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 27364
95 % 11 15 4428 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 11 15 4471
70 % 66 186 130
50 % 66 186 159
40 % 66 186 171
30 % 66 189 185
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 38 888
95 % 17 43 918 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 17 43 949
70 % 17 43 976
50 % 17 43 1029
40 % 17 43 1039
30 % 17 43 1029
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 1588
95 % 15 33 1149 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 420 815 2
70 % 1345 2632 1
50 % 2758 5344 1
40 % 3147 6024 1
30 % 3846 7481 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 25 1282
95 % 13 25 1509 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 13 25 1532
70 % 1338 2591 2
50 % 2759 5344 1
40 % 3148 6024 1
30 % 3847 7481 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