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 % 138 179 157
95 % 138 179 203
90 % 138 179 215
70 % 138 179 239
50 % 142 183 235
40 % 142 183 246
30 % 142 183 263
Entity #11 | Chains: q
30S ribosomal protein S17 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 178 149
95 % 137 178 195
90 % 137 178 206
70 % 141 182 218
50 % 141 182 231
40 % 141 182 245
30 % 141 182 257
Entity #12 | Chains: r
30S ribosomal protein S18 protein, length: 75 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 104 124 230
95 % 106 128 294
90 % 106 128 308
70 % 108 130 351
50 % 108 130 412
40 % 108 130 433
30 % 108 130 448
Entity #13 | Chains: t
30S ribosomal protein S20 protein, length: 87 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 177 155
95 % 137 177 201
90 % 137 177 214
70 % 137 177 236
50 % 141 181 233
40 % 164 205 219
30 % 164 205 229
Entity #14 | Chains: u
30S ribosomal protein S21 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 105 123 232
95 % 105 123 305
90 % 105 123 322
70 % 107 125 359
50 % 107 125 425
40 % 107 125 445
30 % 107 125 462
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 50419
95 % 2 3 25957
90 % 2 3 25120
70 % 2 4 20929
50 % 2 4 15655
40 % 2 4 17046
30 % 2 4 15331
Entity #18 | Chains: c
30S ribosomal protein S3 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 79 397
95 % 60 80 520
90 % 60 80 549
70 % 60 80 591
50 % 330 357 86
40 % 330 357 102
30 % 330 357 104
Entity #19 | Chains: g
30S ribosomal protein S7 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 68 449
95 % 136 175 207
90 % 136 175 221
70 % 48 68 679
50 % 48 68 704
40 % 48 68 728
30 % 48 68 776
Entity #2 | Chains: b
30S ribosomal protein S2 protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 135 174 159
95 % 135 174 205
90 % 135 174 218
70 % 139 178 232
50 % 482 532 32
40 % 487 538 36
30 % 487 538 41
Entity #20 | Chains: i
30S ribosomal protein S9 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 177 156
95 % 136 177 200
90 % 136 177 212
70 % 140 181 221
50 % 478 529 33
40 % 478 529 40
30 % 478 529 44
Entity #21 | Chains: j
30S ribosomal protein S10 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 140 180 146
95 % 141 181 182
90 % 145 185 189
70 % 145 185 212
50 % 487 536 28
40 % 487 536 37
30 % 522 573 32
Entity #22 | Chains: m
30S ribosomal protein S13 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 181 151
95 % 139 181 192
90 % 139 181 205
70 % 143 185 217
50 % 487 540 29
40 % 490 543 35
30 % 490 543 40
Entity #23 | Chains: n
30S ribosomal protein S14 protein, length: 102 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 24 2234
95 % 136 174 206
90 % 136 174 219
70 % 136 174 242
50 % 142 180 234
40 % 147 186 239
30 % 148 187 246
Entity #24 | Chains: s
30S ribosomal protein S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 135 175 158
95 % 135 175 204
90 % 135 175 217
70 % 141 181 220
50 % 489 541 27
40 % 489 541 34
30 % 489 541 39
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 % 141 185 142
95 % 141 185 180
90 % 141 185 194
70 % 145 189 201
50 % 412 463 50
40 % 412 463 60
30 % 412 463 62
Entity #28 | Chains: D
50S ribosomal protein L3 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 150 197 124
95 % 150 197 158
90 % 150 197 172
70 % 154 201 187
50 % 416 469 48
40 % 420 473 56
30 % 420 474 58
Entity #29 | Chains: E
50S ribosomal protein L4 protein, length: 201 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 188 132
95 % 142 188 168
90 % 142 188 183
70 % 142 188 208
50 % 146 192 220
40 % 402 454 68
30 % 403 455 69
Entity #3 | Chains: d
30S ribosomal protein S4 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 138 178 150
95 % 138 178 191
