Sequence Similarity Clusters for the Entities in PDB 5DM7

Entity #1 | Chains: 0
50S ribosomal protein L1 protein, length: 224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 45685
95 % 2 2 41204 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 2 2 39311
70 % 2 2 34780
50 % 70 164 298
40 % 70 164 315
30 % 70 164 336
Entity #10 | Chains: I
50S ribosomal protein L15 protein, length: 141 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 2095
95 % 10 24 2651 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 2.9
PDBFlex
90 % 10 24 2697
70 % 10 24 2736
50 % 10 24 2740
40 % 200 469 64
30 % 200 469 66
Entity #11 | Chains: J
50S ribosomal protein L16 protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 2514
95 % 10 24 3296 Flexibility: Low
Max RMSD: 5.2, Avg RMSD: 2.7
PDBFlex
90 % 10 24 3186
70 % 163 229 97
50 % 200 472 47
40 % 200 472 59
30 % 200 472 62
Entity #12 | Chains: K
50S ribosomal protein L17 protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 2053
95 % 10 24 2596 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 0.9
PDBFlex
90 % 10 24 2681
70 % 10 24 2681
50 % 194 432 55
40 % 201 471 52
30 % 201 473 54
Entity #13 | Chains: L
50S ribosomal protein L18 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 54699
95 % 10 24 2589 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 1.6
PDBFlex
90 % 10 24 2640
70 % 10 24 2690
50 % 194 454 54
40 % 194 435 73
30 % 194 435 78
Entity #14 | Chains: M
50S ribosomal protein L19 protein, length: 109 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 54698
95 % 2 2 38173 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.4
PDBFlex
90 % 2 2 36437
70 % 2 2 32378
50 % 2 2 28198
40 % 2 2 25645
30 % 2 2 22805
Entity #15 | Chains: N
50S ribosomal protein L20 protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 28 1748
95 % 10 28 2259 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.8
PDBFlex
90 % 10 28 2312
70 % 10 28 2378
50 % 201 474 42
40 % 201 482 49
30 % 201 482 51
Entity #16 | Chains: O
50S ribosomal protein L21 protein, length: 94 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 28 1712
95 % 10 28 2186 Flexibility: Medium
Max RMSD: 7.9, Avg RMSD: 3.7
PDBFlex
90 % 10 28 2243
70 % 10 28 2303
50 % 170 261 111
40 % 200 469 63
30 % 200 469 65
Entity #17 | Chains: P
50S ribosomal protein L22 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 11 28 1745
95 % 11 30 2071 Flexibility: Low
Max RMSD: 2.5, Avg RMSD: 1.1
PDBFlex
90 % 11 30 2115
70 % 11 30 2154
50 % 11 30 2204
40 % 11 30 2240
30 % 11 30 2257
Entity #18 | Chains: Q
50S ribosomal protein L23 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 26 1815
95 % 10 26 2399 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 10 26 2451
70 % 10 26 2510
50 % 163 228 123
40 % 200 471 61
30 % 200 471 63
Entity #19 | Chains: R
50S ribosomal protein L24 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 25 1943
95 % 10 25 2495 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.6
PDBFlex
90 % 10 25 2554
70 % 10 25 2601
50 % 10 25 2623
40 % 10 25 2648
30 % 10 25 2637
Entity #2 | Chains: A
50S ribosomal protein L2 protein, length: 274 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 47539
95 % 10 24 2661 Flexibility: Low
Max RMSD: 7.5, Avg RMSD: 2.2
PDBFlex
90 % 10 24 2618
70 % 164 226 98
50 % 201 474 45
40 % 201 474 57
30 % 201 474 60
Entity #20 | Chains: S
50S ribosomal protein L25 protein, length: 175 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 5 8919
95 % 2 5 9638 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 2 5 9564
70 % 2 5 9258
50 % 2 5 8626
40 % 2 5 8268
30 % 2 6 7051
Entity #21 | Chains: T
50S ribosomal protein L27 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 29 1647
95 % 10 29 2117 Flexibility: Medium
Max RMSD: 11.9, Avg RMSD: 5.0
PDBFlex
90 % 10 29 2161
70 % 41 226 175
50 % 202 471 46
40 % 202 471 58
30 % 202 471 61
Entity #22 | Chains: U
50S ribosomal protein L28 protein, length: 72 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 41067
