Sequence Similarity Clusters for the Entities in PDB 1KD1

Entity #1 | Chains: A
23S RRNA rna, length: 2922 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: J
RIBOSOMAL PROTEIN L10E protein, length: 167 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 15 20 2533
95 % 15 20 3179 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 15 20 3227
70 % 16 27 2234
50 % 58 74 753
40 % 58 79 729
30 % 58 79 727
Entity #11 | Chains: K
RIBOSOMAL PROTEIN L13 protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 454
95 % 58 74 629 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 74 658
70 % 58 74 703
50 % 58 74 758
40 % 59 77 752
30 % 59 78 744
Entity #12 | Chains: L
RIBOSOMAL PROTEIN L14 protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 35 44 881
95 % 58 68 707 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 58 68 737
70 % 58 68 793
50 % 72 180 205
40 % 153 546 20
30 % 153 546 34
Entity #13 | Chains: M
RIBOSOMAL PROTEIN L15 protein, length: 164 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 452
95 % 58 74 628 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 58 74 657
70 % 58 74 700
50 % 58 74 754
40 % 58 74 790
30 % 152 526 38
Entity #14 | Chains: N
RIBOSOMAL PROTEIN L15E protein, length: 194 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 15 20 2517
95 % 15 20 3156 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.2
PDBFlex
90 % 15 20 3205
70 % 58 68 785
50 % 72 176 212
40 % 72 176 233
30 % 72 176 243
Entity #15 | Chains: O
RIBOSOMAL PROTEIN L18 protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 450
95 % 58 74 626 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 58 74 655
70 % 58 74 697
50 % 58 76 729
40 % 58 76 764
30 % 58 79 725
Entity #16 | Chains: P
RIBOSOMAL PROTEIN L18E protein, length: 115 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 520
95 % 58 68 709 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 58 68 740
70 % 58 68 796
50 % 58 70 805
40 % 58 70 844
30 % 58 70 828
Entity #17 | Chains: Q
RIBOSOMAL PROTEIN L19E protein, length: 148 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 16 21 2313
95 % 58 68 706 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 58 68 736
70 % 58 68 792
50 % 58 68 836
40 % 58 72 817
30 % 58 72 804
Entity #18 | Chains: R
RIBOSOMAL PROTEIN L21E protein, length: 95 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 521
95 % 58 68 711 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 742
70 % 58 68 798
50 % 58 70 807
40 % 58 70 845
30 % 58 71 815
Entity #19 | Chains: S
RIBOSOMAL PROTEIN L22 protein, length: 154 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 57 67 530
95 % 58 68 704 Flexibility: No
Max RMSD: 5.1, Avg RMSD: 0.4
PDBFlex
90 % 58 68 734
70 % 58 68 789
50 % 58 68 833
40 % 58 68 868
30 % 72 179 234
Entity #2 | Chains: B
5S RRNA rna, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: T
RIBOSOMAL PROTEIN L23 protein, length: 84 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 457
95 % 58 74 632 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 58 74 661
70 % 58 74 707
50 % 58 76 734
40 % 58 78 743
30 % 138 429 60
Entity #21 | Chains: U
RIBOSOMAL PROTEIN L24 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 456
95 % 58 74 631 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 74 660
70 % 58 74 705
50 % 72 183 202
40 % 72 184 220
30 % 72 184 230
Entity #22 | Chains: V
RIBOSOMAL PROTEIN L24E protein, length: 66 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 55 70 490
95 % 55 70 680 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 55 70 706
70 % 55 70 761
50 % 55 70 808
40 % 55 70 846
30 % 55 70 830
Entity #23 | Chains: W
RIBOSOMAL PROTEIN L29 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 458
95 % 58 74 633 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 58 74 662
70 % 58 74 708
50 % 58 74 759
40 % 137 390 53
30 % 138 416 65
Entity #24 | Chains: X
RIBOSOMAL PROTEIN L30 protein, length: 154 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 517
95 % 58 68 705 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 735
70 % 58 68 790
50 % 58 68 834
40 % 58 70 843
30 % 58 71 813
Entity #25 | Chains: Y
RIBOSOMAL PROTEIN L31E protein, length: 91 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 523
95 % 58 68 713 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 58 68 744
70 % 58 68 800
50 % 58 68 841
40 % 58 68 872
30 % 58 68 856
Entity #26 | Chains: Z
RIBOSOMAL PROTEIN L32E protein, length: 240 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 54 63 570
95 % 54 63 786 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 54 63 815
70 % 54 63 858
50 % 54 63 913
40 % 54 63 938
30 % 54 63 918
Entity #27 | Chains: 1
RIBOSOMAL PROTEIN L37Ae protein, length: 73 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 15 20 2601
95 % 15 20 3229 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 15 20 3275
70 % 16 21 3002
50 % 22 30 2001
40 % 36 134 294
30 % 57 157 268
Entity #28 | Chains: 2
RIBOSOMAL PROTEIN L37E protein, length: 56 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 524
95 % 58 68 714 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 745
70 % 58 68 801
50 % 58 69 821
40 % 58 69 856
30 % 58 69 843
Entity #29 | Chains: 3
RIBOSOMAL PROTEIN L39E protein, length: 48 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 15 20 2606
95 % 58 68 715 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 58 68 746
70 % 58 68 802
50 % 72 177 208
40 % 72 177 229
30 % 72 177 238
Entity #3 | Chains: C
RIBOSOMAL PROTEIN L2 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 16 21 2296
95 % 58 68 701 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 58 68 730
70 % 58 68 784
50 % 72 175 211
40 % 72 177 228
30 % 72 177 237
Entity #30 | Chains: 4
RIBOSOMAL PROTEIN L44E protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 522
95 % 58 68 712 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.4
PDBFlex
90 % 58 68 743
70 % 58 68 799
50 % 58 68 840
40 % 58 68 871
30 % 72 173 246
Entity #4 | Chains: D
RIBOSOMAL PROTEIN L3 protein, length: 337 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 57 67 528
95 % 58 74 618 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 58 74 649
70 % 58 74 692
50 % 58 74 746
40 % 72 184 218
30 % 72 184 227
Entity #5 | Chains: E
RIBOSOMAL PROTEIN L4 protein, length: 246 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 38 44 875
95 % 58 74 621 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 58 74 652
70 % 58 74 694
50 % 58 74 748
40 % 58 76 760
30 % 59 78 739
Entity #6 | Chains: F
RIBOSOMAL PROTEIN L5 protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 74 451
95 % 58 74 627 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 58 74 656
70 % 58 74 698
50 % 58 74 752
40 % 73 184 219
30 % 73 184 229
Entity #7 | Chains: G
RIBOSOMAL PROTEIN L6 protein, length: 177 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 58 68 516
95 % 58 68 703 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 732
70 % 58 68 787
50 % 58 68 832
40 % 72 178 225
30 % 153 537 37
Entity #8 | Chains: H
RIBOSOMAL PROTEIN L7AE protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 16 21 2325
95 % 16 21 2973 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.1
PDBFlex
90 % 58 68 739
70 % 58 68 795
50 % 82 105 360
40 % 90 126 286
30 % 90 128 289
Entity #9 | Chains: I
RIBOSOMAL PROTEIN L10 protein, length: 348 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 38 44 868
95 % 55 64 761 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 55 64 793
70 % 55 64 835
50 % 55 64 892
40 % 55 64 914
30 % 55 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.