5WIT

Crystal structure of the Thermus thermophilus 70S ribosome in complex with pikromycin and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution


Sequence Similarity Clusters for the Entities in PDB 5WIT

Entity #1 | Chains: 1A,2A
23S Ribosomal RNA rna, length: 2915 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: 1O,2O
50S ribosomal protein L14 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 73
95 % 27 175 93
90 % 27 175 98
70 % 28 234 83
50 % 34 408 40
40 % 83 614 23
30 % 83 614 39
Entity #11 | Chains: 1P,2P
50S ribosomal protein L15 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 77
95 % 27 175 100
90 % 27 175 105
70 % 27 175 117
50 % 33 390 62
40 % 33 390 80
30 % 33 390 93
Entity #12 | Chains: 1Q,2Q
50S ribosomal protein L16 protein, length: 141 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 173 84
95 % 27 176 92
90 % 27 176 97
70 % 27 203 96
50 % 33 396 51
40 % 33 396 72
30 % 33 396 86
Entity #13 | Chains: 1R,2R
50S ribosomal protein L17 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 180 63
95 % 28 180 81
90 % 28 180 84
70 % 28 180 102
50 % 34 389 46
40 % 34 396 58
30 % 34 398 71
Entity #14 | Chains: 1S,2S
50S ribosomal protein L18 protein, length: 112 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 78
95 % 27 175 101
90 % 27 175 106
70 % 27 175 118
50 % 33 391 61
40 % 33 391 78
30 % 33 391 92
Entity #15 | Chains: 1T,2T
50S ribosomal protein L19 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 157 95
95 % 27 173 106
90 % 27 173 110
70 % 27 173 121
50 % 33 370 68
40 % 33 370 86
30 % 33 370 100
Entity #16 | Chains: 1U,2U
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 81
95 % 27 175 104
90 % 27 175 109
70 % 27 175 120
50 % 33 395 43
40 % 33 403 57
30 % 33 403 73
Entity #17 | Chains: 1V,2V
50S ribosomal protein L21 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 71
95 % 27 175 94
90 % 27 175 99
70 % 27 175 111
50 % 27 224 119
40 % 33 390 81
30 % 33 390 94
Entity #18 | Chains: 1W,2W
50S ribosomal protein L22 protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 183 65
95 % 29 184 82
90 % 29 184 86
70 % 29 184 103
50 % 35 369 70
40 % 35 369 88
30 % 35 371 103
Entity #19 | Chains: 1X,2X
50S ribosomal protein L23 protein, length: 96 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 176 70
95 % 27 176 91
90 % 27 176 96
70 % 27 176 110
50 % 27 202 130
40 % 80 475 45
30 % 80 475 64
Entity #2 | Chains: 1B,2B
5S Ribosomal RNA rna, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: 1Y,2Y
50S ribosomal protein L24 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 80
95 % 27 175 103
90 % 27 175 108
70 % 27 175 119
50 % 33 393 57
40 % 33 395 73
30 % 33 395 89
Entity #21 | Chains: 1Z,2Z
50S ribosomal protein L25 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 177 68
95 % 28 177 90
90 % 28 177 94
70 % 28 177 109
50 % 28 177 148
40 % 28 177 162
30 % 28 187 170
Entity #22 | Chains: 10,20
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 171 88
95 % 28 176 89
90 % 28 176 93
70 % 28 176 108
50 % 34 393 55
40 % 34 393 74
30 % 34 393 88
Entity #23 | Chains: 11,21
50S ribosomal protein L28 protein, length: 98 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 25 144 104
95 % 27 167 108
90 % 27 167 114
70 % 27 167 124
50 % 27 167 154
40 % 27 167 169
30 % 27 167 185
Entity #24 | Chains: 12,22
50S ribosomal protein L29 protein, length: 72 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 161 92
95 % 27 169 111
90 % 27 169 117
70 % 27 169 129
50 % 27 169 158
40 % 80 435 52
30 % 80 461 67
Entity #25 | Chains: 13,23
50S ribosomal protein L30 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 182 64
