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 % 208 249 144
95 % 208 249 180
90 % 208 249 189
70 % 208 249 210
50 % 214 255 208
40 % 214 255 216
30 % 214 255 222
Entity #11 | Chains: q
30S ribosomal protein S17 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 207 248 138
95 % 207 248 175
90 % 207 248 184
70 % 211 252 204
50 % 236 281 182
40 % 236 281 193
30 % 236 281 203
Entity #12 | Chains: r
30S ribosomal protein S18 protein, length: 75 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 172 192 184
95 % 174 196 236
90 % 174 196 247
70 % 182 204 281
50 % 182 204 315
40 % 182 204 325
30 % 182 204 344
Entity #13 | Chains: t
30S ribosomal protein S20 protein, length: 87 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 207 247 139
95 % 207 247 178
90 % 207 247 185
70 % 207 247 207
50 % 217 257 205
40 % 217 257 211
30 % 245 286 199
Entity #14 | Chains: u
30S ribosomal protein S21 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 173 191 185
95 % 173 191 241
90 % 173 191 254
70 % 180 198 288
50 % 180 198 326
40 % 180 198 338
30 % 180 198 355
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 57687
95 % 2 3 28099
90 % 2 3 28327
70 % 2 4 20461
50 % 2 4 16879
40 % 2 4 18249
30 % 2 4 14150
Entity #18 | Chains: c
30S ribosomal protein S3 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 117 327
95 % 98 118 418
90 % 98 118 439
70 % 98 118 455
50 % 384 411 82
40 % 384 411 103
30 % 384 411 101
Entity #19 | Chains: g
30S ribosomal protein S7 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 79 99 378
95 % 206 245 188
90 % 206 245 198
70 % 79 99 531
50 % 79 99 569
40 % 79 99 606
30 % 79 99 634
Entity #2 | Chains: b
30S ribosomal protein S2 protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 205 244 147
95 % 205 244 184
90 % 205 244 194
70 % 215 254 199
50 % 567 618 29
40 % 572 624 36
30 % 572 624 41
Entity #20 | Chains: i
30S ribosomal protein S9 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 206 247 141
95 % 206 247 179
90 % 206 247 186
70 % 216 257 196
50 % 568 620 28
40 % 568 620 39
30 % 568 620 42
Entity #21 | Chains: j
30S ribosomal protein S10 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 212 252 130
95 % 213 253 165
90 % 217 257 168
70 % 223 263 178
50 % 583 633 23
40 % 583 633 31
30 % 624 676 32
Entity #22 | Chains: m
30S ribosomal protein S13 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 209 251 137
95 % 209 251 176
90 % 209 251 183
70 % 219 261 194
50 % 577 631 25
40 % 580 634 34
30 % 580 634 39
Entity #23 | Chains: n
30S ribosomal protein S14 protein, length: 102 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 30 31 1900
95 % 206 244 183
90 % 206 244 193
70 % 206 244 214
50 % 218 256 206
40 % 223 262 206
30 % 224 263 218
Entity #24 | Chains: s
30S ribosomal protein S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 205 245 146
95 % 205 245 182
90 % 205 245 192
70 % 213 253 200
50 % 579 632 24
40 % 579 632 32
30 % 579 632 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 % 225 269 106
95 % 225 269 138
90 % 225 269 145
70 % 235 279 156
50 % 521 573 33
40 % 521 573 44
30 % 522 574 48
Entity #28 | Chains: D
50S ribosomal protein L3 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 234 281 102
95 % 234 281 133
90 % 234 281 139
70 % 244 291 152
50 % 525 579 32
40 % 529 583 42
30 % 529 584 45
Entity #29 | Chains: E
50S ribosomal protein L4 protein, length: 201 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 226 272 105
95 % 226 272 136
90 % 226 272 142
70 % 232 278 157
50 % 236 282 180
40 % 511 564 48
30 % 512 565 52
Entity #3 | Chains: d
30S ribosomal protein S4 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 207 247 140
95 % 209 249 173
