5IB8

Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site


Sequence Similarity Clusters for the Entities in PDB 5IB8

Entity #1 | Chains: 13,1G
16S ribosomal RNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: 1A,1I
30S ribosomal protein S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 333 36
95 % 69 334 58
90 % 69 334 63
70 % 69 334 74
50 % 83 549 26
40 % 83 549 34
30 % 83 586 32
Entity #11 | Chains: 2A,2I
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 335 34
95 % 69 335 55
90 % 69 335 60
70 % 69 335 72
50 % 82 543 29
40 % 82 543 38
30 % 82 543 41
Entity #12 | Chains: 3A,3I
30S ribosomal protein S12 protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 35 244 61
95 % 69 342 45
90 % 69 342 49
70 % 83 547 17
50 % 83 565 22
40 % 83 565 28
30 % 83 565 33
Entity #13 | Chains: 4A,4I
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 336 30
95 % 69 336 50
90 % 69 336 56
70 % 69 336 68
50 % 82 549 27
40 % 82 552 35
30 % 82 552 38
Entity #14 | Chains: 5A,5I
30S ribosomal protein S14 type Z protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 334 35
95 % 69 334 56
90 % 69 334 61
70 % 69 341 60
50 % 69 355 89
40 % 69 355 103
30 % 69 355 103
Entity #15 | Chains: 6A,6I
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 338 29
95 % 71 343 43
90 % 71 343 47
70 % 71 343 58
50 % 87 561 23
40 % 87 561 30
30 % 87 561 34
Entity #16 | Chains: 7A,7I
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 330 37
95 % 69 335 54
90 % 69 335 59
70 % 69 335 70
50 % 69 335 94
40 % 69 335 109
30 % 69 335 112
Entity #17 | Chains: 8A,8I
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 60 227 58
95 % 69 328 59
90 % 69 332 64
70 % 69 332 75
50 % 69 332 96
40 % 69 332 111
30 % 69 332 114
Entity #18 | Chains: 9A,9I
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 61 225 62
95 % 62 279 74
90 % 62 279 79
70 % 62 279 89
50 % 62 279 112
40 % 62 279 130
30 % 62 279 140
Entity #19 | Chains: AA,AI
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 65 293 44
95 % 65 293 65
90 % 65 293 71
70 % 70 338 63
50 % 83 550 24
40 % 83 550 32
30 % 83 550 36
Entity #2 | Chains: 12,1E
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 334 32
95 % 69 336 49
90 % 69 336 54
70 % 69 336 67
50 % 82 541 30
40 % 82 547 36
30 % 82 547 39
Entity #20 | Chains: BA,BI
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 67 278 48
95 % 69 334 57
90 % 69 334 62
70 % 69 334 73
50 % 69 334 95
40 % 69 334 110
30 % 69 334 113
Entity #21 | Chains: 1B,1F
30S ribosomal protein Thx protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 64 292 46
95 % 64 292 68
90 % 64 292 74
70 % 64 292 85
50 % 64 292 108
40 % 64 292 127
30 % 64 292 135
Entity #22 | Chains: 1K
tRNALys rna, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #23 | Chains: 2K,2L
tRNAfMet rna, length: 77 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #24 | Chains: 3K,3L
tRNALys rna, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #25 | Chains: 4K,4L
mRNA rna, length: 30 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #26 | Chains: 14,1H
23S ribosomal RNA rna, length: 2917 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #27 | Chains: 16,1J
5S ribosomal RNA rna, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #28 | Chains: 71
50S ribosomal protein L1 protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 34 1071
95 % 27 101 307
90 % 27 101 324
70 % 27 101 366
50 % 28 164 298
40 % 28 164 315
30 % 28 164 336
Entity #29 | Chains: 11,19
50S ribosomal protein L2 protein, length: 276 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 202 66
