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 3207
95 % 8 11 3394 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.9
PDBFlex
90 % 9 13 2819
70 % 86 177 135
50 % 86 177 165
40 % 86 177 179
30 % 86 180 196
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 38 853
95 % 25 43 875 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 25 43 906
70 % 25 43 935
50 % 25 43 983
40 % 25 43 997
30 % 25 43 994
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 17013
95 % 23 34 1080 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 529 761 2
70 % 1730 2516 1
50 % 3512 5101 1
40 % 3983 5750 1
30 % 4951 7168 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 1310
95 % 19 25 1453 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 19 25 1481
70 % 1698 2475 2
50 % 3513 5101 1
40 % 3984 5750 1
30 % 4952 7168 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 3HI1 1 G, J Glycoprotein 120 11676
8 1RZK 1 G ENVELOPE GLYCOPROTEIN GP120 part of Envelope polyprotein GP160 CORE 11676
9 1G9N 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
10 2QAD 1 A, E Envelope glycoprotein gp160 CORE WITH V3 11676
11 4RQS 4 G HIV-1 YU2 gp120 core chimeric protein 11676
12 5A8H 1 A, G, M HIV-1 GP120 11676
13 5A7X 1 A, E, I HIV-1 YU2 GP120 11676