Sequence Similarity Clusters for the Entities in PDB 1RZJ

Entity #1 | Chains: G
ENVELOPE GLYCOPROTEIN GP120 protein, length: 321 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 3 28316
95 % 11 15 4057 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 11 15 4109
70 % 66 180 135
50 % 66 180 164
40 % 66 180 177
30 % 66 183 194
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 % 16 38 862
95 % 17 43 883 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 17 43 916
70 % 17 43 944
50 % 17 43 989
40 % 17 43 1006
30 % 17 43 998
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 % 13 21 1536
95 % 16 34 1093 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.1
PDBFlex
90 % 402 780 2
70 % 1300 2553 1
50 % 2664 5180 1
40 % 3046 5834 1
30 % 3735 7269 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 % 12 24 1336
95 % 13 25 1467 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 13 25 1490
70 % 1292 2511 2
50 % 2665 5180 1
40 % 3047 5834 1
30 % 3736 7269 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