Sequence Similarity Clusters for the Entities in PDB 1NJI

Entity #1 | Chains: A
23S ribosomal RNA rna, length: 2922 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: J
50S ribosomal protein L10e protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 12 20 2925
95 % 12 20 3245 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 12 20 3303
70 % 13 27 2394
50 % 55 74 783
40 % 55 79 756
30 % 55 79 766
Entity #11 | Chains: K
50S ribosomal protein L13P protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 521
95 % 55 74 651 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 74 670
70 % 55 74 714
50 % 55 74 782
40 % 56 78 781
30 % 56 78 777
Entity #12 | Chains: L
50S ribosomal protein L14P protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 595
95 % 55 68 732 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 55 68 756
70 % 55 68 804
50 % 63 199 202
40 % 129 595 21
30 % 129 595 36
Entity #13 | Chains: M
50S ribosomal protein L15P protein, length: 164 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 526
95 % 55 74 660 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 55 74 684
70 % 55 74 727
50 % 55 74 790
40 % 63 196 223
30 % 63 196 239
Entity #14 | Chains: N
50S ribosomal protein L15E protein, length: 194 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 12 20 2852
95 % 12 20 3179 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 12 20 3232
70 % 55 68 805
50 % 63 198 205
40 % 63 198 222
30 % 63 198 238
Entity #15 | Chains: O
50S ribosomal protein L18P protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 518
95 % 55 74 646 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 55 74 672
70 % 55 74 715
50 % 55 76 761
40 % 55 76 795
30 % 55 79 763
Entity #16 | Chains: P
50S ribosomal protein L18E protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 608
95 % 55 68 750 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 55 68 773
70 % 55 68 821
50 % 55 70 842
40 % 55 70 875
30 % 55 70 862
Entity #17 | Chains: Q
50S ribosomal protein L19E protein, length: 148 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 13 21 2804
95 % 55 68 753 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 55 68 776
70 % 55 68 824
50 % 55 68 882
40 % 55 72 840
30 % 55 72 842
Entity #18 | Chains: R
50S ribosomal protein L21e protein, length: 95 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 596
95 % 55 68 733 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 757
70 % 55 68 806
50 % 55 70 851
40 % 55 70 882
30 % 55 71 856
Entity #19 | Chains: S
50S ribosomal protein L22P protein, length: 154 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 54 67 624
95 % 55 68 740 Flexibility: No
Max RMSD: 5.2, Avg RMSD: 0.3
PDBFlex
90 % 55 68 763
70 % 55 68 812
50 % 55 68 871
40 % 55 68 896
30 % 63 196 240
Entity #2 | Chains: B
5S ribosomal RNA rna, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: T
50S ribosomal protein L23P protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 531
95 % 55 74 662 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 55 74 686
70 % 55 74 731
50 % 55 77 751
40 % 120 459 45
30 % 120 459 62
Entity #21 | Chains: U
50S ribosomal protein L24P protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 522
95 % 55 74 653 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 74 677
70 % 55 74 721
50 % 63 205 197
40 % 63 206 212
30 % 63 206 230
Entity #22 | Chains: V
50S ribosomal protein L24E protein, length: 66 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 52 70 569
95 % 52 70 703 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 52 70 728
70 % 52 70 774
50 % 52 70 843
40 % 52 70 869
30 % 52 70 864
Entity #23 | Chains: W
50S ribosomal protein L29P protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 523
95 % 55 74 654 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 55 74 678
70 % 55 74 722
50 % 55 74 786
40 % 120 419 52
30 % 120 445 66
Entity #24 | Chains: X
50S ribosomal protein L30P protein, length: 154 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 603
95 % 55 68 741 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 764
70 % 55 68 813
50 % 55 68 872
40 % 55 70 873
30 % 55 71 855
Entity #25 | Chains: Y
50S ribosomal protein L31E protein, length: 91 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 609
95 % 55 68 751 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 55 68 774
70 % 55 68 822
50 % 55 68 880
40 % 55 68 903
30 % 55 70 868
Entity #26 | Chains: Z
50S ribosomal protein L32E protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 51 63 680
95 % 51 63 834 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 51 63 862
70 % 51 63 901
50 % 51 63 949
40 % 51 63 972
30 % 51 63 956
Entity #27 | Chains: 1
50S ribosomal protein L37AE protein, length: 73 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 13 21 2707
95 % 13 21 3046 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 13 21 3094
70 % 13 21 3040
50 % 19 30 2115
40 % 27 148 286
30 % 29 152 292
Entity #28 | Chains: 2
50S ribosomal protein L37e protein, length: 56 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 611
95 % 55 68 734 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 758
70 % 55 68 807
50 % 55 69 853
40 % 55 69 884
30 % 55 69 871
Entity #29 | Chains: 3
50S ribosomal protein L39e protein, length: 48 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 54 67 626
95 % 55 68 744 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 55 68 767
70 % 55 68 816
50 % 63 191 207
40 % 63 191 228
30 % 63 191 245
Entity #3 | Chains: C
50S ribosomal protein L2P protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 13 21 2726
95 % 55 68 748 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 55 68 770
70 % 55 68 819
50 % 63 189 208
40 % 63 189 231
30 % 63 189 248
Entity #30 | Chains: 4
50S ribosomal protein L44E protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 594
95 % 55 68 731 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.3
PDBFlex
90 % 55 68 755
70 % 55 68 803
50 % 55 68 865
40 % 63 186 235
30 % 63 186 250
Entity #4 | Chains: D
50S ribosomal protein L3P protein, length: 337 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 54 67 627
95 % 55 74 658 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 55 74 682
70 % 55 74 725
50 % 55 74 789
40 % 63 204 214
30 % 63 204 231
Entity #5 | Chains: E
50S ribosomal protein L4E protein, length: 246 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 36 51 855
95 % 55 74 650 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 55 74 675
70 % 55 74 717
50 % 55 74 781
40 % 55 76 798
30 % 56 78 775
Entity #6 | Chains: F
50S ribosomal protein L5P protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 74 524
95 % 55 74 656 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 55 74 681
70 % 55 74 724
50 % 55 74 788
40 % 64 198 220
30 % 64 198 236
Entity #7 | Chains: G
50S ribosomal protein L6P protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 68 607
95 % 55 68 749 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 771
70 % 55 68 801
50 % 55 68 877
40 % 63 196 224
30 % 129 584 40
Entity #8 | Chains: H
50S ribosomal protein L7Ae protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 13 21 2725
95 % 13 21 3063 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.1
PDBFlex
90 % 55 68 754
70 % 55 68 802
50 % 80 107 393
40 % 88 128 309
30 % 110 271 153
Entity #9 | Chains: I
Acidic ribosomal protein P0 homolog protein, length: 348 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 52 64 657
95 % 52 64 798 Flexibility: No
Max RMSD: 3.2, Avg RMSD: 0.4
PDBFlex
90 % 52 64 827
70 % 52 64 870
50 % 52 64 928
40 % 52 64 946
30 % 52 64 935

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