90 % 209 249 181
70 % 219 259 192
50 % 219 259 203
40 % 581 632 33
30 % 586 638 37
Entity #30 | Chains: F
50S ribosomal protein L5 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 217 266 117
95 % 217 266 150
90 % 217 266 156
70 % 217 266 182
50 % 498 553 39
40 % 498 553 55
30 % 498 553 60
Entity #31 | Chains: G
50S ribosomal protein L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 215 261 120
95 % 215 261 156
90 % 215 261 162
70 % 215 261 186
50 % 225 271 188
40 % 275 329 167
30 % 505 564 51
Entity #32 | Chains: H
50S ribosomal protein L9 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 198 241 151
95 % 199 242 192
90 % 199 242 201
70 % 199 242 221
50 % 204 247 225
40 % 387 433 91
30 % 400 446 93
Entity #33 | Chains: I
50S ribosomal protein L11 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 164 214 158
95 % 164 214 197
90 % 164 214 209
70 % 168 218 238
50 % 236 314 144
40 % 238 318 158
30 % 238 319 164
Entity #34 | Chains: J
50S ribosomal protein L13 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 226 273 104
95 % 226 273 135
90 % 226 273 140
70 % 236 283 154
50 % 285 335 149
40 % 492 546 56
30 % 492 546 61
Entity #35 | Chains: K
50S ribosomal protein L14 protein, length: 123 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 264 114
95 % 216 264 145
90 % 216 264 151
70 % 226 274 161
50 % 516 576 31
40 % 516 576 41
30 % 516 576 46
Entity #36 | Chains: L
50S ribosomal protein L15 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 218 265 112
95 % 226 273 134
90 % 226 273 141
70 % 226 273 165
50 % 236 283 179
40 % 514 568 45
30 % 514 568 50
Entity #37 | Chains: M
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 190 236 155
95 % 211 257 162
90 % 211 257 170
70 % 221 267 169
50 % 506 559 37
40 % 506 559 50
30 % 506 559 55
Entity #38 | Chains: N
50S ribosomal protein L17 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 210 256 128
95 % 216 262 152
90 % 216 262 159
70 % 226 272 166
50 % 461 511 47
40 % 507 560 46
30 % 507 562 49
Entity #39 | Chains: O
50S ribosomal protein L18 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 260 121
95 % 214 260 158
90 % 214 260 164
70 % 214 260 189
50 % 491 543 43
40 % 475 524 63
30 % 475 524 70
Entity #4 | Chains: e
30S ribosomal protein S5 protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 179 199 175
95 % 186 219 206
90 % 186 219 219
70 % 218 259 191
50 % 573 627 26
40 % 573 627 35
30 % 573 627 40
Entity #40 | Chains: P
50S ribosomal protein L19 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 262 118
95 % 216 262 151
90 % 216 262 158
70 % 216 262 183
50 % 279 329 151
40 % 279 329 165
30 % 279 329 169
Entity #41 | Chains: Q
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 263 115
95 % 216 263 148
90 % 216 263 154
70 % 226 273 164
50 % 509 563 34
40 % 516 571 43
30 % 516 571 47
Entity #42 | Chains: R
50S ribosomal protein L21 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 259 125
95 % 216 259 160
90 % 216 259 167
70 % 216 259 193
50 % 226 269 190
40 % 508 558 52
30 % 508 558 57
Entity #43 | Chains: S
50S ribosomal protein L22 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 262 119
95 % 216 262 153
90 % 216 262 157
70 % 226 272 167
50 % 478 532 44
40 % 478 532 59
30 % 478 532 65
Entity #44 | Chains: T
50S ribosomal protein L23 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 266 109
95 % 216 266 142
90 % 216 266 147
70 % 216 266 173
50 % 220 270 189
40 % 500 558 51
30 % 500 558 56
Entity #45 | Chains: U
50S ribosomal protein L24 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 265 111
95 % 216 265 144
90 % 216 265 150
70 % 216 265 175
50 % 481 536 42
40 % 481 536 58
30 % 481 538 64
Entity #46 | Chains: V
