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
100 % 28 47 802
95 % 30 68 695
90 % 30 68 724
70 % 30 68 775
50 % 30 175 204
40 % 30 177 225
30 % 30 177 236
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 74 449
95 % 30 74 622 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 74 651
70 % 30 74 696
50 % 30 74 748
40 % 31 77 747
30 % 31 78 733
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 44 869
95 % 30 68 701 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 30 68 731
70 % 30 68 784
50 % 30 180 201
40 % 35 543 20
30 % 35 543 33
Entity #12 | Chains: L
50S ribosomal protein L15P protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 30 74 447
95 % 30 74 621
90 % 30 74 650
70 % 30 74 693
50 % 30 74 744
40 % 30 74 780
30 % 34 523 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 2056
95 % 28 47 1100 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 28 47 1121
70 % 30 68 776
50 % 30 176 205
40 % 30 176 230
30 % 30 176 242
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 74 445
95 % 30 74 619 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 30 74 648
70 % 30 74 690
50 % 30 76 719
40 % 30 76 755
30 % 30 79 719
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 68 516
95 % 30 68 703 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 30 68 734
70 % 30 68 787
50 % 30 70 797
40 % 30 70 833
30 % 30 70 820
Entity #16 | Chains: P
50S ribosomal protein L19e protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 28 47 807
95 % 30 68 700
90 % 30 68 730
70 % 30 68 783
50 % 30 68 829
40 % 30 72 808
30 % 30 72 799
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 68 517
95 % 30 68 705 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 736
70 % 30 68 789
50 % 30 70 798
40 % 30 70 834
30 % 30 71 809
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 67 526
95 % 30 68 698 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.2
PDBFlex
90 % 30 68 728
70 % 30 68 780
50 % 30 68 826
40 % 30 68 861
30 % 30 179 233
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 74 452
95 % 30 74 625 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 30 74 654
70 % 30 74 700
50 % 30 76 724
40 % 30 78 736
30 % 34 426 59
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 67 524
95 % 30 74 611 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.3
PDBFlex
90 % 30 74 642
70 % 30 74 686
50 % 30 74 737
40 % 30 184 216
30 % 30 184 226
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 74 451
95 % 30 74 624 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 74 653
70 % 30 74 698
50 % 30 183 199
40 % 30 184 218
30 % 30 184 228
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 70 485
95 % 29 70 674 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 29 70 700
70 % 29 70 753
50 % 29 70 799
40 % 29 70 835
30 % 29 70 822
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 74 453
95 % 30 74 626 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 30 74 655
70 % 30 74 701
50 % 30 74 749
40 % 34 387 52
30 % 34 413 64
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 68 513
95 % 30 68 699 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 729
70 % 30 68 781
50 % 30 68 827
40 % 30 70 831
30 % 30 71 807
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 68 519
95 % 30 68 707 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 30 68 738
70 % 30 68 791
50 % 30 68 834
40 % 30 68 865
30 % 30 68 849
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 63 563
95 % 29 63 780 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 29 63 808
70 % 29 63 851
50 % 29 63 904
40 % 29 63 928
30 % 29 63 908
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 3025
95 % 7 17 3768 Flexibility: Low
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 7 17 3812
70 % 7 17 3769
50 % 7 17 3679
40 % 7 17 3543
30 % 7 17 3316
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 68 520
95 % 30 68 708 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 739
70 % 30 68 792
50 % 30 69 813
40 % 30 69 847
30 % 30 69 837
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 47 812
95 % 30 68 709 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 30 68 740
70 % 30 68 793
50 % 30 177 203
40 % 30 177 226
30 % 30 177 237
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 68 518
95 % 30 68 706 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.4
PDBFlex
90 % 30 68 737
70 % 30 68 790
50 % 30 68 833
40 % 30 68 864
30 % 30 173 245
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 2048
95 % 30 74 615 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 30 74 646
70 % 30 74 688
50 % 30 74 739
40 % 30 76 753
30 % 31 78 729
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 74 446
95 % 30 74 620 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 30 74 649
70 % 30 74 691
50 % 30 74 742
40 % 31 184 217
30 % 31 184 227
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 68 512
95 % 30 68 697 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 726
70 % 30 68 778
50 % 30 68 825
40 % 30 178 222
30 % 35 534 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 47 808
95 % 28 47 1104 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 30 68 733
70 % 30 68 786
50 % 44 105 350
40 % 51 126 282
30 % 51 128 284
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 2388
95 % 29 64 755 Flexibility: No
Max RMSD: 3.2, Avg RMSD: 0.4
PDBFlex
90 % 29 64 787
70 % 29 64 828
50 % 29 64 883
40 % 29 64 904
30 % 29 65 880
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 47 805
95 % 28 47 1102 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.3
PDBFlex
90 % 28 47 1124
70 % 28 47 1162
50 % 30 74 743
40 % 30 79 724
30 % 30 79 721
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 42 917
95 % 26 42 1241 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.6
PDBFlex
90 % 26 42 1271
70 % 26 42 1302
50 % 27 46 1176
40 % 27 46 1190
30 % 27 85 632

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.