95 % 28 182 83
90 % 28 182 87
70 % 28 182 104
50 % 28 182 142
40 % 34 396 65
30 % 34 396 81
Entity #26 | Chains: 14,24
50S ribosomal protein L31 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 158 98
95 % 27 158 125
90 % 27 158 128
70 % 27 158 148
50 % 27 241 121
40 % 27 253 136
30 % 27 254 146
Entity #27 | Chains: 15,25
50S ribosomal protein L32 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 159 94
95 % 27 170 110
90 % 27 170 116
70 % 27 170 128
50 % 33 386 64
40 % 33 392 77
30 % 33 392 91
Entity #28 | Chains: 16,26
50S ribosomal protein L33 protein, length: 54 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 156 97
95 % 27 156 124
90 % 27 156 127
70 % 27 156 145
50 % 27 178 162
40 % 33 360 99
30 % 33 360 110
Entity #29 | Chains: 17,27
50S ribosomal protein L34 protein, length: 49 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 76
95 % 27 175 99
90 % 27 175 104
70 % 27 175 116
50 % 27 175 150
40 % 27 175 163
30 % 27 175 177
Entity #3 | Chains: 1D,2D
50S ribosomal protein L2 protein, length: 276 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 176 79
95 % 27 176 102
90 % 27 176 107
70 % 27 200 98
50 % 33 397 49
40 % 33 397 69
30 % 33 397 83
Entity #30 | Chains: 18,28
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 176 75
95 % 27 176 98
90 % 27 176 103
70 % 27 176 115
50 % 27 204 127
40 % 33 385 82
30 % 33 385 96
Entity #31 | Chains: 19,29
50S ribosomal protein L36 protein, length: 37 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 26 127 118
95 % 26 127 149
90 % 26 127 160
70 % 32 331 48
50 % 32 334 88
40 % 32 334 106
30 % 32 334 119
Entity #32 | Chains: 1a,2a
16S Ribosomal RNA rna, length: 1521 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #33 | Chains: 1b,2b
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 304 32
95 % 32 305 42
90 % 32 305 47
70 % 32 305 58
50 % 38 467 34
40 % 38 473 46
30 % 38 473 65
Entity #34 | Chains: 1c,2c
30S ribosomal protein S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 30 254 51
95 % 30 254 66
90 % 30 254 72
70 % 30 254 86
50 % 31 330 87
40 % 31 330 105
30 % 31 330 117
Entity #35 | Chains: 1d,2d
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 305 31
95 % 32 305 41
90 % 32 305 46
70 % 32 305 57
50 % 38 478 29
40 % 38 484 40
30 % 38 484 59
Entity #36 | Chains: 1e,2e
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 304 36
95 % 32 304 46
90 % 32 304 50
70 % 32 304 62
50 % 38 478 32
40 % 38 478 42
30 % 38 480 61
Entity #37 | Chains: 1f,2f
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 33 309 28
95 % 39 315 36
90 % 39 315 40
70 % 39 315 51
50 % 39 315 92
40 % 39 315 112
30 % 46 414 87
Entity #38 | Chains: 1g,2g
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 33 309 29
95 % 33 309 39
90 % 33 309 43
70 % 33 309 53
50 % 39 417 60
40 % 39 423 64
30 % 39 423 80
Entity #39 | Chains: 1h,2h
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 33 304 34
95 % 33 304 44
90 % 33 308 44
70 % 33 308 54
50 % 40 483 27
40 % 44 630 19
30 % 44 630 33
Entity #4 | Chains: 1E,2E
50S ribosomal protein L3 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 72
95 % 27 175 95
90 % 27 175 100
70 % 27 175 112
50 % 36 400 56
40 % 36 404 60
30 % 36 405 76
Entity #40 | Chains: 1i,2i
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 208 67
95 % 32 304 48
90 % 32 304 52
70 % 32 304 64
50 % 38 471 33
40 % 38 472 47
30 % 40 612 37
Entity #41 | Chains: 1j,2j
30S ribosomal protein S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 303 39
95 % 32 303 50
90 % 32 303 54
70 % 32 303 65
50 % 44 484 24
40 % 46 608 22
30 % 46 610 36
Entity #42 | Chains: 1k,2k
