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 3222
95 % 3 11 3413 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 3 13 2835
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 1093 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.1
PDBFlex
90 % 371 780 2
70 % 1221 2553 1
50 % 2503 5180 1
40 % 2865 5834 1
30 % 3500 7269 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 1336
95 % 11 25 1467 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 11 25 1490
70 % 1213 2511 2
50 % 2504 5180 1
40 % 2866 5834 1
30 % 3501 7269 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 9486
95 % 8 15 1843 Flexibility: No
Max RMSD: 2.4, Avg RMSD: 0.5
PDBFlex
90 % 8 15 1881
70 % 8 15 1897
50 % 8 16 1845
40 % 8 16 1833
30 % 8 16 1777

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