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 2611
95 % 12 20 3269 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 12 20 3314
70 % 13 27 2302
50 % 55 74 766
40 % 55 79 745
30 % 55 79 743
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 74 467
95 % 55 74 644 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 74 671
70 % 55 74 717
50 % 55 74 770
40 % 56 77 769
30 % 56 78 760
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 44 903
95 % 55 68 724 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 55 68 756
70 % 55 68 803
50 % 63 190 200
40 % 125 564 20
30 % 125 564 37
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 74 465
95 % 55 74 643 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 55 74 670
70 % 55 74 716
50 % 55 74 767
40 % 55 74 806
30 % 124 541 41
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 2594
95 % 12 20 3247 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.2
PDBFlex
90 % 12 20 3292
70 % 55 68 794
50 % 63 187 202
40 % 63 187 222
30 % 63 187 232
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 74 463
95 % 55 74 641 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 55 74 668
70 % 55 74 713
50 % 55 76 743
40 % 55 76 780
30 % 55 79 740
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 68 532
95 % 55 68 726 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 55 68 759
70 % 55 68 806
50 % 55 70 815
40 % 55 70 857
30 % 55 70 842
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 2387
95 % 55 68 722 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 55 68 755
70 % 55 68 802
50 % 55 68 849
40 % 55 72 827
30 % 55 72 817
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 68 534
95 % 55 68 728 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 761
70 % 55 68 808
50 % 55 70 816
40 % 55 70 858
30 % 55 71 830
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 67 546
95 % 55 68 720 Flexibility: No
Max RMSD: 5.1, Avg RMSD: 0.4
PDBFlex
90 % 55 68 753
70 % 55 68 799
50 % 55 68 846
40 % 55 68 885
30 % 63 190 227
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 74 470
95 % 55 74 648 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 55 74 675
70 % 55 74 719
50 % 55 76 748
40 % 55 78 759
30 % 116 437 63
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 74 469
95 % 55 74 646 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 74 674
70 % 55 74 718
50 % 63 194 198
40 % 63 195 210
30 % 63 195 222
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 70 502
95 % 52 70 697 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 52 70 725
70 % 52 70 768
50 % 52 70 817
40 % 52 70 859
30 % 52 70 844
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 74 471
95 % 55 74 649 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 55 74 676
70 % 55 74 720
50 % 55 74 771
40 % 116 398 53
30 % 116 424 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 68 530
95 % 55 68 721 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 754
70 % 55 68 800
50 % 55 68 847
40 % 55 70 856
30 % 55 71 827
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 68 536
95 % 55 68 730 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 55 68 763
70 % 55 68 810
50 % 55 68 854
40 % 55 68 888
30 % 55 68 870
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 63 590
95 % 51 63 811 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 51 63 841
70 % 51 63 878
50 % 51 63 924
40 % 51 63 955
30 % 51 63 938
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 2683
95 % 12 20 3321 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 12 20 3365
70 % 13 21 3082
50 % 19 30 2060
40 % 27 140 283
30 % 48 163 257
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 68 537
95 % 55 68 731 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 764
70 % 55 68 811
50 % 55 69 832
40 % 55 69 872
30 % 55 69 857
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 2688
95 % 55 68 732 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 55 68 765
70 % 55 68 812
50 % 63 183 205
40 % 63 183 224
30 % 63 183 238
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 2369
95 % 55 68 717
90 % 55 68 749
70 % 55 68 793
50 % 63 181 206
40 % 63 183 223
30 % 63 183 236
Entity #30 | Chains: 4
50S ribosomal protein L44E protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 68 535
95 % 55 68 729
90 % 55 68 762
70 % 55 68 809
50 % 55 68 853
40 % 55 68 887
30 % 63 179 241
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 67 541
95 % 55 74 632 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 55 74 662
70 % 55 74 708
50 % 55 74 759
40 % 63 194 211
30 % 63 194 223
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 44 897
95 % 55 74 635 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 55 74 665
70 % 55 74 710
50 % 55 74 761
40 % 55 76 775
30 % 56 78 755
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 74 464
95 % 55 74 642 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 55 74 669
70 % 55 74 714
50 % 55 74 765
40 % 64 190 216
30 % 64 190 228
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 68 529
95 % 55 68 719 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 55 68 751
70 % 55 68 797
50 % 55 68 845
40 % 63 187 221
30 % 125 554 39
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 2400
95 % 13 21 3055 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.1
PDBFlex
90 % 55 68 758
70 % 55 68 805
50 % 80 107 375
40 % 88 128 282
30 % 88 130 289
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 44 890
95 % 52 64 784 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 52 64 816
70 % 52 64 852
50 % 52 64 909
40 % 52 64 934
30 % 52 65 908

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