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
100 % 15 20 2448
95 % 15 20 3082
90 % 15 20 3129
70 % 16 27 2179
50 % 58 74 716
40 % 58 79 692
30 % 58 79 690
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 74 433
95 % 58 74 604 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 74 633
70 % 58 74 673
50 % 58 74 721
40 % 59 77 714
30 % 59 78 700
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 44 847
95 % 58 68 677 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 58 68 707
70 % 58 68 762
50 % 72 178 202
40 % 152 533 20
30 % 152 533 33
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 74 432
95 % 58 74 603 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 58 74 632
70 % 58 74 670
50 % 58 74 717
40 % 58 74 750
30 % 151 513 37
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 2432
95 % 15 20 3060 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 15 20 3108
70 % 58 68 752
50 % 72 174 207
40 % 72 174 230
30 % 72 174 238
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 74 430
95 % 58 74 601 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 58 74 630
70 % 58 74 667
50 % 58 76 689
40 % 58 76 723
30 % 58 79 688
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 68 490
95 % 58 68 678 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 58 68 709
70 % 58 68 764
50 % 58 70 775
40 % 58 70 807
30 % 58 70 799
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 2230
95 % 58 68 675 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 58 68 704
70 % 58 68 759
50 % 58 68 806
40 % 58 72 778
30 % 58 72 771
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 68 492
95 % 58 68 682 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 713
70 % 58 68 768
50 % 58 70 776
40 % 58 70 808
30 % 58 71 784
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 67 507
95 % 58 68 673 Flexibility: No
Max RMSD: 5.2, Avg RMSD: 0.3
PDBFlex
90 % 58 68 702
70 % 58 68 756
50 % 58 68 803
40 % 58 68 837
30 % 72 177 231
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 74 436
95 % 58 74 608 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 58 74 637
70 % 58 74 679
50 % 58 76 693
40 % 58 78 701
30 % 137 418 61
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 74 435
95 % 58 74 607 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 74 636
70 % 58 74 676
50 % 72 182 199
40 % 72 182 218
30 % 72 182 226
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 70 464
95 % 55 70 653 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.3
PDBFlex
90 % 55 70 679
70 % 55 70 734
50 % 55 70 780
40 % 55 70 813
30 % 55 70 804
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 74 437
95 % 58 74 609 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 58 74 638
70 % 58 74 680
50 % 58 74 725
40 % 136 382 58
30 % 137 408 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 68 488
95 % 58 68 674 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 703
70 % 58 68 757
50 % 58 68 804
40 % 58 70 804
30 % 58 71 782
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 68 494
95 % 58 68 684 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 58 68 715
70 % 58 68 770
50 % 58 68 812
40 % 58 68 844
30 % 58 68 831
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 63 556
95 % 54 63 772 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 54 63 800
70 % 54 63 847
50 % 54 63 889
40 % 54 63 911
30 % 54 63 895
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 2512
95 % 15 20 3129 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.1
PDBFlex
90 % 15 20 3174
70 % 16 21 2919
50 % 22 30 1941
40 % 36 131 298
30 % 57 154 266
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 68 496
95 % 58 68 687 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 718
70 % 58 68 773
50 % 58 69 793
40 % 58 69 827
30 % 58 69 818
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 2517
95 % 58 68 688 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 58 68 719
70 % 58 68 774
50 % 72 175 203
40 % 72 175 226
30 % 72 175 233
Entity #3 | Chains: C
RIBOSOMAL PROTEIN L2 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 21 2213
95 % 58 68 670
90 % 58 68 698
70 % 58 68 751
50 % 72 173 206
40 % 72 175 225
30 % 72 175 232
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 68 493
95 % 58 68 683 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.4
PDBFlex
90 % 58 68 714
70 % 58 68 769
50 % 58 68 811
40 % 58 68 843
30 % 72 171 240
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 67 505
95 % 58 74 593 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 58 74 624
70 % 58 74 663
50 % 58 74 711
40 % 72 182 216
30 % 72 182 224
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 44 841
95 % 58 74 597 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 58 74 628
70 % 58 74 665
50 % 58 74 713
40 % 58 76 721
30 % 59 78 695
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 74 431
95 % 58 74 602 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 58 74 631
70 % 58 74 668
50 % 58 74 715
40 % 73 182 217
30 % 73 182 225
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 68 487
95 % 58 68 672 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 58 68 700
70 % 58 68 754
50 % 58 68 802
40 % 72 176 223
30 % 152 524 36
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 2243
95 % 16 21 2884 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.1
PDBFlex
90 % 58 68 708
70 % 58 68 763
50 % 82 105 339
40 % 90 123 283
30 % 90 125 290
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 44 835
95 % 55 64 747 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 55 64 778
70 % 55 64 821
50 % 55 64 870
40 % 55 64 889
30 % 55 65 869

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.