95 % 48 202 92
90 % 48 202 98
70 % 48 226 98
50 % 61 474 45
40 % 61 474 57
30 % 61 474 60
Entity #3 | Chains: 22,2E
30S ribosomal protein S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 62 279 49
95 % 62 279 75
90 % 62 279 80
70 % 62 279 90
50 % 64 366 86
40 % 64 366 101
30 % 64 366 101
Entity #30 | Chains: 21,29
50S ribosomal protein L3 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 201 72
95 % 47 201 96
90 % 47 201 101
70 % 47 201 116
50 % 66 480 44
40 % 66 484 53
30 % 66 485 56
Entity #31 | Chains: 31,39
50S ribosomal protein L4 protein, length: 210 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 186 84
95 % 48 202 99
90 % 48 202 105
70 % 48 202 118
50 % 48 231 121
40 % 48 241 136
30 % 62 466 69
Entity #32 | Chains: 41,49
50S ribosomal protein L5 protein, length: 182 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 50 187 81
95 % 50 204 84
90 % 50 204 90
70 % 50 228 96
50 % 64 469 48
40 % 64 469 62
30 % 64 469 64
Entity #33 | Chains: 51,59
50S ribosomal protein L6 protein, length: 180 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 201 70
95 % 47 201 89
90 % 47 201 95
70 % 47 201 112
50 % 48 271 106
40 % 61 475 55
30 % 61 479 55
Entity #34 | Chains: 61,69
50S ribosomal protein L9 protein, length: 148 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 40 144 108
95 % 40 166 126
90 % 40 166 133
70 % 40 166 146
50 % 40 171 167
40 % 53 359 97
30 % 53 372 94
Entity #35 | Chains: 15,58
50S ribosomal protein L13 protein, length: 140 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 197 75
95 % 47 198 102
90 % 47 198 111
70 % 47 198 122
50 % 47 203 137
40 % 60 447 70
30 % 60 447 75
Entity #36 | Chains: 25,68
50S ribosomal protein L14 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 176 92
95 % 47 201 94
90 % 47 201 102
70 % 47 225 99
50 % 61 487 36
40 % 61 487 47
30 % 61 487 50
Entity #37 | Chains: 35,78
50S ribosomal protein L15 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 201 68
95 % 47 201 97
90 % 47 201 103
70 % 47 201 119
50 % 47 243 118
40 % 60 469 64
30 % 60 469 66
Entity #38 | Chains: 45,88
50S ribosomal protein L16 protein, length: 141 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 185 86
95 % 47 202 87
90 % 47 202 93
70 % 47 229 97
50 % 60 472 47
40 % 60 472 59
30 % 60 472 62
Entity #39 | Chains: 55,98
50S ribosomal protein L17 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 206 56
95 % 48 206 81
90 % 48 206 87
70 % 48 206 105
50 % 61 432 55
40 % 61 471 52
30 % 61 473 54
Entity #4 | Chains: 32,3E
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 328 38
95 % 69 336 48
90 % 69 336 55
70 % 69 336 65
50 % 69 360 88
40 % 82 555 31
30 % 82 555 35
Entity #40 | Chains: 65,A8
50S ribosomal protein L18 protein, length: 112 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 186 82
95 % 47 186 112
90 % 47 186 120
70 % 47 186 132
50 % 60 454 54
40 % 60 435 73
30 % 60 435 78
Entity #41 | Chains: 75,B8
50S ribosomal protein L19 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 182 90
95 % 47 199 100
90 % 47 199 108
70 % 45 191 129
50 % 45 191 149
40 % 45 191 163
30 % 45 191 167
Entity #42 | Chains: 85,C8
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 196 76
95 % 47 201 95
90 % 47 201 100
70 % 47 201 117
50 % 60 474 42
40 % 60 482 49
30 % 60 482 51
Entity #43 | Chains: 95,D8
50S ribosomal protein L21 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 201 69
95 % 47 201 91
90 % 47 201 97
70 % 47 201 120
50 % 47 261 111
40 % 60 469 63
30 % 60 469 65
Entity #44 | Chains: A5,E8