95 % 2 2 35405 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 2 2 42540
70 % 2 2 30267
50 % 2 2 26446
40 % 2 2 24092
30 % 2 2 21496
Entity #23 | Chains: V
50S ribosomal protein L29 protein, length: 66 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 26 1869
95 % 10 26 2392 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 1.5
PDBFlex
90 % 10 26 2443
70 % 10 26 2502
50 % 10 26 2500
40 % 10 26 2553
30 % 189 426 81
Entity #24 | Chains: W
50S ribosomal protein L30 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 2029
95 % 10 24 2679 Flexibility: Low
Max RMSD: 1.8, Avg RMSD: 0.9
PDBFlex
90 % 10 24 2740
70 % 10 24 2765
50 % 47 256 179
40 % 201 464 66
30 % 201 464 68
Entity #25 | Chains: Z
50S ribosomal protein L32 protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 11 34 1351
95 % 11 34 1790 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.9
PDBFlex
90 % 11 34 1826
70 % 11 34 1867
50 % 160 230 125
40 % 160 230 143
30 % 197 457 72
Entity #26 | Chains: 1
50S ribosomal protein L33 protein, length: 54 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 41066
95 % 2 2 35114 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 2 2 33891
70 % 9 22 2973
50 % 39 220 198
40 % 175 430 79
30 % 175 430 86
Entity #27 | Chains: 2
50S ribosomal protein L34 protein, length: 47 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 28 1671
95 % 10 28 2185 Flexibility: Low
Max RMSD: 1.8, Avg RMSD: 1.1
PDBFlex
90 % 10 28 2240
70 % 40 226 173
50 % 200 468 49
40 % 200 468 65
30 % 200 468 67
Entity #28 | Chains: 3
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 28 1729
95 % 10 28 2220 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 1.7
PDBFlex
90 % 10 28 2274
70 % 10 28 2334
50 % 164 230 122
40 % 164 240 138
30 % 164 240 145
Entity #29 | Chains: X
23S ribosomal RNA rna, length: 2881 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: B
50S ribosomal protein L3 protein, length: 205 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 27 1776
95 % 10 27 2320 Flexibility: Low
Max RMSD: 2.7, Avg RMSD: 1.5
PDBFlex
90 % 10 27 2337
70 % 10 27 2409
50 % 207 480 44
40 % 207 484 53
30 % 207 485 56
Entity #30 | Chains: Y
5S ribosomal RNA rna, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: C
50S ribosomal protein L4 protein, length: 197 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 11 29 1624
95 % 11 29 2134 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 1.2
PDBFlex
90 % 11 29 2171
70 % 11 29 2232
50 % 165 231 121
40 % 165 241 136
30 % 203 466 69
Entity #5 | Chains: D
50S ribosomal protein L5 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 2019
95 % 10 24 2648 Flexibility: Low
Max RMSD: 2.3, Avg RMSD: 1.4
PDBFlex
90 % 10 24 2716
70 % 166 228 96
50 % 207 469 48
40 % 207 469 62
30 % 207 469 64
Entity #6 | Chains: E
50S ribosomal protein L6 protein, length: 171 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 9 22 2210
95 % 9 22 2883 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 0.9
PDBFlex
90 % 9 22 2954
70 % 9 22 2996
50 % 170 271 106
40 % 200 475 55
30 % 200 479 55
Entity #7 | Chains: F
50S ribosomal protein L11 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 45684
95 % 9 21 2994 Flexibility: Low
Max RMSD: 3.8, Avg RMSD: 2.1
PDBFlex
90 % 9 21 3066
70 % 29 65 654
50 % 60 266 159
40 % 60 266 170
30 % 60 274 170
Entity #8 | Chains: G
50S ribosomal protein L13 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 5 9463
95 % 2 5 9854 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.5
PDBFlex
90 % 2 5 9777
70 % 2 5 9457
50 % 154 203 137
40 % 191 447 70
30 % 191 447 75
Entity #9 | Chains: H
50S ribosomal protein L14 protein, length: 134 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 2065
95 % 10 24 2681 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.8
PDBFlex
90 % 10 24 2743
70 % 163 225 99
50 % 201 487 36
40 % 201 487 47
30 % 201 487 50

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