90 % 138 178 204
70 % 142 182 216
50 % 467 516 35
40 % 495 546 32
30 % 495 546 37
Entity #30 | Chains: F
50S ribosomal protein L5 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 192 128
95 % 143 192 162
90 % 143 192 177
70 % 143 192 204
50 % 404 458 52
40 % 404 458 62
30 % 404 458 64
Entity #31 | Chains: G
50S ribosomal protein L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 141 187 134
95 % 141 187 171
90 % 141 187 184
70 % 141 187 209
50 % 145 191 221
40 % 407 464 57
30 % 407 464 59
Entity #32 | Chains: H
50S ribosomal protein L9 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 127 170 163
95 % 128 171 214
90 % 128 171 228
70 % 128 171 254
50 % 129 172 277
40 % 303 349 98
30 % 316 362 95
Entity #33 | Chains: I
50S ribosomal protein L11 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 115 165 164
95 % 115 165 216
90 % 115 165 229
70 % 119 169 251
50 % 188 265 153
40 % 188 265 167
30 % 190 273 167
Entity #34 | Chains: J
50S ribosomal protein L13 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 189 127
95 % 142 189 160
90 % 142 189 175
70 % 146 193 190
50 % 185 235 185
40 % 383 436 72
30 % 383 436 76
Entity #35 | Chains: K
50S ribosomal protein L14 protein, length: 123 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 190 123
95 % 142 190 159
90 % 142 190 173
70 % 146 194 188
50 % 417 476 45
40 % 417 476 51
30 % 417 476 54
Entity #36 | Chains: L
50S ribosomal protein L15 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 189 126
95 % 142 189 165
90 % 142 189 179
70 % 142 189 206
50 % 146 193 218
40 % 405 458 63
30 % 405 458 65
Entity #37 | Chains: M
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 130 176 161
95 % 139 185 179
90 % 139 185 193
70 % 143 189 202
50 % 409 461 51
40 % 409 461 61
30 % 409 461 63
Entity #38 | Chains: N
50S ribosomal protein L17 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 182 144
95 % 142 188 166
90 % 142 188 180
70 % 146 192 194
50 % 372 421 59
40 % 408 460 55
30 % 408 462 56
Entity #39 | Chains: O
50S ribosomal protein L18 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 140 186 138
95 % 140 186 173
90 % 140 186 188
70 % 140 186 210
50 % 392 443 58
40 % 392 443 74
30 % 392 443 77
Entity #4 | Chains: e
30S ribosomal protein S5 protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 138 166 162
95 % 138 179 190
90 % 138 179 202
70 % 142 183 215
50 % 483 536 30
40 % 483 536 38
30 % 483 536 42
Entity #40 | Chains: P
50S ribosomal protein L19 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 188 130
95 % 142 188 169
90 % 142 188 181
70 % 146 192 195
50 % 192 241 178
40 % 192 241 193
30 % 192 241 199
Entity #41 | Chains: Q
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 189 125
95 % 142 189 161
90 % 142 189 176
70 % 146 193 191
50 % 410 463 47
40 % 417 471 52
30 % 417 471 55
Entity #42 | Chains: R
50S ribosomal protein L21 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 185 139
95 % 142 185 177
90 % 142 185 191
70 % 142 185 214
50 % 146 189 228
40 % 409 458 64
30 % 409 458 66
Entity #43 | Chains: S
50S ribosomal protein L22 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 188 131
95 % 142 188 167
90 % 142 188 182
70 % 142 188 207
50 % 378 432 60
40 % 378 432 75
30 % 378 432 78
Entity #44 | Chains: T
50S ribosomal protein L23 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 192 119
95 % 142 192 155
90 % 142 192 170
70 % 142 192 197
50 % 146 196 217
40 % 407 464 58
30 % 407 464 60
Entity #45 | Chains: U
50S ribosomal protein L24 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 191 121
95 % 142 191 156
90 % 142 191 171
70 % 142 191 199
50 % 381 436 57
40 % 381 436 73
30 % 381 438 75
