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 3333
95 % 3 11 3503 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 3 13 2917
70 % 57 185 132
50 % 57 185 159
40 % 57 185 171
30 % 57 188 189
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 1586
95 % 14 34 1118 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 387 811 2
70 % 1259 2621 1
50 % 2584 5323 1
40 % 2953 6003 1
30 % 3598 7460 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 % 11 25 1282
95 % 11 25 1507 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 11 25 1531
70 % 1252 2580 2
50 % 2585 5323 1
40 % 2954 6003 1
30 % 3599 7460 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 9711
95 % 8 16 1819 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 0.6
PDBFlex
90 % 8 16 1857
70 % 8 16 1867
50 % 8 17 1846
40 % 8 17 1826
30 % 8 17 1782

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 5UWE 4 N M48U1 CD4 MIMETIC PEPTIDE 32630
14 4RFN 4 D, M T-CELL SURFACE GLYCOPROTEIN CD4 mimetic M48 32630
15 4R4F 4 R M48U1 peptide
16 4R4N 2 a, b, e, i, m, p, s, v M48U1 peptide 32630