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 % 206 247 145
95 % 206 247 181
90 % 206 247 190
70 % 206 247 211
50 % 212 253 208
40 % 212 253 213
30 % 212 253 222
Entity #11 | Chains: q
30S ribosomal protein S17 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 205 246 140
95 % 205 246 175
90 % 205 246 183
70 % 209 250 204
50 % 230 275 183
40 % 230 275 196
30 % 230 275 207
Entity #12 | Chains: r
30S ribosomal protein S18 protein, length: 75 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 170 190 184
95 % 172 194 238
90 % 172 194 249
70 % 180 202 282
50 % 180 202 321
40 % 180 202 330
30 % 180 202 349
Entity #13 | Chains: t
30S ribosomal protein S20 protein, length: 87 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 205 245 141
95 % 205 245 179
90 % 205 245 188
70 % 205 245 210
50 % 215 255 204
40 % 215 255 209
30 % 239 280 203
Entity #14 | Chains: u
30S ribosomal protein S21 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 171 189 186
95 % 171 189 245
90 % 171 189 255
70 % 178 196 291
50 % 178 196 331
40 % 178 196 341
30 % 178 196 358
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 54142
95 % 2 3 28046
90 % 2 3 27049
70 % 2 4 18868
50 % 2 4 16841
40 % 2 4 18180
30 % 2 4 15058
Entity #18 | Chains: c
30S ribosomal protein S3 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 115 326
95 % 96 116 419
90 % 96 116 439
70 % 96 116 462
50 % 382 409 82
40 % 382 409 104
30 % 382 409 101
Entity #19 | Chains: g
30S ribosomal protein S7 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 78 98 382
95 % 204 243 191
90 % 204 243 199
70 % 78 98 538
50 % 78 98 563
40 % 78 98 604
30 % 78 98 631
Entity #2 | Chains: b
30S ribosomal protein S2 protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 203 242 148
95 % 203 242 186
90 % 203 242 196
70 % 213 252 200
50 % 565 616 28
40 % 570 622 36
30 % 570 622 41
Entity #20 | Chains: i
30S ribosomal protein S9 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 204 245 142
95 % 204 245 178
90 % 204 245 187
70 % 214 255 196
50 % 562 614 29
40 % 562 614 40
30 % 562 614 43
Entity #21 | Chains: j
30S ribosomal protein S10 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 210 250 135
95 % 211 251 169
90 % 215 255 169
70 % 221 261 180
50 % 577 627 23
40 % 577 627 32
30 % 618 670 32
Entity #22 | Chains: m
30S ribosomal protein S13 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 207 249 139
95 % 207 249 177
90 % 207 249 185
70 % 217 259 195
50 % 571 625 25
40 % 574 628 35
30 % 574 628 40
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 1945
95 % 204 242 185
90 % 204 242 194
70 % 204 242 216
50 % 216 254 205
40 % 221 260 207
30 % 222 261 219
Entity #24 | Chains: s
30S ribosomal protein S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 203 243 147
95 % 203 243 184
90 % 203 243 192
70 % 211 251 202
50 % 573 626 24
40 % 573 626 33
30 % 573 626 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 % 223 267 107
95 % 223 267 139
90 % 223 267 145
70 % 233 277 158
50 % 515 567 33
40 % 515 567 45
30 % 516 568 48
Entity #28 | Chains: D
50S ribosomal protein L3 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 232 279 104
95 % 232 279 134
90 % 232 279 139
70 % 242 289 154
50 % 519 573 32
40 % 523 577 42
30 % 523 578 45
Entity #29 | Chains: E
50S ribosomal protein L4 protein, length: 201 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 224 270 106
95 % 224 270 138
90 % 224 270 143
70 % 230 276 159
50 % 234 280 181
40 % 270 319 171
30 % 506 559 52
Entity #3 | Chains: d
30S ribosomal protein S4 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 205 245 143
95 % 207 247 174
90 % 207 247 182
70 % 217 257 192
50 % 217 257 203