Entity #46 | Chains: V
50S ribosomal protein L25 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 141 192 116
95 % 141 192 153
90 % 141 192 169
70 % 141 192 193
50 % 142 193 211
40 % 142 193 227
30 % 142 193 238
Entity #47 | Chains: W
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 141 187 137
95 % 142 188 172
90 % 142 188 186
70 % 171 217 171
50 % 410 460 49
40 % 410 460 59
30 % 410 460 61
Entity #48 | Chains: X
50S ribosomal protein L28 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 172 160
95 % 136 172 212
90 % 136 172 224
70 % 140 176 245
50 % 142 178 250
40 % 142 178 263
30 % 142 178 282
Entity #49 | Chains: Y
50S ribosomal protein L29 protein, length: 63 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 192 117
95 % 142 192 154
90 % 142 192 168
70 % 142 192 196
50 % 146 196 216
40 % 336 389 88
30 % 362 415 83
Entity #5 | Chains: f
30S ribosomal protein S6 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 78 408
95 % 60 80 521
90 % 60 80 554
70 % 60 80 590
50 % 60 80 620
40 % 60 80 653
30 % 60 80 686
Entity #50 | Chains: Z
50S ribosomal protein L30 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 189 129
95 % 142 189 163
90 % 142 189 178
70 % 142 189 205
50 % 198 247 175
40 % 399 453 65
30 % 399 453 67
Entity #51 | Chains: 0
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 186 135
95 % 142 186 174
90 % 142 186 190
70 % 142 186 211
50 % 146 190 227
40 % 146 190 235
30 % 400 450 72
Entity #52 | Chains: 1
50S ribosomal protein L33 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 185 141
95 % 139 185 178
90 % 139 185 192
70 % 143 189 203
50 % 168 214 194
40 % 369 419 80
30 % 369 419 85
Entity #53 | Chains: 2
50S ribosomal protein L34 protein, length: 46 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 184 143
95 % 142 184 181
90 % 142 184 195
70 % 175 217 170
50 % 388 436 56
40 % 388 436 71
30 % 388 436 74
Entity #54 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 181 145
95 % 139 181 183
90 % 139 181 196
70 % 139 181 223
50 % 164 207 204
40 % 164 207 218
30 % 164 207 227
Entity #55 | Chains: 4
50S ribosomal protein L36 protein, length: 38 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 135 179 152
95 % 135 179 196
90 % 135 179 209
70 % 139 183 219
50 % 347 397 79
40 % 347 397 95
30 % 347 397 93
Entity #56 | Chains: 5
50S ribosomal protein L10 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 40 1129
95 % 33 45 1367
90 % 33 45 1405
70 % 33 45 1437
50 % 33 45 1455
40 % 33 45 1502
30 % 62 75 818
Entity #57 | Chains: 6
50S ribosomal protein L31 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 77 524
95 % 59 77 709
90 % 59 77 739
70 % 59 77 775
50 % 59 77 819
40 % 255 276 130
30 % 256 277 137
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 24351
95 % 2 4 18951
90 % 2 4 23888
70 % 2 4 21830
50 % 2 4 19289
40 % 2 4 17689
30 % 2 4 15891
Entity #6 | Chains: h
30S ribosomal protein S8 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 138 179 147
95 % 138 179 185
90 % 138 179 198
70 % 138 179 226
50 % 492 545 25
40 % 497 551 30
30 % 656 741 23
Entity #7 | Chains: k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 177 153
95 % 136 177 198
90 % 136 177 211
70 % 136 177 233
50 % 482 534 31
40 % 482 534 39
30 % 482 534 43
Entity #8 | Chains: l
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 108 153 181
95 % 134 179 194
90 % 134 179 208
70 % 476 538 17
50 % 493 556 23
40 % 493 556 29
30 % 493 556 35
Entity #9 | Chains: o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 123 147 184
95 % 138 180 184
90 % 138 180 197
70 % 138 180 224
50 % 496 552 24
40 % 496 552 31
30 % 496 552 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