Sequence Similarity Clusters for the Entities in PDB 3DXJ

Entity #1 | Chains: A,B,K,L
DNA-directed RNA polymerase subunit alpha; CHAIN A, B, K, L protein, length: 315 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 32 55 211
95 % 32 55 271 Flexibility: Low
Max RMSD: 7.1, Avg RMSD: 1.4
PDBFlex
90 % 32 55 284
70 % 33 68 271
50 % 33 68 316
40 % 41 165 125
30 % 42 166 132
Entity #2 | Chains: C,M
BACTERIAL RNA POLYMERASE BETA SUBUNIT; CHAIN C, M protein, length: 1119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 32 55 504
95 % 32 55 680 Flexibility: Low
Max RMSD: 3.8, Avg RMSD: 1.8
PDBFlex
90 % 33 68 564
70 % 33 68 589
50 % 33 68 630
40 % 41 106 468
30 % 41 106 490
Entity #3 | Chains: D,N
BACTERIAL RNA POLYMERASE BETA-PRIME SUBUNIT; CHAIN D, N protein, length: 1524 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 32 55 501
95 % 32 55 679 Flexibility: Medium
Max RMSD: 11.7, Avg RMSD: 6.3
PDBFlex
90 % 33 65 567
70 % 33 65 593
50 % 33 65 636
40 % 33 65 665
30 % 41 192 220
Entity #4 | Chains: E,O
BACTERIAL RNA POLYMERASE OMEGA SUBUNIT; CHAIN E, O protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 13 2667
95 % 32 55 678 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.2
PDBFlex
90 % 33 67 566
70 % 33 67 592
50 % 33 67 635
40 % 33 67 664
30 % 33 67 700
Entity #5 | Chains: F,P
RNA polymerase pricipal sigma factor (RpoD); CHAIN F, P protein, length: 423 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 19 31 1317
95 % 29 45 991 Flexibility: Low
Max RMSD: 14.1, Avg RMSD: 2.8
PDBFlex
90 % 29 45 1027
70 % 29 46 1039
50 % 29 46 1079
40 % 32 53 973
30 % 32 53 1020

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