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 3201
95 % 3 19 3513 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.2
PDBFlex
90 % 3 19 3584
70 % 3 19 3528
50 % 3 19 3343
40 % 3 19 3225
30 % 3 19 3050
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 1919
95 % 4 24 2224 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.8
PDBFlex
90 % 4 24 2279
70 % 113 231 83
50 % 141 398 39
40 % 237 604 22
30 % 237 604 36
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 1861
95 % 4 24 2166 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 2.9
PDBFlex
90 % 4 24 2221
70 % 4 24 2233
50 % 140 380 53
40 % 140 380 74
30 % 140 380 89
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 1647
95 % 4 27 1951 Flexibility: Low
Max RMSD: 5.2, Avg RMSD: 2.7
PDBFlex
90 % 4 27 1992
70 % 107 202 95
50 % 140 386 47
40 % 140 386 66
30 % 140 386 83
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 1938
95 % 4 24 2250 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 0.9
PDBFlex
90 % 4 24 2306
70 % 4 24 2328
50 % 141 379 44
40 % 141 386 57
30 % 141 388 71
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 2097
95 % 4 24 2249 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 1.6
PDBFlex
90 % 4 24 2305
70 % 4 24 2307
50 % 140 381 52
40 % 140 381 72
30 % 140 381 88
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 3178
95 % 3 19 3487 Flexibility: Medium
Max RMSD: 7.0, Avg RMSD: 3.0
PDBFlex
90 % 3 19 3554
70 % 3 19 3494
50 % 3 19 3411
40 % 3 19 3274
30 % 3 19 3029
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 1582
95 % 4 28 1861 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.8
PDBFlex
90 % 4 28 1903
70 % 4 28 1921
50 % 141 385 43
40 % 141 393 56
30 % 141 393 72
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 1610
95 % 4 28 1892 Flexibility: Medium
Max RMSD: 7.9, Avg RMSD: 3.7
PDBFlex
90 % 4 28 1932
70 % 4 28 1954
50 % 112 221 118
40 % 140 380 75
30 % 140 380 91
Entity #19 | Chains: Q
50S ribosomal protein L22 protein, length: 134 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 28 1609
95 % 4 30 1762 Flexibility: Low
Max RMSD: 2.5, Avg RMSD: 1.1
PDBFlex
90 % 4 30 1801
70 % 4 30 1809
50 % 4 30 1837
40 % 4 30 1821
30 % 4 30 1771
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 Structural variation in cluster
100 % 4 26 1677
95 % 4 26 1981 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 4 26 2022
70 % 4 26 2033
50 % 107 201 129
40 % 207 465 43
30 % 207 465 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 1790
95 % 4 25 2118 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.6
PDBFlex
90 % 4 25 2170
70 % 4 25 2182
50 % 140 383 50
40 % 140 385 67
30 % 140 385 85
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 2187
95 % 3 25 2491 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 1.7
PDBFlex
90 % 3 25 2569
70 % 3 25 2558
50 % 3 25 2541
40 % 3 25 2502
30 % 3 25 2338
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 1512
95 % 4 29 1787 Flexibility: Medium
Max RMSD: 11.9, Avg RMSD: 5.0
PDBFlex
90 % 4 29 1830
70 % 33 186 172
50 % 142 383 48
40 % 142 383 68
30 % 142 383 84
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 1676
95 % 4 26 1962 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 1.5
PDBFlex
90 % 4 26 2003
70 % 4 26 2016
50 % 4 26 2058
40 % 4 26 2032
30 % 207 451 66
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 1820
95 % 4 24 2132 Flexibility: Low
Max RMSD: 1.8, Avg RMSD: 0.9
PDBFlex
90 % 4 24 2183
70 % 4 24 2196
50 % 37 203 191
40 % 141 386 62
30 % 141 386 79
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 3799
95 % 1 12 4172 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.4
PDBFlex
90 % 1 12 4218
70 % 1 12 4145
50 % 103 236 123
40 % 103 247 140
30 % 103 248 149
Entity #27 | Chains: Z
50S ribosomal protein L32 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 34 1269
95 % 4 34 1501 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.9
PDBFlex
90 % 4 34 1521
70 % 4 34 1540
50 % 140 376 56
40 % 140 382 69
30 % 140 382 86
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 12615
95 % 1 6 13208 Flexibility: Low
Max RMSD: 0.5, Avg RMSD: 0.5
PDBFlex
90 % 1 6 11485
70 % 1 6 10844
50 % 1 6 9750
40 % 1 6 8828
30 % 1 6 7619
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 1606
95 % 4 28 1886 Flexibility: Low
Max RMSD: 1.8, Avg RMSD: 1.1
PDBFlex
90 % 4 28 1928
70 % 32 182 176
50 % 37 205 190
40 % 37 205 207
30 % 37 205 224
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 % 4 24 1865
95 % 4 24 2169 Flexibility: Low
Max RMSD: 7.5, Avg RMSD: 2.2
PDBFlex
90 % 4 24 2223
70 % 108 199 98
50 % 141 387 45
40 % 141 387 64
30 % 141 387 81
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 1607
95 % 4 28 1887 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 1.7
PDBFlex
90 % 4 28 1929
70 % 4 28 1949
50 % 108 203 128
40 % 141 375 77
30 % 141 375 93
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 2130
95 % 3 22 2438 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 1.0
PDBFlex
90 % 3 22 2510
70 % 100 321 49
50 % 100 324 88
40 % 100 324 108
30 % 100 324 122
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 1627
95 % 4 27 1914 Flexibility: Low
Max RMSD: 2.7, Avg RMSD: 1.5
PDBFlex
90 % 4 27 1953
70 % 4 27 1971
50 % 146 390 49
40 % 146 394 61
30 % 146 395 78
Entity #5 | Chains: C
50S ribosomal protein L4 protein, length: 205 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 29 1524
95 % 4 29 1800 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 1.2
PDBFlex
90 % 4 29 1840
70 % 4 29 1853
50 % 108 204 126
40 % 142 387 63
30 % 142 387 80
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 1901
95 % 4 24 2207 Flexibility: Low
Max RMSD: 2.3, Avg RMSD: 1.4
PDBFlex
90 % 4 24 2260
70 % 110 201 94
50 % 147 385 46
40 % 147 385 65
30 % 147 385 82
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 44852
95 % 1 2 37429 Flexibility: Low
Max RMSD: 0.7, Avg RMSD: 0.7
PDBFlex
90 % 1 2 35714
70 % 1 2 31706
50 % 1 2 26958
40 % 1 2 23646
30 % 1 2 19703
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 16377
95 % 1 5 15206 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.4
PDBFlex
90 % 1 5 14895
70 % 1 5 13932
50 % 91 150 175
40 % 117 304 106
30 % 117 307 119
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 % 4 21 2156
95 % 4 21 2521 Flexibility: Low
Max RMSD: 3.8, Avg RMSD: 2.1
PDBFlex
90 % 4 21 2543
70 % 20 64 547
50 % 49 240 153
40 % 49 243 164
30 % 49 246 176

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