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 % 139 180 156
95 % 139 180 203
90 % 139 180 215
70 % 139 180 237
50 % 143 184 238
40 % 143 184 249
30 % 143 184 267
Entity #11 | Chains: q
30S ribosomal protein S17 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 138 179 150
95 % 138 179 196
90 % 138 179 208
70 % 142 183 219
50 % 142 183 232
40 % 142 183 244
30 % 142 183 259
Entity #12 | Chains: r
30S ribosomal protein S18 protein, length: 75 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 105 125 229
95 % 107 129 290
90 % 107 129 306
70 % 109 131 349
50 % 109 131 412
40 % 109 131 431
30 % 109 131 450
Entity #13 | Chains: t
30S ribosomal protein S20 protein, length: 87 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 138 178 154
95 % 138 178 197
90 % 138 178 209
70 % 138 178 234
50 % 142 182 233
40 % 165 206 220
30 % 165 206 231
Entity #14 | Chains: u
30S ribosomal protein S21 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 106 124 232
95 % 106 124 305
90 % 106 124 320
70 % 108 126 360
50 % 108 126 427
40 % 108 126 445
30 % 108 126 462
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 55302
95 % 2 3 26869
90 % 2 3 25913
70 % 2 4 18432
50 % 2 4 16441
40 % 2 4 15225
30 % 2 4 13785
Entity #18 | Chains: c
30S ribosomal protein S3 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 60 80 393
95 % 61 81 519
90 % 61 81 542
70 % 61 81 584
50 % 332 359 86
40 % 332 359 103
30 % 332 359 101
Entity #19 | Chains: g
30S ribosomal protein S7 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 49 69 442
95 % 137 176 209
90 % 137 176 221
70 % 49 69 672
50 % 49 69 704
40 % 49 69 724
30 % 49 69 768
Entity #2 | Chains: b
30S ribosomal protein S2 protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 175 159
95 % 136 175 208
90 % 136 175 220
70 % 140 179 231
50 % 484 534 31
40 % 489 540 37
30 % 489 540 41
Entity #20 | Chains: i
30S ribosomal protein S9 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 178 153
95 % 137 178 201
90 % 137 178 212
70 % 141 182 222
50 % 480 531 32
40 % 480 531 40
30 % 480 531 44
Entity #21 | Chains: j
30S ribosomal protein S10 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 141 181 146
95 % 142 182 183
90 % 146 186 187
70 % 146 186 211
50 % 493 542 27
40 % 493 542 35
30 % 524 575 33
Entity #22 | Chains: m
30S ribosomal protein S13 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 140 182 149
95 % 140 182 191
90 % 140 182 205
70 % 144 186 215
50 % 489 542 28
40 % 492 545 36
30 % 492 545 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 2284
95 % 137 175 207
90 % 137 175 218
70 % 137 175 240
50 % 143 181 237
40 % 148 187 239
30 % 149 188 246
Entity #24 | Chains: s
30S ribosomal protein S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 176 158
95 % 136 176 204
90 % 136 176 216
70 % 142 182 221
50 % 491 543 26
40 % 491 543 34
30 % 491 543 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 % 142 186 139
95 % 142 186 180
90 % 142 186 193
70 % 146 190 201
50 % 414 465 47
40 % 414 465 59
30 % 414 465 61
Entity #28 | Chains: D
50S ribosomal protein L3 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 198 124
95 % 151 198 159
90 % 151 198 173
70 % 155 202 187
50 % 418 471 46
40 % 422 475 56
30 % 422 476 57
Entity #29 | Chains: E
50S ribosomal protein L4 protein, length: 201 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 189 131
95 % 143 189 168
90 % 143 189 181
70 % 143 189 206
50 % 147 193 222
40 % 404 456 67
30 % 405 457 69
Entity #3 | Chains: d
30S ribosomal protein S4 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 179 151
95 % 139 179 195
90 % 139 179 206
70 % 143 183 217
50 % 143 183 231
40 % 497 548 32