40 % 575 626 34
30 % 580 632 38
Entity #30 | Chains: F
50S ribosomal protein L5 protein, length: 179 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 215 264 116
95 % 215 264 150
90 % 215 264 155
70 % 215 264 183
50 % 492 547 39
40 % 492 547 55
30 % 492 547 59
Entity #31 | Chains: G
50S ribosomal protein L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 213 259 122
95 % 213 259 158
90 % 213 259 164
70 % 213 259 188
50 % 223 269 189
40 % 496 554 49
30 % 499 558 53
Entity #32 | Chains: H
50S ribosomal protein L9 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 196 239 155
95 % 197 240 195
90 % 197 240 203
70 % 197 240 221
50 % 202 245 221
40 % 385 431 93
30 % 398 444 93
Entity #33 | Chains: I
50S ribosomal protein L11 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 164 214 160
95 % 164 214 198
90 % 164 214 209
70 % 168 218 237
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 % 224 271 105
95 % 224 271 137
90 % 224 271 141
70 % 234 281 155
50 % 279 329 153
40 % 486 540 57
30 % 486 540 62
Entity #35 | Chains: K
50S ribosomal protein L14 protein, length: 123 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 262 115
95 % 214 262 148
90 % 214 262 153
70 % 224 272 163
50 % 510 570 31
40 % 510 570 43
30 % 510 570 46
Entity #36 | Chains: L
50S ribosomal protein L15 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 217 264 113
95 % 224 271 136
90 % 224 271 142
70 % 224 271 165
50 % 234 281 180
40 % 508 562 47
30 % 508 562 51
Entity #37 | Chains: M
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 190 236 157
95 % 209 255 163
90 % 209 255 170
70 % 219 265 170
50 % 500 553 36
40 % 500 553 50
30 % 500 553 54
Entity #38 | Chains: N
50S ribosomal protein L17 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 208 254 129
95 % 214 260 155
90 % 214 260 160
70 % 224 270 166
50 % 459 509 47
40 % 501 554 48
30 % 501 556 49
Entity #39 | Chains: O
50S ribosomal protein L18 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 212 258 123
95 % 212 258 160
90 % 212 258 166
70 % 212 258 190
50 % 485 537 44
40 % 469 518 64
30 % 469 518 71
Entity #4 | Chains: e
30S ribosomal protein S5 protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 178 198 176
95 % 184 217 208
90 % 184 217 220
70 % 216 257 193
50 % 567 621 26
40 % 567 621 38
30 % 567 621 42
Entity #40 | Chains: P
50S ribosomal protein L19 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 260 120
95 % 214 260 156
90 % 214 260 161
70 % 214 260 185
50 % 273 323 155
40 % 273 323 166
30 % 273 323 171
Entity #41 | Chains: Q
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 261 117
95 % 214 261 151
90 % 214 261 156
70 % 224 271 164
50 % 503 557 35
40 % 510 565 44
30 % 510 565 47
Entity #42 | Chains: R
50S ribosomal protein L21 protein, length: 103 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 257 126
95 % 214 257 161
90 % 214 257 167
70 % 214 257 194
50 % 224 267 191
40 % 502 552 52
30 % 502 552 56
Entity #43 | Chains: S
50S ribosomal protein L22 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 260 119
95 % 214 260 153
90 % 214 260 158
70 % 224 270 167
50 % 472 526 46
40 % 472 526 62
30 % 472 526 68
Entity #44 | Chains: T
50S ribosomal protein L23 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 264 109
95 % 214 264 144
90 % 214 264 148
70 % 214 264 174
50 % 218 268 190
40 % 494 552 51
30 % 494 552 55
Entity #45 | Chains: U
50S ribosomal protein L24 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 263 114
95 % 214 263 147
90 % 214 263 152
70 % 214 263 179
50 % 475 530 43
40 % 475 530 60
30 % 475 532 65
Entity #46 | Chains: V
50S ribosomal protein L25 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 213 264 112
