Sequence Similarity Clusters for the Entities in PDB 1G9N

Entity #1 | Chains: G
ENVELOPE GLYCOPROTEIN GP120 protein, length: 313 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 7 10 2841
95 % 7 10 3538 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.9
PDBFlex
90 % 9 13 2738
70 % 85 129 182
50 % 85 129 223
40 % 85 129 241
30 % 85 132 248
Entity #2 | Chains: C
T-CELL SURFACE GLYCOPROTEIN CD4 protein, length: 185 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 21 38 716
95 % 25 43 858 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 25 43 890
70 % 25 43 919
50 % 25 43 963
40 % 25 43 988
30 % 25 43 965
Entity #3 | Chains: L
ANTIBODY 17B, LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 41330
95 % 22 32 1141 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 514 742 3
70 % 1645 2385 1
50 % 3331 4827 1
40 % 3331 4827 1
30 % 3912 5688 1
Entity #4 | Chains: H
ANTIBODY 17B, HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 40073
95 % 19 25 1421 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 19 25 1449
70 % 1606 2334 2
50 % 3332 4827 1
40 % 3332 4827 1
30 % 3913 5688 1

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 5UKR 3 G Chimeric B.YU2 gp120 core derived from HIV-1 Env 11676
5 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
6 1RZK 1 G ENVELOPE GLYCOPROTEIN GP120 part of Envelope polyprotein GP160 CORE 11676
7 1G9N 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
8 4RQS 4 G HIV-1 YU2 gp120 core chimeric protein 11676
9 5A8H 1 A, G, M HIV-1 GP120 11676
10 5A7X 1 A, E, I HIV-1 YU2 GP120 11676