3CC2

The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with rrnA Sequence for the 23S rRNA and Genome-derived Sequences for r-Proteins


Sequence Similarity Clusters for the Entities in PDB 3CC2

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 % 8 47 828
95 % 9 68 715 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 9 68 747
70 % 9 68 791
50 % 9 181 206
40 % 9 183 223
30 % 9 183 236
Entity #10 | Chains: J
50S ribosomal protein L13P protein, length: 145 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 74 465
95 % 9 74 643
90 % 9 74 670
70 % 9 74 716
50 % 9 74 770
40 % 10 77 768
30 % 10 78 758
Entity #11 | Chains: K
50S ribosomal protein L14P protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 44 901
95 % 9 68 722
90 % 9 68 754
70 % 9 68 801
50 % 9 190 200
40 % 12 562 20
30 % 12 562 35
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 % 9 74 463
95 % 9 74 642 Flexibility: No
Max RMSD: 1.9, Avg RMSD: 0.3
PDBFlex
90 % 9 74 669
70 % 9 74 715
50 % 9 74 767
40 % 9 74 804
30 % 11 539 41
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 % 2 23 2158
95 % 8 47 1135 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.2
PDBFlex
90 % 8 47 1155
70 % 9 68 792
50 % 9 187 201
40 % 9 187 221
30 % 9 187 231
Entity #14 | Chains: N
50S ribosomal protein L18P protein, length: 187 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 74 461
95 % 9 74 640
90 % 9 74 667
70 % 9 74 712
50 % 9 76 743
40 % 9 76 779
30 % 9 79 738
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 % 9 68 531
95 % 9 68 724 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 9 68 757
70 % 9 68 804
50 % 9 70 815
40 % 9 70 856
30 % 9 70 839
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 % 8 47 834
95 % 9 68 720 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 9 68 753
70 % 9 68 800
50 % 9 68 846
40 % 9 72 826
30 % 9 72 814
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 % 9 68 532
95 % 9 68 726 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 9 68 759
70 % 9 68 806
50 % 9 70 816
40 % 9 70 857
30 % 9 71 827
Entity #18 | Chains: R
50S ribosomal protein L22P protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 67 544
95 % 9 68 718
90 % 9 68 751
70 % 9 68 797
50 % 9 68 843
40 % 9 68 882
30 % 9 190 227
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 % 9 74 469
95 % 9 74 647 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.3
PDBFlex
90 % 9 74 674
70 % 9 74 718
50 % 9 76 748
40 % 9 78 758
30 % 11 435 61
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 % 9 67 539
95 % 9 74 631 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 9 74 661
70 % 9 74 707
50 % 9 74 759
40 % 9 194 211
30 % 9 194 223
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 % 9 74 468
95 % 9 74 645 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 9 74 673
70 % 9 74 717
50 % 9 194 198
40 % 9 195 210
30 % 9 195 222
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 % 9 70 501
95 % 9 70 696 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.2
PDBFlex
90 % 9 70 724
70 % 9 70 767
50 % 9 70 817
40 % 9 70 858
30 % 9 70 841
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 % 9 74 470
95 % 9 74 648 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.3
PDBFlex
90 % 9 74 675
70 % 9 74 719
50 % 9 74 771
40 % 11 396 53
30 % 11 422 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 % 9 68 529
95 % 9 68 719 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 9 68 752
70 % 9 68 798
50 % 9 68 844
40 % 9 70 855
30 % 9 71 824
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 % 9 68 534
95 % 9 68 728 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.3
PDBFlex
90 % 9 68 761
70 % 9 68 808
50 % 9 68 851
40 % 9 68 885
30 % 9 68 867
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 % 9 63 586
95 % 9 63 806 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 9 63 836
70 % 9 63 874
50 % 9 63 921
40 % 9 63 952
30 % 9 63 935
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 % 1 17 3149
95 % 1 17 3887 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.5
PDBFlex
90 % 1 17 3935
70 % 1 17 3882
50 % 1 17 3776
40 % 1 17 3635
30 % 1 17 3402
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 % 9 68 535
95 % 9 68 729 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 9 68 762
70 % 9 68 809
50 % 9 69 830
40 % 9 69 870
30 % 9 69 853
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 % 8 47 838
95 % 9 68 730 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.3
PDBFlex
90 % 9 68 763
70 % 9 68 810
50 % 9 183 205
40 % 9 183 224
30 % 9 183 238
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 % 9 68 533
95 % 9 68 727 Flexibility: No
Max RMSD: 1.2, Avg RMSD: 0.4
PDBFlex
90 % 9 68 760
70 % 9 68 807
50 % 9 68 850
40 % 9 68 884
30 % 9 179 241
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 % 2 23 2150
95 % 9 74 634 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.2
PDBFlex
90 % 9 74 664
70 % 9 74 709
50 % 9 74 761
40 % 9 76 774
30 % 10 78 752
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 #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 % 9 74 462
95 % 9 74 641 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.4
PDBFlex
90 % 9 74 668
70 % 9 74 713
50 % 9 74 765
40 % 10 190 216
30 % 10 190 228
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 % 9 68 528
95 % 9 68 717 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 9 68 749
70 % 9 68 795
50 % 9 68 842
40 % 9 187 220
30 % 12 552 40
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 % 8 47 835
95 % 8 47 1139 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 9 68 756
70 % 9 68 803
50 % 20 107 374
40 % 25 128 282
30 % 25 130 288
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 % 1 20 2495
95 % 8 64 779 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 8 64 811
70 % 8 64 848
50 % 8 64 905
40 % 8 64 930
30 % 8 65 905
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 % 8 47 832
95 % 8 47 1137 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.2
PDBFlex
90 % 8 47 1159
70 % 8 47 1193
50 % 9 74 766
40 % 9 79 744
30 % 9 79 741
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 % 8 42 952
95 % 8 42 1283 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.6
PDBFlex
90 % 8 42 1316
70 % 8 42 1340
50 % 9 46 1210
40 % 9 46 1222
30 % 9 85 641

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