30 % 497 548 37
Entity #30 | Chains: F
50S ribosomal protein L5 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 144 193 125
95 % 144 193 165
90 % 144 193 178
70 % 144 193 205
50 % 406 460 49
40 % 406 460 61
30 % 406 460 63
Entity #31 | Chains: G
50S ribosomal protein L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 188 135
95 % 142 188 173
90 % 142 188 185
70 % 142 188 208
50 % 180 234 184
40 % 409 466 57
30 % 409 466 59
Entity #32 | Chains: H
50S ribosomal protein L9 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 128 171 163
95 % 129 172 215
90 % 129 172 228
70 % 129 172 252
50 % 130 173 279
40 % 305 351 100
30 % 318 364 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 % 115 165 217
90 % 115 165 229
70 % 119 169 251
50 % 188 265 155
40 % 188 265 169
30 % 190 273 166
Entity #34 | Chains: J
50S ribosomal protein L13 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 190 129
95 % 143 190 163
90 % 143 190 176
70 % 147 194 191
50 % 186 236 183
40 % 385 438 73
30 % 385 438 77
Entity #35 | Chains: K
50S ribosomal protein L14 protein, length: 123 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 191 123
95 % 143 191 158
90 % 143 191 172
70 % 147 195 188
50 % 419 478 43
40 % 419 478 51
30 % 419 478 53
Entity #36 | Chains: L
50S ribosomal protein L15 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 190 130
95 % 143 190 164
90 % 143 190 177
70 % 143 190 204
50 % 147 194 220
40 % 407 460 62
30 % 407 460 64
Entity #37 | Chains: M
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 131 177 161
95 % 140 186 177
90 % 140 186 194
70 % 144 190 202
50 % 411 463 48
40 % 411 463 60
30 % 411 463 62
Entity #38 | Chains: N
50S ribosomal protein L17 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 183 144
95 % 143 189 167
90 % 143 189 179
70 % 147 193 193
50 % 374 423 58
40 % 410 462 54
30 % 410 464 56
Entity #39 | Chains: O
50S ribosomal protein L18 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 141 187 136
95 % 141 187 174
90 % 141 187 186
70 % 141 187 209
50 % 394 445 56
40 % 394 445 75
30 % 394 445 78
Entity #4 | Chains: e
30S ribosomal protein S5 protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 167 162
95 % 139 180 187
90 % 139 180 199
70 % 143 184 214
50 % 485 538 29
40 % 485 538 38
30 % 485 538 42
Entity #40 | Chains: P
50S ribosomal protein L19 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 189 133
95 % 143 189 170
90 % 143 189 182
70 % 147 193 194
50 % 193 242 177
40 % 193 242 191
30 % 193 242 202
Entity #41 | Chains: Q
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 190 128
95 % 143 190 162
90 % 143 190 175
70 % 147 194 189
50 % 412 465 44
40 % 419 473 52
30 % 419 473 55
Entity #42 | Chains: R
50S ribosomal protein L21 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 186 140
95 % 143 186 179
90 % 143 186 192
70 % 143 186 213
50 % 147 190 228
40 % 411 460 63
30 % 411 460 65
Entity #43 | Chains: S
50S ribosomal protein L22 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 189 132
95 % 143 189 169
90 % 143 189 180
70 % 143 189 207
50 % 380 434 57
40 % 380 434 76
30 % 380 434 79
Entity #44 | Chains: T
50S ribosomal protein L23 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 193 117
95 % 143 193 152
90 % 143 193 166
70 % 143 193 192
50 % 147 197 213
40 % 409 466 58
30 % 409 466 60
Entity #45 | Chains: U
50S ribosomal protein L24 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 192 121
95 % 143 192 157
90 % 143 192 171
70 % 143 192 198
50 % 383 438 55
40 % 383 438 74
30 % 383 440 76
Entity #46 | Chains: V
50S ribosomal protein L25 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 193 120
95 % 142 193 154
90 % 142 193 168
