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 47 819
95 % 30 68 710 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 30 68 742
70 % 30 68 787
50 % 30 180 207
40 % 30 182 223
30 % 30 182 234
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 74 463
95 % 30 74 639 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 74 665
70 % 30 74 711
50 % 30 74 764
40 % 31 77 760
30 % 31 78 750
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 44 894
95 % 30 68 717 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 30 68 749
70 % 30 68 797
50 % 30 189 197
40 % 35 556 20
30 % 35 556 35
Entity #12 | Chains: L
50S ribosomal protein L15P protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 30 74 461
95 % 30 74 638
90 % 30 74 664
70 % 30 74 709
50 % 30 74 761
40 % 30 74 796
30 % 34 533 39
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 2116
95 % 28 47 1125 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.2
PDBFlex
90 % 28 47 1145
70 % 30 68 788
50 % 30 186 202
40 % 30 186 222
30 % 30 186 230
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 74 459
95 % 30 74 636 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 30 74 662
70 % 30 74 706
50 % 30 76 737
40 % 30 76 771
30 % 30 79 731
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 68 528
95 % 30 68 719 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 30 68 752
70 % 30 68 800
50 % 30 70 809
40 % 30 70 848
30 % 30 70 833
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 47 825
95 % 30 68 715 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 30 68 748
70 % 30 68 796
50 % 30 68 841
40 % 30 72 821
30 % 30 72 809
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 68 529
95 % 30 68 721 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 754
70 % 30 68 802
50 % 30 70 810
40 % 30 70 849
30 % 30 71 820
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 67 541
95 % 30 68 713 Flexibility: No
Max RMSD: 5.1, Avg RMSD: 0.4
PDBFlex
90 % 30 68 746
70 % 30 68 793
50 % 30 68 838
40 % 30 68 875
30 % 30 189 225
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 74 466
95 % 30 74 643 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 30 74 668
70 % 30 74 714
50 % 30 76 742
40 % 30 78 749
30 % 34 430 62
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 67 536
95 % 30 74 628 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 30 74 656
70 % 30 74 701
50 % 30 74 752
40 % 30 193 211
30 % 30 193 221
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 74 465
95 % 30 74 641 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 74 667
70 % 30 74 713
50 % 30 193 196
40 % 30 194 210
30 % 30 194 220
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 70 498
95 % 29 70 691 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 29 70 719
70 % 29 70 763
50 % 29 70 811
40 % 29 70 850
30 % 29 70 835
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 74 467
95 % 30 74 644 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 30 74 669
70 % 30 74 715
50 % 30 74 765
40 % 34 391 54
30 % 34 417 67
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 68 526
95 % 30 68 714 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 747
70 % 30 68 794
50 % 30 68 839
40 % 30 70 847
30 % 30 71 818
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 68 531
95 % 30 68 723 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 30 68 756
70 % 30 68 804
50 % 30 68 846
40 % 30 68 878
30 % 30 68 862
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 63 580
95 % 29 63 799 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 29 63 828
70 % 29 63 866
50 % 29 63 919
40 % 29 63 946
30 % 29 63 926
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 3109
95 % 7 17 3852 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 7 17 3900
70 % 7 17 3846
50 % 7 17 3742
40 % 7 17 3602
30 % 7 17 3374
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 68 532
95 % 30 68 724 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 757
70 % 30 68 805
50 % 30 69 824
40 % 30 69 861
30 % 30 69 847
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 47 830
95 % 30 68 725 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 30 68 758
70 % 30 68 806
50 % 30 182 205
40 % 30 182 224
30 % 30 182 235
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 68 530
95 % 30 68 722 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.4
PDBFlex
90 % 30 68 755
70 % 30 68 803
50 % 30 68 845
40 % 30 68 877
30 % 30 178 239
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 2107
95 % 30 74 631 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 30 74 659
70 % 30 74 703
50 % 30 74 754
40 % 30 76 766
30 % 31 78 746
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 74 460
95 % 30 74 637 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 30 74 663
70 % 30 74 707
50 % 30 74 759
40 % 31 189 215
30 % 31 189 226
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 68 525
95 % 30 68 712 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 30 68 744
70 % 30 68 791
50 % 30 68 837
40 % 30 186 219
30 % 35 546 38
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 47 826
95 % 28 47 1129 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 30 68 751
70 % 30 68 799
50 % 44 105 380
40 % 51 126 289
30 % 51 128 292
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 2465
95 % 29 64 775 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 29 64 807
70 % 29 64 844
50 % 29 64 900
40 % 29 64 921
30 % 29 65 897
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 47 823
95 % 28 47 1127 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 28 47 1149
70 % 28 47 1185
50 % 30 74 760
40 % 30 79 736
30 % 30 79 734
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 42 942
95 % 26 42 1266 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.6
PDBFlex
90 % 26 42 1297
70 % 26 42 1326
50 % 27 46 1198
40 % 27 46 1213
30 % 27 85 639

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