Sequence Similarity Clusters for the Entities in PDB 3CD6

Entity #1 | Chains: A
50S ribosomal protein L2P protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 28 47 795
95 % 30 68 684 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 30 68 711
70 % 30 68 762
50 % 30 173 206
40 % 30 175 225
30 % 30 175 236
Entity #10 | Chains: J
50S ribosomal protein L13P protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 447
95 % 30 74 619 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 74 647
70 % 30 74 688
50 % 30 74 740
40 % 31 77 732
30 % 31 78 712
Entity #11 | Chains: K
50S ribosomal protein L14P protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 12 44 855
95 % 30 68 690 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 30 68 719
70 % 30 68 772
50 % 30 178 202
40 % 35 534 20
30 % 35 534 33
Entity #12 | Chains: L
50S ribosomal protein L15P protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 446
95 % 30 74 618 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 30 74 646
70 % 30 74 685
50 % 30 74 736
40 % 30 74 767
30 % 34 514 37
Entity #13 | Chains: M
50S ribosomal protein L15e protein, length: 196 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 23 2028
95 % 28 47 1090 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.2
PDBFlex
90 % 28 47 1105
70 % 30 68 763
50 % 30 174 207
40 % 30 174 230
30 % 30 174 240
Entity #14 | Chains: N
50S ribosomal protein L18P protein, length: 187 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 444
95 % 30 74 616 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 30 74 644
70 % 30 74 682
50 % 30 76 705
40 % 30 76 740
30 % 30 79 696
Entity #15 | Chains: O
50S ribosomal protein L18e protein, length: 116 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 504
95 % 30 68 691 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 30 68 721
70 % 30 68 774
50 % 30 70 790
40 % 30 70 824
30 % 30 70 814
Entity #16 | Chains: P
50S ribosomal protein L19e protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 28 47 800
95 % 30 68 689 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 30 68 717
70 % 30 68 770
50 % 30 68 817
40 % 30 72 795
30 % 30 72 789
Entity #17 | Chains: Q
50S ribosomal protein L21e protein, length: 96 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 505
95 % 30 68 693 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 723
70 % 30 68 776
50 % 30 70 791
40 % 30 70 825
30 % 30 71 799
Entity #18 | Chains: R
50S ribosomal protein L22P protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 29 67 515
95 % 30 68 687 Flexibility: No
Max RMSD: 5.2, Avg RMSD: 0.3
PDBFlex
90 % 30 68 715
70 % 30 68 767
50 % 30 68 814
40 % 30 68 849
30 % 30 177 233
Entity #19 | Chains: S
50S ribosomal protein L23P protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 450
95 % 30 74 622 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 30 74 650
70 % 30 74 693
50 % 30 76 710
40 % 30 78 716
30 % 34 419 58
Entity #2 | Chains: B
50S ribosomal protein L3P protein, length: 338 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 67 512
95 % 30 74 608 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 30 74 638
70 % 30 74 678
50 % 30 74 729
40 % 30 182 216
30 % 30 182 225
Entity #20 | Chains: T
50S ribosomal protein L24P protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 449
95 % 30 74 621 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 74 649
70 % 30 74 690
50 % 30 182 199
40 % 30 182 218
30 % 30 182 227
Entity #21 | Chains: U
50S ribosomal protein L24e protein, length: 67 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 29 70 478
95 % 29 70 666 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 29 70 690
70 % 29 70 743
50 % 29 70 792
40 % 29 70 826
30 % 29 70 816
Entity #22 | Chains: V
50S ribosomal protein L29P protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 451
95 % 30 74 623 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 30 74 651
70 % 30 74 694
50 % 30 74 743
40 % 34 383 58
30 % 34 409 65
Entity #23 | Chains: W
50S ribosomal protein L30P protein, length: 154 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 501
95 % 30 68 688 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 716
70 % 30 68 768
50 % 30 68 815
40 % 30 70 821
30 % 30 71 798
Entity #24 | Chains: X
50S ribosomal protein L31e protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 507
95 % 30 68 695 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 30 68 725
70 % 30 68 778
50 % 30 68 821
40 % 30 68 853
30 % 30 68 841
Entity #25 | Chains: Y
50S ribosomal protein L32e protein, length: 241 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 29 63 559
95 % 29 63 777 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 29 63 805
70 % 29 63 849
50 % 29 63 892
40 % 29 63 917
30 % 29 63 902
Entity #26 | Chains: Z
50S ribosomal protein L37Ae protein, length: 116 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 7 17 2980
95 % 7 17 3719 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 7 17 3763
70 % 7 17 3704
50 % 7 17 3622
40 % 7 17 3490
30 % 7 17 3267
Entity #27 | Chains: 1
50S ribosomal protein L37e protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 508
95 % 30 68 696 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 726
70 % 30 68 779
50 % 30 69 803
40 % 30 69 838
30 % 30 69 830
Entity #28 | Chains: 2
50S ribosomal protein L39e protein, length: 50 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 28 47 805
95 % 30 68 697 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 30 68 727
70 % 30 68 780
50 % 30 175 203
40 % 30 175 226
30 % 30 175 237
Entity #29 | Chains: 3
50S ribosomal protein L44E protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 506
95 % 30 68 694 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.3
PDBFlex
90 % 30 68 724
70 % 30 68 777
50 % 30 68 820
40 % 30 68 852
30 % 30 171 243
Entity #3 | Chains: C
50S ribosomal protein L4P protein, length: 246 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 23 2020
95 % 30 74 612 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 30 74 642
70 % 30 74 680
50 % 30 74 731
40 % 30 76 738
30 % 31 78 705
Entity #30 | Chains: 0
23S RIBOSOMAL RNA rna, length: 2923 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #31 | Chains: 9
5S RIBOSOMAL RNA rna, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #32 | Chains: 4
RNA (5'-R(*CP*CP*(PPU))-3') rna, length: 3 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: D
50S ribosomal protein L5P protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 74 445
95 % 30 74 617 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 30 74 645
70 % 30 74 683
50 % 30 74 734
40 % 31 182 217
30 % 31 182 226
Entity #5 | Chains: E
50S ribosomal protein L6P protein, length: 178 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 68 500
95 % 30 68 686 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 713
70 % 30 68 765
50 % 30 68 813
40 % 30 176 223
30 % 35 525 36
Entity #6 | Chains: F
50S ribosomal protein L7Ae protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 28 47 801
95 % 28 47 1094 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 30 68 720
70 % 30 68 773
50 % 44 105 343
40 % 51 124 284
30 % 51 126 289
Entity #7 | Chains: G
50S ribosomal protein L10E protein, length: 348 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 9 20 2356
95 % 29 64 753 Flexibility: No
Max RMSD: 3.2, Avg RMSD: 0.4
PDBFlex
90 % 29 64 784
70 % 29 64 825
50 % 29 64 874
40 % 29 64 896
30 % 29 65 876
Entity #8 | Chains: H
50S ribosomal protein L10e protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 28 47 798
95 % 28 47 1092 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.3
PDBFlex
90 % 28 47 1108
70 % 28 47 1149
50 % 30 74 735
40 % 30 79 704
30 % 30 79 698
Entity #9 | Chains: I
50S ribosomal protein L11P protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 26 42 905
95 % 26 42 1228 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.6
PDBFlex
90 % 26 42 1257
70 % 26 42 1289
50 % 27 46 1164
40 % 27 46 1175
30 % 27 85 624

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.