Sequence Similarity Clusters for the Entities in PDB 2NXZ

Entity #1 | Chains: A
ENVELOPE GLYCOPROTEIN GP120 protein, length: 317 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 4 22468
95 % 6 15 4669 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.8
PDBFlex
90 % 6 15 4698
70 % 30 207 127
50 % 30 207 147
40 % 30 207 161
30 % 30 210 177
Entity #2 | Chains: B
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 8 40 873
95 % 8 46 828 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 8 46 859
70 % 8 46 909
50 % 8 46 953
40 % 8 46 983
30 % 8 46 963
Entity #3 | Chains: C
ANTIBODY 17B, LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 22 1529
95 % 8 34 1144 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 248 865 2
70 % 752 2765 1
50 % 1558 5625 1
40 % 1820 6382 1
30 % 2215 7934 1
Entity #4 | Chains: D
ANTIBODY 17B, HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 26 1249
95 % 6 26 1490 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 6 26 1511
70 % 750 2728 2
50 % 1559 5625 1
40 % 1821 6382 1
30 % 2216 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 2NXY 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
2 2NY2 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
3 2NY4 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
4 2NY3 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
5 2NY1 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
6 2NXZ 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
7 2NY0 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
8 2NY7 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
9 3IDX 1 G HIV-1 HxBc2 gp120 core 11676
10 2NY5 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
11 1RZJ 1 G ENVELOPE GLYCOPROTEIN GP120 part of Envelope polyprotein GP160 CORE 11676
12 1GC1 1 G ENVELOPE PROTEIN GP120 CORE 11676
13 1G9M 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
14 2NY6 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
15 3IDY 1 A, G HIV-1 HxBc2 gp120 core 11676