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 27888
95 % 11 15 4552 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 11 15 4584
70 % 66 192 130
50 % 66 192 157
40 % 66 192 168
30 % 66 195 184
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 40 854
95 % 17 46 804 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 17 46 836
70 % 17 46 887
50 % 17 46 935
40 % 17 46 960
30 % 17 46 943
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 22 1484
95 % 15 34 1108 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 434 844 2
70 % 1367 2696 1
50 % 2803 5473 1
40 % 3197 6175 1
30 % 3901 7653 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 % 13 26 1209
95 % 13 26 1446 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 13 26 1473
70 % 1360 2655 2
50 % 2804 5473 1
40 % 3198 6175 1
30 % 3902 7653 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