Sequence Similarity Clusters for the Entities in PDB 2I60

Entity #1 | Chains: G,P
EXTERIOR MEMBRANE GLYCOPROTEIN(GP120) protein, length: 313 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 10 3223
95 % 3 11 3413 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 3 13 2831
70 % 57 180 135
50 % 57 180 164
40 % 57 180 177
30 % 57 183 194
Entity #2 | Chains: L,Q
ANTIBODY 17B LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 11 21 1536
95 % 14 34 1092 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.1
PDBFlex
90 % 370 778 2
70 % 1214 2538 1
50 % 2489 5152 1
40 % 2851 5806 1
30 % 3486 7240 1
Entity #3 | Chains: H,R
ANTIBODY 17B HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 24 1335
95 % 11 25 1466 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 11 25 1490
70 % 1206 2497 2
50 % 2490 5152 1
40 % 2852 5806 1
30 % 3487 7240 1
Entity #4 | Chains: M,S
[PHE23]M47, SCORPION-TOXIN MIMIC OF CD4 protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 4 9470
95 % 8 15 1840 Flexibility: No
Max RMSD: 2.4, Avg RMSD: 0.5
PDBFlex
90 % 8 15 1879
70 % 8 15 1896
50 % 8 16 1844
40 % 8 16 1830
30 % 8 16 1775

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


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 4JZZ 2 R CD4-MIMETIC MINIPROTEIN M48U1
2 4JZW 2 M, R CD4-MIMETIC MINIPROTEIN M48U1
3 4KA2 2 R M48U12
4 4K0A 2 R CD4-MIMETIC MINIPROTEIN M48U7
5 4LAJ 2 C, D, G, K CD4-mimetic miniprotein M48U1
6 1YYM 4 M, S F23, scorpion-toxin mimic of CD4 32630
7 2I5Y 4 M, S CD4M47, SCORPION-TOXIN MIMIC OF CD4 32630
8 2I60 4 M, S [PHE23]M47, SCORPION-TOXIN MIMIC OF CD4 32630
9 1YYL 4 M, S CD4M33, scorpion-toxin mimic of CD4 32630
10 5W4L 2 M, N CD4 mimetic peptide M48U1 32630
11 4RFO 2 N m48u1 CD4 mimetic peptide 32630
12 5KJR 2 N M48U1 CD4 MIMETIC PEPTIDE 32630
13 4RFN 4 D, M T-CELL SURFACE GLYCOPROTEIN CD4 mimetic M48 32630
14 4R4F 4 R M48U1 peptide
15 4R4N 2 a, b, e, i, m, p, s, v M48U1 peptide 32630
16 1D5Q 1 A CHIMERIC MINI-PROTEIN