70 % 142 193 195
50 % 143 194 208
40 % 143 194 225
30 % 143 194 237
Entity #47 | Chains: W
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 188 137
95 % 143 189 172
90 % 143 189 184
70 % 172 218 172
50 % 407 457 50
40 % 407 457 64
30 % 407 457 66
Entity #48 | Chains: X
50S ribosomal protein L28 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 173 160
95 % 137 173 212
90 % 137 173 224
70 % 141 177 243
50 % 143 179 250
40 % 143 179 264
30 % 143 179 283
Entity #49 | Chains: Y
50S ribosomal protein L29 protein, length: 63 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 193 118
95 % 143 193 155
90 % 143 193 169
70 % 143 193 196
50 % 147 197 217
40 % 338 391 88
30 % 364 417 84
Entity #5 | Chains: f
30S ribosomal protein S6 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 79 398
95 % 61 81 513
90 % 61 81 550
70 % 61 81 577
50 % 61 81 616
40 % 61 81 642
30 % 61 81 686
Entity #50 | Chains: Z
50S ribosomal protein L30 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 190 127
95 % 143 190 161
90 % 143 190 174
70 % 143 190 200
50 % 199 248 174
40 % 401 455 66
30 % 401 455 68
Entity #51 | Chains: 0
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 187 138
95 % 143 187 175
90 % 143 187 188
70 % 143 187 210
50 % 147 191 226
40 % 147 191 236
30 % 402 452 74
Entity #52 | Chains: 1
50S ribosomal protein L33 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 140 186 141
95 % 140 186 181
90 % 140 186 191
70 % 144 190 203
50 % 169 215 194
40 % 371 421 81
30 % 371 421 86
Entity #53 | Chains: 2
50S ribosomal protein L34 protein, length: 46 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 185 143
95 % 143 185 182
90 % 143 185 195
70 % 176 218 171
50 % 411 459 51
40 % 411 459 65
30 % 411 459 67
Entity #54 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 140 182 145
95 % 140 182 184
90 % 140 182 196
70 % 140 182 220
50 % 165 208 204
40 % 401 447 71
30 % 401 447 75
Entity #55 | Chains: 4
50S ribosomal protein L36 protein, length: 38 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 180 152
95 % 136 180 194
90 % 136 180 204
70 % 140 184 216
50 % 349 399 77
40 % 349 399 96
30 % 349 399 94
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 1152
95 % 33 45 1400
90 % 33 45 1431
70 % 33 45 1464
50 % 33 45 1486
40 % 33 45 1520
30 % 62 75 828
Entity #57 | Chains: 6
50S ribosomal protein L31 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 60 78 514
95 % 60 78 705
90 % 60 78 742
70 % 60 78 768
50 % 60 78 804
40 % 257 278 130
30 % 258 279 136
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 24477
95 % 2 4 20615
90 % 2 4 24026
70 % 2 4 21938
50 % 2 4 19372
40 % 2 4 17779
30 % 2 4 15972
Entity #6 | Chains: h
30S ribosomal protein S8 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 180 147
95 % 139 180 185
90 % 139 180 198
70 % 139 180 223
50 % 494 547 24
40 % 499 553 30
30 % 659 744 24
Entity #7 | Chains: k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 137 178 155
95 % 137 178 199
90 % 137 178 211
70 % 137 178 233
50 % 484 536 30
40 % 484 536 39
30 % 484 536 43
Entity #8 | Chains: l
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 154 179
95 % 135 180 192
90 % 135 180 203
70 % 478 540 17
50 % 495 558 22
40 % 495 558 29
30 % 495 558 35
Entity #9 | Chains: o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 124 148 185
95 % 139 181 186
90 % 139 181 197
70 % 139 181 225
50 % 498 554 23
40 % 498 554 31
30 % 498 554 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 5KCS 57 1w Tetracycline resistance protein TetM from transposon Tn916 1351
2 3J9Y 17 w Tetracycline resistance protein TetM 1351
3 3J25 1 A Tetracycline resistance protein tetM 1351