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 22314
95 % 6 15 4623 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 6 15 4651
70 % 30 200 131
50 % 30 200 155
40 % 30 200 165
30 % 30 203 182
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 40 870
95 % 8 46 822 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 8 46 854
70 % 8 46 903
50 % 8 46 947
40 % 8 46 978
30 % 8 46 957
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 1506
95 % 8 34 1136 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 247 860 2
70 % 752 2750 1
50 % 1552 5586 1
40 % 1814 6331 1
30 % 2209 7871 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 1233
95 % 6 26 1476 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 6 26 1499
70 % 747 2708 2
50 % 1553 5586 1
40 % 1815 6331 1
30 % 2210 7871 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