 180 229 170
70 % 180 229 194
50 % 451 505 43
40 % 451 505 56
30 % 451 505 62
Entity #31 | Chains: G
50S ribosomal protein L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 178 224 130
95 % 178 224 167
90 % 178 224 177
70 % 178 224 198
50 % 186 232 205
40 % 231 285 182
30 % 458 516 55
Entity #32 | Chains: H
50S ribosomal protein L9 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 162 205 159
95 % 163 206 203
90 % 163 206 218
70 % 163 206 233
50 % 168 211 230
40 % 347 393 99
30 % 360 406 96
Entity #33 | Chains: I
50S ribosomal protein L11 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 144 194 161
95 % 144 194 214
90 % 144 194 228
70 % 148 198 238
50 % 217 294 148
40 % 219 298 163
30 % 219 299 165
Entity #34 | Chains: J
50S ribosomal protein L13 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 189 236 111
95 % 189 236 147
90 % 189 236 158
70 % 197 244 172
50 % 241 291 166
40 % 445 498 58
30 % 445 498 65
Entity #35 | Chains: K
50S ribosomal protein L14 protein, length: 123 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 227 123
95 % 179 227 158
90 % 179 227 169
70 % 187 235 182
50 % 469 528 35
40 % 469 528 46
30 % 469 528 49
Entity #36 | Chains: L
50S ribosomal protein L15 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 188 235 112
95 % 189 236 148
90 % 189 236 159
70 % 189 236 180
50 % 197 244 193
40 % 467 520 50
30 % 467 520 53
Entity #37 | Chains: M
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 162 208 157
95 % 174 220 173
90 % 174 220 183
70 % 182 228 193
50 % 459 511 40
40 % 459 511 52
30 % 459 511 58
Entity #38 | Chains: N
50S ribosomal protein L17 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 225 129
95 % 179 225 162
90 % 179 225 175
70 % 187 233 184
50 % 419 468 55
40 % 460 512 49
30 % 460 514 52
Entity #39 | Chains: O
50S ribosomal protein L18 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 177 223 131
95 % 177 223 169
90 % 177 223 178
70 % 177 223 200
50 % 444 495 51
40 % 428 476 73
30 % 428 476 77
Entity #4 | Chains: e
30S ribosomal protein S5 protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 171 199 158
95 % 171 212 179
90 % 171 212 191
70 % 179 220 206
50 % 526 579 28
40 % 526 579 38
30 % 526 579 42
Entity #40 | Chains: P
50S ribosomal protein L19 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 225 128
95 % 179 225 164
90 % 179 225 173
70 % 179 225 196
50 % 236 285 168
40 % 236 285 180
30 % 236 285 186
Entity #41 | Chains: Q
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 226 125
95 % 179 226 160
90 % 179 226 171
70 % 187 234 183
50 % 462 515 39
40 % 469 523 47
30 % 469 523 50
Entity #42 | Chains: R
50S ribosomal protein L21 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 222 134
95 % 179 222 170
90 % 179 222 180
70 % 179 222 204
50 % 187 230 206
40 % 461 510 53
30 % 461 510 59
Entity #43 | Chains: S
50S ribosomal protein L22 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 225 127
95 % 179 225 163
90 % 179 225 174
70 % 187 233 185
50 % 430 484 53
40 % 430 484 71
30 % 430 484 74
Entity #44 | Chains: T
50S ribosomal protein L23 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 229 120
95 % 179 229 155
90 % 179 229 166
70 % 179 229 189
50 % 183 233 204
40 % 455 512 51
30 % 455 512 57
Entity #45 | Chains: U
50S ribosomal protein L24 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 228 122
95 % 179 228 157
90 % 179 228 168
70 % 179 228 191
50 % 433 488 49
40 % 433 488 69
30 % 433 490 72
Entity #46 | Chains: V
50S ribosomal protein L25 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 178 229 121
95 % 178 229 156
90 % 178 229 167
70 % 178 229 190
50 % 179 230 201
40 % 183 234 210
30 % 183 234 220
Entity #47 | Chains: W
