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 3538
95 % 8 11 3701 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 9 13 3064
70 % 93 207 127
50 % 93 207 147
40 % 93 207 161
30 % 93 210 177
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 40 873
95 % 25 46 828 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 25 46 859
70 % 25 46 909
50 % 25 46 953
40 % 25 46 983
30 % 25 46 963
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 18403
95 % 22 34 1144 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 590 865 2
70 % 1867 2765 1
50 % 3808 5625 1
40 % 4324 6382 1
30 % 5369 7934 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 % 19 26 1249
95 % 19 26 1490 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 19 26 1511
70 % 1840 2728 2
50 % 3809 5625 1
40 % 4325 6382 1
30 % 5370 7934 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