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 3223
95 % 8 11 3413 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 9 13 2831
70 % 88 180 135
50 % 88 180 164
40 % 88 180 177
30 % 88 183 194
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 % 23 38 862
95 % 25 43 883 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 25 43 917
70 % 25 43 943
50 % 25 43 989
40 % 25 43 1005
30 % 25 43 996
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 3 17118
95 % 23 34 1092 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.1
PDBFlex
90 % 538 778 2
70 % 1740 2538 1
50 % 3537 5152 1
40 % 4011 5806 1
30 % 4991 7240 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 % 18 24 1335
95 % 19 25 1466 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 19 25 1490
70 % 1708 2497 2
50 % 3538 5152 1
40 % 4012 5806 1
30 % 4992 7240 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 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