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 178 224 133
95 % 179 225 165
90 % 179 225 176
70 % 212 258 163
50 % 457 507 41
40 % 457 507 54
30 % 457 507 60
Entity #48 | Chains: X
50S ribosomal protein L28 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 173 209 153
95 % 173 209 193
90 % 173 209 208
70 % 181 217 215
50 % 183 219 222
40 % 183 219 228
30 % 183 219 236
Entity #49 | Chains: Y
50S ribosomal protein L29 protein, length: 63 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 229 119
95 % 179 229 154
90 % 179 229 165
70 % 179 229 188
50 % 187 237 200
40 % 383 436 80
30 % 409 462 78
Entity #5 | Chains: f
30S ribosomal protein S6 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 64 84 430
95 % 66 86 538
90 % 66 86 565
70 % 66 86 591
50 % 70 90 593
40 % 70 90 641
30 % 70 90 654
Entity #50 | Chains: Z
50S ribosomal protein L30 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 226 126
95 % 179 226 161
90 % 179 226 172
70 % 179 226 195
50 % 244 293 161
40 % 451 505 57
30 % 451 505 63
Entity #51 | Chains: 0
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 223 132
95 % 179 223 168
90 % 179 223 179
70 % 179 223 199
50 % 183 227 210
40 % 183 227 218
30 % 448 498 66
Entity #52 | Chains: 1
50S ribosomal protein L33 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 174 220 136
95 % 174 220 172
90 % 174 220 182
70 % 182 228 192
50 % 204 250 185
40 % 418 468 74
30 % 418 468 79
Entity #53 | Chains: 2
50S ribosomal protein L34 protein, length: 46 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 221 135
95 % 179 221 171
90 % 179 221 181
70 % 216 258 160
50 % 461 509 42
40 % 461 509 55
30 % 461 509 61
Entity #54 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 176 218 137
95 % 176 218 174
90 % 176 218 185
70 % 176 218 209
50 % 210 253 184
40 % 211 254 199
30 % 211 254 209
Entity #55 | Chains: 4
50S ribosomal protein L36 protein, length: 38 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 172 216 139
95 % 172 216 176
90 % 172 216 187
70 % 180 224 202
50 % 398 448 71
40 % 398 448 91
30 % 398 448 92
Entity #56 | Chains: 5
50S ribosomal protein L10 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 29 41 1187
95 % 35 47 1390
90 % 35 47 1435
70 % 35 47 1465
50 % 35 47 1507
40 % 35 47 1541
30 % 64 77 865
Entity #57 | Chains: 6
50S ribosomal protein L31 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 66 84 530
95 % 66 84 714
90 % 66 84 745
70 % 66 84 772
50 % 66 84 803
40 % 268 289 132
30 % 269 290 138
Entity #58 | Chains: 7
50S ribosomal protein L7/L12 protein, length: 69 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 4 25871
95 % 2 4 21684
90 % 2 4 25221
70 % 2 4 22940
50 % 2 4 20233
40 % 2 4 18525
30 % 2 4 16620
Entity #6 | Chains: h
30S ribosomal protein S8 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 171 212 141
95 % 171 212 177
90 % 171 212 190
70 % 171 212 217
50 % 179 220 215
40 % 540 594 31
30 % 723 808 23
Entity #7 | Chains: k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 169 210 144
95 % 169 210 185
90 % 169 210 198
70 % 173 214 216
50 % 525 577 29
40 % 525 577 39
30 % 525 577 43
Entity #8 | Chains: l
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 184 170
95 % 167 212 180
90 % 167 212 192
70 % 519 581 16
50 % 537 600 22
40 % 537 600 30
30 % 537 600 35
Entity #9 | Chains: o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 156 180 171
95 % 171 213 178
90 % 171 213 188
70 % 171 213 218
50 % 539 595 24
40 % 539 595 32
30 % 539 595 36

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 1CTF 1 A RIBOSOMAL PROTEIN L7/L12 562
2 3J9Y 58 7 50S ribosomal protein L7/L12 562
3 2BCW 2 B 50S ribosomal protein L7/L12 C-terminal domain 562
4 1RQS 1 A 50S ribosomal protein L7/L12 C-Terminal Domain 623