Sequence Similarity Clusters for the Entities in PDB 1NKW

Entity #1 | Chains: 0
23S ribosomal RNA rna, length: 2880 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: H
50S ribosomal protein L13 protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 19 2721
95 % 3 19 3364 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.3
PDBFlex
90 % 3 19 3412
70 % 3 19 3374
50 % 3 19 3289
40 % 3 19 3194
30 % 3 19 2998
Entity #11 | Chains: I
50S ribosomal protein L14 protein, length: 134 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 24 1620
95 % 4 24 2145 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.8
PDBFlex
90 % 4 24 2197
70 % 102 212 92
50 % 130 363 53
40 % 225 556 20
30 % 225 556 35
Entity #12 | Chains: J
50S ribosomal protein L15 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 24 1615
95 % 4 24 2135 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 1.9
PDBFlex
90 % 4 24 2185
70 % 4 24 2185
50 % 129 346 65
40 % 129 346 86
30 % 224 533 39
Entity #13 | Chains: K
50S ribosomal protein L16 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 27 1369
95 % 4 27 1831 Flexibility: Low
Max RMSD: 5.2, Avg RMSD: 2.7
PDBFlex
90 % 4 27 1869
70 % 96 183 101
50 % 129 354 58
40 % 129 354 74
30 % 129 354 86
Entity #14 | Chains: L
50S ribosomal protein L17 protein, length: 116 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 24 1630
95 % 4 24 2154 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 0.9
PDBFlex
90 % 4 24 2207
70 % 4 24 2205
50 % 125 326 69
40 % 130 351 70
30 % 130 353 83
Entity #15 | Chains: M
50S ribosomal protein L18 protein, length: 114 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 22 1768
95 % 4 24 2155 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 1.5
PDBFlex
90 % 4 24 2208
70 % 4 24 2206
50 % 129 348 64
40 % 129 348 83
30 % 129 348 94
Entity #16 | Chains: N
50S ribosomal protein L19 protein, length: 166 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 19 2725
95 % 3 19 3367 Flexibility: Medium
Max RMSD: 6.7, Avg RMSD: 3.3
PDBFlex
90 % 3 19 3415
70 % 3 19 3379
50 % 3 19 3293
40 % 3 19 3196
30 % 3 19 3001
Entity #17 | Chains: O
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 28 1334
95 % 4 28 1781 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.8
PDBFlex
90 % 4 28 1823
70 % 4 28 1848
50 % 130 351 59
40 % 130 358 67
30 % 130 358 82
Entity #18 | Chains: P
50S ribosomal protein L21 protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 28 1339
95 % 4 28 1787 Flexibility: Medium
Max RMSD: 7.9, Avg RMSD: 3.5
PDBFlex
90 % 4 28 1828
70 % 4 28 1853
50 % 101 202 125
40 % 129 346 87
30 % 129 346 98
Entity #19 | Chains: Q
50S ribosomal protein L22 protein, length: 134 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 28 1330
95 % 4 30 1651
90 % 4 30 1691
70 % 4 30 1708
50 % 4 30 1743
40 % 4 30 1749
30 % 4 30 1709
Entity #2 | Chains: 9
5S ribosomal RNA rna, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: R
50S ribosomal protein L23 protein, length: 95 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 26 1462
95 % 4 26 1950
90 % 4 26 1997
70 % 4 26 2025
50 % 96 182 141
40 % 129 352 77
30 % 196 430 62
Entity #21 | Chains: S
50S ribosomal protein L24 protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 25 1505
95 % 4 25 2020 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.6
PDBFlex
90 % 4 25 2069
70 % 4 25 2086
50 % 129 349 63
40 % 129 351 80
30 % 129 351 91
Entity #22 | Chains: T
general stress protein CTC protein, length: 253 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 25 1808
95 % 3 25 2363 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 1.8
PDBFlex
90 % 3 25 2428
70 % 3 25 2428
50 % 3 25 2412
40 % 3 25 2393
30 % 3 25 2287
Entity #23 | Chains: U
50S ribosomal protein L27 protein, length: 91 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 29 1271
95 % 4 29 1697 Flexibility: Medium
Max RMSD: 11.9, Avg RMSD: 5.1
PDBFlex
90 % 4 29 1737
70 % 33 172 172
50 % 131 350 60
40 % 131 350 78
30 % 131 350 89
Entity #24 | Chains: W
50S ribosomal protein L29 protein, length: 67 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 26 1466
95 % 4 26 1955 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 1.5
PDBFlex
90 % 4 26 2002
70 % 4 26 2031
50 % 4 26 2043
40 % 4 26 2034
30 % 196 417 68
Entity #25 | Chains: X
50S ribosomal protein L30 protein, length: 55 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 24 1645
95 % 4 24 2175 Flexibility: Low
Max RMSD: 1.8, Avg RMSD: 0.9
PDBFlex
90 % 4 24 2226
70 % 4 24 2219
50 % 37 188 194
40 % 130 352 75
30 % 130 352 88
Entity #26 | Chains: Y
50S ribosomal protein L31 protein, length: 73 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 12 3551
