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 3336
95 % 3 11 3506 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 3 13 2919
70 % 57 186 130
50 % 57 186 159
40 % 57 186 171
30 % 57 189 185
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 1588
95 % 13 33 1149 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 389 815 2
70 % 1264 2632 1
50 % 2593 5344 1
40 % 2962 6024 1
30 % 3607 7481 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 1509 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 11 25 1532
70 % 1257 2591 2
50 % 2594 5344 1
40 % 2963 6024 1
30 % 3608 7481 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 9730
95 % 8 16 1820 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 0.6
PDBFlex
90 % 8 16 1859
70 % 8 16 1870
50 % 8 17 1849
40 % 8 17 1829
30 % 8 17 1785

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