95 % 213 264 146
90 % 213 264 151
70 % 213 264 176
50 % 214 265 187
40 % 220 271 195
30 % 220 271 206
Entity #47 | Chains: W
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 213 259 124
95 % 214 260 157
90 % 214 260 163
70 % 248 295 147
50 % 498 549 37
40 % 498 549 53
30 % 498 549 57
Entity #48 | Chains: X
50S ribosomal protein L28 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 208 244 149
95 % 208 244 189
90 % 208 244 197
70 % 218 254 203
50 % 220 256 206
40 % 220 256 211
30 % 220 256 221
Entity #49 | Chains: Y
50S ribosomal protein L29 protein, length: 63 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 264 111
95 % 214 264 143
90 % 214 264 149
70 % 214 264 177
50 % 224 274 184
40 % 424 477 78
30 % 449 503 72
Entity #5 | Chains: f
30S ribosomal protein S6 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 88 108 351
95 % 96 116 418
90 % 96 116 438
70 % 96 116 461
50 % 102 122 476
40 % 102 122 501
30 % 102 122 527
Entity #50 | Chains: Z
50S ribosomal protein L30 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 261 118
95 % 214 261 152
90 % 214 261 157
70 % 214 261 184
50 % 281 331 149
40 % 492 547 56
30 % 492 547 60
Entity #51 | Chains: 0
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 258 125
95 % 214 258 159
90 % 214 258 165
70 % 214 258 189
50 % 218 262 198
40 % 218 262 205
30 % 487 538 64
Entity #52 | Chains: 1
50S ribosomal protein L33 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 209 255 128
95 % 209 255 164
90 % 209 255 172
70 % 219 265 172
50 % 240 287 176
40 % 459 510 72
30 % 459 510 77
Entity #53 | Chains: 2
50S ribosomal protein L34 protein, length: 46 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 214 256 127
95 % 214 256 162
90 % 214 256 168
70 % 252 295 146
50 % 502 551 38
40 % 502 551 54
30 % 502 551 58
Entity #54 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 211 253 130
95 % 211 253 166
90 % 211 253 174
70 % 211 253 198
50 % 247 290 173
40 % 247 290 186
30 % 247 290 193
Entity #55 | Chains: 4
50S ribosomal protein L36 protein, length: 38 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 201 245 146
95 % 201 245 182
90 % 201 245 191
70 % 211 255 197
50 % 433 484 61
40 % 433 484 84
30 % 433 484 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 59 850
95 % 53 65 1006
90 % 53 65 1047
70 % 53 65 1089
50 % 53 65 1124
40 % 53 65 1165
30 % 82 95 731
Entity #57 | Chains: 6
50S ribosomal protein L31 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 114 400
95 % 96 114 506
90 % 96 114 525
70 % 96 114 554
50 % 96 114 584
40 % 302 324 125
30 % 302 324 130
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 27498
95 % 2 4 20666
90 % 2 4 25758
70 % 2 4 23419
50 % 2 4 20619
40 % 2 4 18863
30 % 2 4 16934
Entity #6 | Chains: h
30S ribosomal protein S8 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 206 247 137
95 % 206 247 172
90 % 206 247 179
70 % 206 247 205
50 % 216 257 202
40 % 581 636 29
30 % 795 881 22
Entity #7 | Chains: k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 204 245 144
95 % 204 245 180
90 % 204 245 189
70 % 210 251 201
50 % 566 619 27
40 % 566 619 39
30 % 578 633 36
Entity #8 | Chains: l
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 167 212 166
95 % 202 247 176
90 % 202 247 184
70 % 559 622 16
50 % 578 642 21
40 % 578 642 28
30 % 578 642 35
Entity #9 | Chains: o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 191 215 163
95 % 206 248 173
90 % 206 248 180
70 % 206 248 206
50 % 580 637 22
40 % 580 637 30
30 % 580 637 37

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 4V6V 21 A1 Tetracycline resistance protein TetO 197
4 3J25 1 A Tetracycline resistance protein tetM 1351