95 % 1 12 4331 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.4
PDBFlex
90 % 1 12 4361
70 % 1 12 4283
50 % 92 208 137
40 % 92 219 148
30 % 92 219 159
Entity #27 | Chains: Z
50S ribosomal protein L32 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 34 1071
95 % 4 34 1453
90 % 4 34 1479
70 % 4 34 1474
50 % 101 202 132
40 % 129 348 84
30 % 129 348 96
Entity #28 | Chains: 1
50S ribosomal protein L33 protein, length: 82 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 6 14309
95 % 1 6 13555 Flexibility: Low
Max RMSD: 0.5, Avg RMSD: 0.5
PDBFlex
90 % 1 6 13338
70 % 1 6 12545
50 % 1 6 11191
40 % 1 6 10145
30 % 1 6 8847
Entity #29 | 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 % 4 28 1347
95 % 4 28 1793 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 1.0
PDBFlex
90 % 4 28 1834
70 % 32 167 174
50 % 37 190 193
40 % 37 190 206
30 % 37 190 216
Entity #3 | Chains: A
50S ribosomal protein L2 protein, length: 275 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 22 1730
95 % 4 24 2096 Flexibility: Low
Max RMSD: 7.5, Avg RMSD: 2.3
PDBFlex
90 % 4 24 2146
70 % 97 180 102
50 % 130 351 61
40 % 130 351 81
30 % 130 351 92
Entity #30 | Chains: 3
50S ribosomal protein L35 protein, length: 64 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 28 1346
95 % 4 28 1792 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 1.7
PDBFlex
90 % 4 28 1832
70 % 4 28 1858
50 % 97 184 140
40 % 130 344 89
30 % 130 344 100
Entity #31 | Chains: 4
50S ribosomal protein L36 protein, length: 36 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 22 1774
95 % 3 22 2330 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 1.0
PDBFlex
90 % 3 22 2397
70 % 64 156 154
50 % 92 299 88
40 % 92 299 110
30 % 92 299 122
Entity #4 | Chains: B
50S ribosomal protein L3 protein, length: 211 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 27 1363
95 % 4 27 1819 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 1.4
PDBFlex
90 % 4 27 1857
70 % 4 27 1884
50 % 135 355 62
40 % 135 358 76
30 % 135 359 87
Entity #5 | Chains: C
50S ribosomal protein L4 protein, length: 205 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 29 1263
95 % 4 29 1684
90 % 4 29 1725
70 % 4 29 1748
50 % 97 185 139
40 % 131 352 79
30 % 131 352 90
Entity #6 | Chains: D
50S ribosomal protein L5 protein, length: 180 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 24 1608
95 % 4 24 2129 Flexibility: Low
Max RMSD: 2.3, Avg RMSD: 1.4
PDBFlex
90 % 4 24 2180
70 % 99 182 100
50 % 136 353 57
40 % 136 353 73
30 % 136 353 85
Entity #7 | Chains: E
50S ribosomal protein L6 protein, length: 212 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 41692
95 % 1 2 31720 Flexibility: Low
Max RMSD: 0.7, Avg RMSD: 0.7
PDBFlex
90 % 1 2 30360
70 % 1 2 27129
50 % 1 2 23153
40 % 1 2 20377
30 % 1 2 17259
Entity #8 | Chains: F
50S ribosomal protein L9 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 5 15949
95 % 1 5 14900 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 1 5 14632
70 % 1 5 13734
50 % 80 131 185
40 % 106 271 113
30 % 106 279 123
Entity #9 | Chains: G
50S ribosomal protein L11 protein, length: 144 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 19 2140
95 % 4 21 2389 Flexibility: Low
Max RMSD: 3.8, Avg RMSD: 2.2
PDBFlex
90 % 4 21 2456
70 % 19 62 544
50 % 48 229 148
40 % 48 232 159
30 % 48 235 168

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 4IOA 18 P 50S ribosomal protein L22 1299
2 4IO9 18 P 50S ribosomal protein L22 1299
3 5DM6 17 P 50S ribosomal protein L22 1299
4 1NKW 19 Q 50S ribosomal protein L22 1299
5 5JVG 18 P 50S ribosomal protein L22 1299
6 4IOC 18 P 50S ribosomal protein L22 1299
7 5JVH 17 P 50S ribosomal protein L22 1299
8 2ZJR 18 P 50S ribosomal protein L22 1299
9 3PIO 18 P 50S ribosomal protein L22 1299
10 1JZX 3 L Ribosomal Protein L22 1299
11 5DM7 17 P 50S ribosomal protein L22 1299
12 1JZZ 3 L Ribosomal Protein L22 1299
13 3PIP 18 P 50S ribosomal protein L22 1299
14 1OND 2 Q 50S ribosomal protein L22 1299
15 3CF5 21 P 50S RIBOSOMAL PROTEIN L22 1299
16 3DLL 18 P 50S ribosomal protein L22 1299
17 1NWY 19 Q ribosomal protein L22 1299
18 1SM1 24 Q 50S RIBOSOMAL PROTEIN L22 1299
19 1JZY 3 L Ribosomal Protein L22 1299
20 1J5A 3 L RIBOSOMAL PROTEIN L22 1299
21 1K01 3 L Ribosomal Protein L22 1299
22 2ZJQ 18 P 50S ribosomal protein L22 1299
23 1NWX 19 Q ribosomal protein L22 1299
24 1XBP 19 Q 50S ribosomal protein L22 1299
25 2ZJP 21 P 50S RIBOSOMAL PROTEIN L22 1299
26 4V49 41 BQ 50S ribosomal protein L22 562
27 4V4A 39 BQ 50S ribosomal protein L22 562
28 4V4G 40 BT, DT, FT, HT, JT 50S ribosomal protein L22 562