50S ribosomal protein L22 protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 209 60
95 % 49 210 82
90 % 49 210 88
70 % 49 210 106
50 % 62 443 56
40 % 62 443 72
30 % 62 443 76
Entity #45 | Chains: B5,F8
50S ribosomal protein L23 protein, length: 96 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 202 64
95 % 47 202 86
90 % 47 202 92
70 % 47 202 110
50 % 47 228 123
40 % 60 471 61
30 % 60 471 63
Entity #46 | Chains: C5,G8
50S ribosomal protein L24 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 201 65
95 % 47 201 90
90 % 47 201 96
70 % 47 201 113
50 % 60 447 53
40 % 60 449 69
30 % 60 449 74
Entity #47 | Chains: D5,H8
50S ribosomal protein L25 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 201 73
95 % 49 202 88
90 % 49 202 94
70 % 49 202 111
50 % 49 202 138
40 % 49 202 154
30 % 49 214 156
Entity #48 | Chains: E5,I8
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 45 183 87
95 % 48 202 85
90 % 48 202 91
70 % 48 202 109
50 % 62 471 46
40 % 62 471 58
30 % 62 471 61
Entity #49 | Chains: F5,J8
50S ribosomal protein L28 protein, length: 98 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 172 97
95 % 47 193 106
90 % 47 193 113
70 % 47 193 124
50 % 47 193 142
40 % 47 193 158
30 % 47 193 163
Entity #5 | Chains: 42,4E
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 335 33
95 % 69 335 53
90 % 69 335 58
70 % 69 335 71
50 % 83 545 28
40 % 83 545 37
30 % 83 545 40
Entity #50 | Chains: G5,K8
50S ribosomal protein L29 protein, length: 72 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 186 80
95 % 47 194 108
90 % 47 194 117
70 % 47 194 126
50 % 47 194 144
40 % 60 400 84
30 % 60 426 81
Entity #51 | Chains: H5,L8
50S ribosomal protein L30 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 208 59
95 % 48 208 83
90 % 48 208 89
70 % 48 208 107
50 % 48 208 136
40 % 61 464 66
30 % 61 464 68
Entity #52 | Chains: M8
50S ribosomal protein L31 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 184 93
95 % 47 184 118
90 % 47 184 128
70 % 47 184 138
50 % 47 201 151
40 % 47 281 129
30 % 47 282 139
Entity #53 | Chains: J5,N8
50S ribosomal protein L32 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 185 85
95 % 47 196 107
90 % 47 196 115
70 % 47 196 125
50 % 47 230 125
40 % 47 230 143
30 % 60 457 72
Entity #54 | Chains: L5,P8
50S ribosomal protein L34 protein, length: 49 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 47 201 71
95 % 47 201 93
90 % 47 201 99
70 % 47 201 114
50 % 60 468 49
40 % 60 468 65
30 % 60 468 67
Entity #55 | Chains: M5,Q8
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 202 67
95 % 48 202 98
90 % 48 202 104
70 % 48 202 115
50 % 48 230 122
40 % 48 240 138
30 % 48 240 145
Entity #56 | Chains: 1L
tRNALys rna, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #6 | Chains: 52,5E
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 70 340 26
95 % 78 348 40
90 % 78 348 44
70 % 78 348 56
50 % 78 348 90
40 % 78 348 104
30 % 78 348 105
Entity #7 | Chains: 62,6E
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 70 339 27
95 % 70 340 47
90 % 70 340 52
70 % 70 338 64
50 % 83 479 51
40 % 83 485 67
30 % 83 485 70
Entity #8 | Chains: 72,7E
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 70 335 31
95 % 70 335 51
90 % 70 339 51
70 % 70 339 62
50 % 71 364 84
40 % 85 560 29
30 % 92 760 21
Entity #9 | Chains: 82,8E
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 64 234 63
95 % 69 335 52
90 % 69 335 57
70 % 69 335 69
50 % 82 538 31
40 % 82 538 39
30 % 82 538 42

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