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 % 145 186 159
95 % 145 186 211
90 % 145 186 220
70 % 145 186 248
50 % 149 190 262
40 % 149 190 278
30 % 149 190 294
Entity #11 | Chains: q
30S ribosomal protein S17 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 144 185 153
95 % 144 185 205
90 % 144 185 213
70 % 148 189 237
50 % 148 189 258
40 % 148 189 270
30 % 148 189 286
Entity #12 | Chains: r
30S ribosomal protein S18 protein, length: 75 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 110 130 238
95 % 112 134 301
90 % 112 134 317
70 % 118 140 343
50 % 118 140 404
40 % 118 140 429
30 % 118 140 450
Entity #13 | Chains: t
30S ribosomal protein S20 protein, length: 87 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 144 184 156
95 % 144 184 209
90 % 144 184 218
70 % 144 184 245
50 % 152 192 250
40 % 152 192 263
30 % 175 216 233
Entity #14 | Chains: u
30S ribosomal protein S21 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 111 129 240
95 % 111 129 311
90 % 111 129 327
70 % 116 134 356
50 % 116 134 422
40 % 116 134 446
30 % 116 134 465
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 46533
95 % 2 3 28016
90 % 2 3 27036
70 % 2 4 19178
50 % 2 4 17096
40 % 2 4 15808
30 % 2 4 14323
Entity #18 | Chains: c
30S ribosomal protein S3 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 65 85 417
95 % 66 86 530
90 % 66 86 549
70 % 66 86 577
50 % 342 369 87
40 % 342 369 104
30 % 342 369 103
Entity #19 | Chains: g
30S ribosomal protein S7 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 74 461
95 % 143 182 219
90 % 143 182 228
70 % 54 74 663
50 % 54 74 708
40 % 54 74 738
30 % 54 74 776
Entity #2 | Chains: b
30S ribosomal protein S2 protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 181 161
95 % 142 181 215
90 % 142 181 225
70 % 150 189 238
50 % 495 545 31
40 % 500 551 38
30 % 500 551 40
Entity #20 | Chains: i
30S ribosomal protein S9 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 184 157
95 % 143 184 208
90 % 143 184 217
70 % 151 192 229
50 % 491 542 32
40 % 491 542 41
30 % 491 542 44
Entity #21 | Chains: j
30S ribosomal protein S10 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 147 187 147
95 % 148 188 195
90 % 152 192 202
70 % 156 196 213
50 % 504 553 27
40 % 504 553 36
30 % 540 591 33
Entity #22 | Chains: m
30S ribosomal protein S13 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 146 188 152
95 % 146 188 204
90 % 146 188 214
70 % 154 196 227
50 % 500 553 28
40 % 503 556 37
30 % 503 556 39
Entity #23 | Chains: n
30S ribosomal protein S14 protein, length: 102 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 25 26 2210
95 % 143 181 214
90 % 143 181 224
70 % 143 181 250
50 % 153 191 254
40 % 158 197 250
30 % 159 198 262
Entity #24 | Chains: s
30S ribosomal protein S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 142 182 160
95 % 142 182 213
90 % 142 182 222
70 % 152 192 231
50 % 502 554 26
40 % 502 554 35
30 % 502 554 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 % 150 194 140
95 % 150 194 183
90 % 150 194 198
70 % 158 202 197
50 % 432 483 47
40 % 432 483 58
30 % 432 483 60
Entity #28 | Chains: D
50S ribosomal protein L3 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 159 206 122
95 % 159 206 163
90 % 159 206 178
70 % 167 214 185
50 % 436 489 46
40 % 440 493 57
30 % 440 494 57
Entity #29 | Chains: E
50S ribosomal protein L4 protein, length: 201 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 197 131
95 % 151 197 173
90 % 151 197 187
70 % 155 201 202
50 % 159 205 221
40 % 194 243 204
30 % 423 475 70
Entity #3 | Chains: d
30S ribosomal protein S4 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 144 184 155