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 304 37
95 % 32 304 47
90 % 32 304 51
70 % 32 304 63
50 % 38 478 31
40 % 42 617 21
30 % 42 617 34
Entity #43 | Chains: 1l,2l
30S ribosomal protein S12 protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 29 274 47
95 % 32 311 38
90 % 32 311 42
70 % 38 492 15
50 % 38 495 22
40 % 38 495 36
30 % 38 495 57
Entity #44 | Chains: 1m,2m
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 305 33
95 % 32 305 43
90 % 32 305 48
70 % 32 305 59
50 % 38 482 30
40 % 38 482 41
30 % 40 614 38
Entity #45 | Chains: 1n,2n
30S ribosomal protein S14 type Z protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 303 38
95 % 32 303 49
90 % 32 303 53
70 % 32 307 56
50 % 32 318 91
40 % 32 318 111
30 % 32 318 123
Entity #46 | Chains: 1o,2o
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 309 27
95 % 33 312 37
90 % 33 312 41
70 % 33 312 52
50 % 42 490 25
40 % 42 495 35
30 % 42 495 56
Entity #47 | Chains: 1p,2p
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 299 41
95 % 32 304 45
90 % 32 304 49
70 % 32 304 61
50 % 32 316 93
40 % 38 479 44
30 % 38 479 63
Entity #48 | Chains: 1q,2q
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 272 46
95 % 32 301 52
90 % 32 301 56
70 % 32 301 68
50 % 32 301 98
40 % 32 301 117
30 % 32 301 130
Entity #49 | Chains: 1r,2r
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 30 246 52
95 % 30 254 67
90 % 30 254 73
70 % 30 254 87
50 % 30 254 116
40 % 30 254 139
30 % 30 254 148
Entity #5 | Chains: 1F,2F
50S ribosomal protein L4 protein, length: 210 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 160 93
95 % 27 176 96
90 % 27 176 101
70 % 27 176 113
50 % 27 205 126
40 % 34 397 67
30 % 34 397 82
Entity #50 | Chains: 1s,2s
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 33 307 30
95 % 33 307 40
90 % 33 307 45
70 % 33 307 55
50 % 39 484 28
40 % 39 487 39
30 % 39 487 58
Entity #51 | Chains: 1t,2t
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 261 50
95 % 32 303 51
90 % 32 303 55
70 % 32 303 66
50 % 32 303 96
40 % 32 303 116
30 % 32 303 127
Entity #52 | Chains: 1u,2u
30S ribosomal protein Thx protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 294 44
95 % 32 294 53
90 % 32 294 59
70 % 32 294 72
50 % 32 294 100
40 % 32 294 122
30 % 32 294 132
Entity #53 | Chains: 1v,2v
mRNA rna, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #54 | Chains: 1w,2w
A-site tRNA rna, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #55 | Chains: 1x,2x
P-site tRNA rna, length: 77 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #56 | Chains: 1y,2y
E-site tRNA rna, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #6 | Chains: 1G,2G
50S ribosomal protein L5 protein, length: 182 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 30 178 66
95 % 30 178 84
90 % 30 178 89
70 % 30 202 95
50 % 37 395 50
40 % 37 395 71
30 % 37 395 85
Entity #7 | Chains: 1H,2H
50S ribosomal protein L6 protein, length: 180 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 175 74
95 % 27 175 97
90 % 27 175 102
70 % 27 175 114
50 % 28 237 111
40 % 34 400 59
30 % 83 603 40
Entity #8 | Chains: 1I,2I
50S ribosomal protein L9 protein, length: 148 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 145 102
95 % 23 145 129
90 % 23 145 134
70 % 23 145 153
50 % 23 150 178
40 % 30 311 107
30 % 30 314 118
Entity #9 | Chains: 1N,2N
50S ribosomal protein L13 protein, length: 140 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 172 85
95 % 27 172 107
90 % 27 172 112
70 % 27 172 123
50 % 33 368 69
40 % 33 368 87
30 % 33 369 102

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