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 2533
95 % 12 20 3179 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 12 20 3227
70 % 13 27 2234
50 % 55 74 753
40 % 55 79 729
30 % 55 79 727
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 74 454
95 % 55 74 629 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 74 658
70 % 55 74 703
50 % 55 74 758
40 % 56 77 752
30 % 56 78 744
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 % 32 44 881
95 % 55 68 707 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 55 68 737
70 % 55 68 793
50 % 63 180 205
40 % 122 546 20
30 % 122 546 34
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 74 452
95 % 55 74 628 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 55 74 657
70 % 55 74 700
50 % 55 74 754
40 % 55 74 790
30 % 121 526 38
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 2517
95 % 12 20 3156 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.2
PDBFlex
90 % 12 20 3205
70 % 55 68 785
50 % 63 176 212
40 % 63 176 233
30 % 63 176 243
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 74 450
95 % 55 74 626 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 55 74 655
70 % 55 74 697
50 % 55 76 729
40 % 55 76 764
30 % 55 79 725
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 68 520
95 % 55 68 709 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 55 68 740
70 % 55 68 796
50 % 55 70 805
40 % 55 70 844
30 % 55 70 828
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 2313
95 % 55 68 706 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 55 68 736
70 % 55 68 792
50 % 55 68 836
40 % 55 72 817
30 % 55 72 804
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 68 521
95 % 55 68 711 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 742
70 % 55 68 798
50 % 55 70 807
40 % 55 70 845
30 % 55 71 815
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 67 530
95 % 55 68 704 Flexibility: No
Max RMSD: 5.1, Avg RMSD: 0.4
PDBFlex
90 % 55 68 734
70 % 55 68 789
50 % 55 68 833
40 % 55 68 868
30 % 63 179 234
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 74 457
95 % 55 74 632 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 55 74 661
70 % 55 74 707
50 % 55 76 734
40 % 55 78 743
30 % 113 429 60
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 74 456
95 % 55 74 631 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 74 660
70 % 55 74 705
50 % 63 183 202
40 % 63 184 220
30 % 63 184 230
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 70 490
95 % 52 70 680 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 52 70 706
70 % 52 70 761
50 % 52 70 808
40 % 52 70 846
30 % 52 70 830
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 74 458
95 % 55 74 633 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 55 74 662
70 % 55 74 708
50 % 55 74 759
40 % 113 390 53
30 % 113 416 65
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 68 517
95 % 55 68 705 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 735
70 % 55 68 790
50 % 55 68 834
40 % 55 70 843
30 % 55 71 813
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 68 523
95 % 55 68 713 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 55 68 744
70 % 55 68 800
50 % 55 68 841
40 % 55 68 872
30 % 55 68 856
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 63 570
95 % 51 63 786 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 51 63 815
70 % 51 63 858
50 % 51 63 913
40 % 51 63 938
30 % 51 63 918
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 % 12 20 2601
95 % 12 20 3229 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 12 20 3275
70 % 13 21 3002
50 % 19 30 2001
40 % 27 134 294
30 % 48 157 268
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 68 524
95 % 55 68 714 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 745
70 % 55 68 801
50 % 55 69 821
40 % 55 69 856
30 % 55 69 843
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 % 12 20 2606
95 % 55 68 715 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 55 68 746
70 % 55 68 802
50 % 63 177 208
40 % 63 177 229
30 % 63 177 238
Entity #3 | Chains: C
50S ribosomal protein L2P protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 21 2296
95 % 55 68 701
90 % 55 68 730
70 % 55 68 784
50 % 63 175 211
40 % 63 177 228
30 % 63 177 237
Entity #30 | Chains: 4
50S ribosomal protein L44E protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 68 522
95 % 55 68 712
90 % 55 68 743
70 % 55 68 799
50 % 55 68 840
40 % 55 68 871
30 % 63 173 246
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 67 528
95 % 55 74 618 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 55 74 649
70 % 55 74 692
50 % 55 74 746
40 % 63 184 218
30 % 63 184 227
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 % 35 44 875
95 % 55 74 621 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 55 74 652
70 % 55 74 694
50 % 55 74 748
40 % 55 76 760
30 % 56 78 739
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 74 451
95 % 55 74 627 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 55 74 656
70 % 55 74 698
50 % 55 74 752
40 % 64 184 219
30 % 64 184 229
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 68 516
95 % 55 68 703 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 732
70 % 55 68 787
50 % 55 68 832
40 % 63 178 225
30 % 122 537 37
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 2325
95 % 13 21 2973 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.1
PDBFlex
90 % 55 68 739
70 % 55 68 795
50 % 79 105 360
40 % 87 126 286
30 % 87 128 289
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 % 35 44 868
95 % 52 64 761 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 52 64 793
70 % 52 64 835
50 % 52 64 892
40 % 52 64 914
30 % 52 65 888

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.