95 % 145 185 206
90 % 145 185 215
70 % 153 193 228
50 % 480 529 34
40 % 508 559 34
30 % 508 559 37
Entity #30 | Chains: F
50S ribosomal protein L5 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 152 201 127
95 % 152 201 165
90 % 152 201 182
70 % 152 201 209
50 % 419 473 52
40 % 419 473 68
30 % 419 473 68
Entity #31 | Chains: G
50S ribosomal protein L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 150 196 134
95 % 150 196 177
90 % 150 196 191
70 % 150 196 215
50 % 158 204 225
40 % 423 480 62
30 % 426 484 58
Entity #32 | Chains: H
50S ribosomal protein L9 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 135 178 168
95 % 136 179 223
90 % 136 179 235
70 % 136 179 263
50 % 141 184 290
40 % 316 362 103
30 % 329 375 99
Entity #33 | Chains: I
50S ribosomal protein L11 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 117 167 170
95 % 117 167 227
90 % 117 167 239
70 % 121 171 273
50 % 190 267 158
40 % 192 271 171
30 % 192 272 179
Entity #34 | Chains: J
50S ribosomal protein L13 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 198 125
95 % 151 198 167
90 % 151 198 181
70 % 159 206 187
50 % 203 253 185
40 % 403 456 71
30 % 403 456 73
Entity #35 | Chains: K
50S ribosomal protein L14 protein, length: 123 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 199 123
95 % 151 199 164
90 % 151 199 179
70 % 159 207 186
50 % 437 496 37
40 % 437 496 47
30 % 437 496 50
Entity #36 | Chains: L
50S ribosomal protein L15 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 150 197 129
95 % 151 198 168
90 % 151 198 183
70 % 151 198 210
50 % 159 206 219
40 % 425 478 64
30 % 425 478 64
Entity #37 | Chains: M
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 136 182 165
95 % 148 194 182
90 % 148 194 197
70 % 156 202 196
50 % 429 481 48
40 % 429 481 60
30 % 429 481 61
Entity #38 | Chains: N
50S ribosomal protein L17 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 197 132
95 % 151 197 176
90 % 151 197 190
70 % 159 205 193
50 % 387 436 58
40 % 428 480 56
30 % 428 482 56
Entity #39 | Chains: O
50S ribosomal protein L18 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 149 195 136
95 % 149 195 180
90 % 149 195 194
70 % 149 195 219
50 % 412 463 55
40 % 396 444 79
30 % 396 444 82
Entity #4 | Chains: e
30S ribosomal protein S5 protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 145 173 166
95 % 145 186 201
90 % 145 186 211
70 % 153 194 223
50 % 496 549 29
40 % 496 549 39
30 % 496 549 42
Entity #40 | Chains: P
50S ribosomal protein L19 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 197 130
95 % 151 197 175
90 % 151 197 189
70 % 151 197 212
50 % 208 257 179
40 % 208 257 190
30 % 208 257 202
Entity #41 | Chains: Q
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 198 124
95 % 151 198 166
90 % 151 198 180
70 % 159 206 188
50 % 430 483 44
40 % 437 491 51
30 % 437 491 52
Entity #42 | Chains: R
50S ribosomal protein L21 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 194 141
95 % 151 194 185
90 % 151 194 199
70 % 151 194 222
50 % 159 202 232
40 % 429 478 63
30 % 429 478 63
Entity #43 | Chains: S
50S ribosomal protein L22 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 197 133
95 % 151 197 174
90 % 151 197 188
70 % 159 205 192
50 % 398 452 56
40 % 398 452 75
30 % 398 452 79
Entity #44 | Chains: T
50S ribosomal protein L23 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 201 117
95 % 151 201 157
90 % 151 201 171
70 % 151 201 201
50 % 155 205 220
40 % 423 480 61
30 % 423 480 62
Entity #45 | Chains: U
50S ribosomal protein L24 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 200 121
95 % 151 200 162
90 % 151 200 177
70 % 151 200 208
50 % 203 255 183
40 % 401 456 72