50S ribosomal protein L25 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 215 266 107
95 % 215 266 140
90 % 215 266 148
70 % 215 266 171
50 % 216 267 185
40 % 222 273 195
30 % 222 273 205
Entity #47 | Chains: W
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 215 261 122
95 % 216 262 155
90 % 216 262 161
70 % 250 297 147
50 % 509 560 36
40 % 509 560 49
30 % 509 560 54
Entity #48 | Chains: X
50S ribosomal protein L28 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 210 246 148
95 % 210 246 186
90 % 210 246 195
70 % 220 256 201
50 % 222 258 207
40 % 222 258 212
30 % 222 258 221
Entity #49 | Chains: Y
50S ribosomal protein L29 protein, length: 63 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 266 110
95 % 216 266 141
90 % 216 266 149
70 % 216 266 172
50 % 226 276 184
40 % 426 479 75
30 % 451 505 71
Entity #5 | Chains: f
30S ribosomal protein S6 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 89 109 356
95 % 98 118 412
90 % 98 118 435
70 % 98 118 453
50 % 104 124 475
40 % 104 124 497
30 % 104 124 520
Entity #50 | Chains: Z
50S ribosomal protein L30 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 263 116
95 % 216 263 149
90 % 216 263 155
70 % 216 263 180
50 % 287 337 146
40 % 498 553 54
30 % 498 553 59
Entity #51 | Chains: 0
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 260 124
95 % 216 260 159
90 % 216 260 165
70 % 216 260 190
50 % 220 264 196
40 % 220 264 203
30 % 493 544 62
Entity #52 | Chains: 1
50S ribosomal protein L33 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 211 257 127
95 % 211 257 163
90 % 211 257 171
70 % 221 267 170
50 % 242 289 174
40 % 465 516 67
30 % 465 516 72
Entity #53 | Chains: 2
50S ribosomal protein L34 protein, length: 46 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 258 126
95 % 216 258 161
90 % 216 258 169
70 % 254 297 146
50 % 508 557 38
40 % 508 557 53
30 % 508 557 58
Entity #54 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 213 255 129
95 % 213 255 164
90 % 213 255 173
70 % 213 255 198
50 % 249 292 171
40 % 249 292 185
30 % 249 292 192
Entity #55 | Chains: 4
50S ribosomal protein L36 protein, length: 38 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 202 246 145
95 % 202 246 181
90 % 202 246 191
70 % 212 256 197
50 % 438 489 60
40 % 438 489 82
30 % 438 489 88
Entity #56 | Chains: 5
50S ribosomal protein L10 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 59 846
95 % 53 65 1014
90 % 53 65 1048
70 % 53 65 1086
50 % 53 65 1125
40 % 53 65 1165
30 % 82 95 730
Entity #57 | Chains: 6
50S ribosomal protein L31 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 98 116 395
95 % 98 116 505
90 % 98 116 526
70 % 98 116 553
50 % 98 116 584
40 % 304 326 125
30 % 304 326 131
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 26556
95 % 2 4 20732
90 % 2 4 25832
70 % 2 4 23474
50 % 2 4 20650
40 % 2 4 18909
30 % 2 4 16962
Entity #6 | Chains: h
30S ribosomal protein S8 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 208 249 135
95 % 208 249 170
90 % 208 249 179
70 % 208 249 205
50 % 218 259 200
40 % 587 642 28
30 % 810 896 20
Entity #7 | Chains: k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 205 246 143
95 % 206 247 177
90 % 206 247 187
70 % 212 253 202
50 % 572 625 27
40 % 572 625 37
30 % 584 639 35
Entity #8 | Chains: l
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 167 212 164
95 % 204 249 174
90 % 204 249 182
70 % 561 624 16
50 % 584 648 21
40 % 584 648 27
30 % 584 648 34
Entity #9 | Chains: o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 193 217 160
95 % 208 250 172
90 % 208 250 180
70 % 208 250 206
50 % 586 643 22
40 % 586 643 29
30 % 586 643 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