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 3437
95 % 3 11 3587 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 3 13 2983
70 % 57 192 130
50 % 57 192 157
40 % 57 192 168
30 % 57 195 184
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 22 1484
95 % 13 34 1108 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 403 844 2
70 % 1286 2696 1
50 % 2638 5473 1
40 % 3012 6175 1
30 % 3662 7653 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 26 1209
95 % 11 26 1446 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 11 26 1473
70 % 1279 2655 2
50 % 2639 5473 1
40 % 3013 6175 1
30 % 3663 7653 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 % 4 6 6884
95 % 8 16 1860 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 0.6
PDBFlex
90 % 8 16 1902
70 % 8 16 1916
50 % 8 17 1884
40 % 8 17 1867
30 % 8 17 1819

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 1YYM 1 G, P Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120) UNP residues 82-126,UNP residues 191-293,UNP residues 325-479 11676
2 2I5Y 1 G, P Exterior membrane glycoprotein(GP120) CORE 12721
3 2I60 1 G, P EXTERIOR MEMBRANE GLYCOPROTEIN(GP120) CORE 11676
4 4DVR 1 G Envelope glycoprotein gp120 unp residues 82-122; 199-297; 319-479 11676
5 5UKR 3 G Chimeric B.YU2 gp120 core derived from HIV-1 Env 11676
6 1YYL 1 G, P Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120) UNP residues 82-126,UNP residues 191-293,UNP residues 325-479 11676
7 1RZK 1 G ENVELOPE GLYCOPROTEIN GP120 part of Envelope polyprotein GP160 CORE 11676
8 1G9N 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
9 4RQS 4 G HIV-1 YU2 gp120 core chimeric protein 11676
10 5A8H 1 A, G, M HIV-1 GP120 11676
11 5A7X 1 A, E, I HIV-1 YU2 GP120 11676