30 % 401 458 74
Entity #46 | Chains: V
50S ribosomal protein L25 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 150 201 116
95 % 150 201 158
90 % 150 201 173
70 % 150 201 204
50 % 151 202 218
40 % 155 206 226
30 % 155 206 240
Entity #47 | Chains: W
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 150 196 135
95 % 151 197 178
90 % 151 197 192
70 % 184 230 176
50 % 425 475 49
40 % 425 475 65
30 % 425 475 65
Entity #48 | Chains: X
50S ribosomal protein L28 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 145 181 163
95 % 145 181 220
90 % 145 181 230
70 % 153 189 243
50 % 155 191 261
40 % 155 191 276
30 % 155 191 290
Entity #49 | Chains: Y
50S ribosomal protein L29 protein, length: 63 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 201 118
95 % 151 201 159
90 % 151 201 172
70 % 151 201 203
50 % 159 209 217
40 % 351 404 89
30 % 377 430 84
Entity #5 | Chains: f
30S ribosomal protein S6 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 64 84 425
95 % 66 86 535
90 % 66 86 554
70 % 66 86 580
50 % 70 90 590
40 % 70 90 634
30 % 70 90 650
Entity #50 | Chains: Z
50S ribosomal protein L30 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 198 126
95 % 151 198 171
90 % 151 198 185
70 % 151 198 211
50 % 216 265 172
40 % 419 473 69
30 % 419 473 69
Entity #51 | Chains: 0
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 195 137
95 % 151 195 181
90 % 151 195 196
70 % 151 195 221
50 % 155 199 238
40 % 155 199 249
30 % 416 466 71
Entity #52 | Chains: 1
50S ribosomal protein L33 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 148 194 139
95 % 148 194 184
90 % 148 194 200
70 % 156 202 198
50 % 178 224 198
40 % 388 438 82
30 % 388 438 86
Entity #53 | Chains: 2
50S ribosomal protein L34 protein, length: 46 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 193 142
95 % 151 193 189
90 % 151 193 205
70 % 188 230 175
50 % 429 477 50
40 % 429 477 66
30 % 429 477 67
Entity #54 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 148 190 144
95 % 148 190 194
90 % 148 190 207
70 % 148 190 234
50 % 182 225 202
40 % 183 226 213
30 % 183 226 223
Entity #55 | Chains: 4
50S ribosomal protein L36 protein, length: 38 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 144 188 149
95 % 144 188 199
90 % 144 188 210
70 % 152 196 220
50 % 366 416 79
40 % 366 416 97
30 % 366 416 95
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 1218
95 % 34 46 1424
90 % 34 46 1458
70 % 34 46 1490
50 % 34 46 1529
40 % 34 46 1568
30 % 63 76 864
Entity #57 | Chains: 6
50S ribosomal protein L31 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 62 80 547
95 % 62 80 738
90 % 62 80 774
70 % 62 80 803
50 % 62 80 842
40 % 260 281 131
30 % 261 282 140
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 26587
95 % 2 4 19902
90 % 2 4 25001
70 % 2 4 22795
50 % 2 4 20074
40 % 2 4 18399
30 % 2 4 16519
Entity #6 | Chains: h
30S ribosomal protein S8 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 145 186 150
95 % 145 186 198
90 % 145 186 209
70 % 145 186 241
50 % 153 194 241
40 % 510 564 31
30 % 693 778 21
Entity #7 | Chains: k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 143 184 154
95 % 143 184 207
90 % 143 184 216
70 % 147 188 239
50 % 495 547 30
40 % 495 547 40
30 % 495 547 43
Entity #8 | Chains: l
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 113 158 185
95 % 141 186 203
90 % 141 186 212
70 % 489 551 17
50 % 507 570 23
40 % 507 570 29
30 % 507 570 34
Entity #9 | Chains: o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 130 154 189
95 % 145 187 197
90 % 145 187 208
70 % 145 187 240
50 % 509 565 24
40 % 509 565 32
30 % 509 565 35

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