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Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility
Sequence Clustering and Redundancy Reduction Results
3JWD
Cluster # 11904 Members. Sequence cutoff: 100% Cluster size: 4 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1RZ7 2 H Fab 48d heavy chain 9606  
2 3JWD 4 H, P FAB 48D HEAVY CHAIN 9606  
3 4DVR 3 H Fab 48d Heavy chain 9606  
4 3JWO 4 H FAB 48D Heavy CHAIN 9606  
 
Sequence Clusters for the Sequence Entities in PDB 3JWD
Entity #1: Chains: A,B - HIV-1 GP120 ENVELOPE GLYCOPROTEIN protein, length: 379 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 26711
95% 1 2 17282
90% 1 2 16846
70% 41 64 332
50% 41 64 364
40% 41 64 389
30% 41 64 396
Entity #2: Chains: C,D - T-cell surface glycoprotein CD4 protein, length: 184 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 17 30 862
95% 20 35 977
90% 20 35 997
70% 20 35 1025
50% 20 35 1064
40% 20 35 1090
30% 20 35 1067
Entity #3: Chains: L,O - FAB 48D LIGHT CHAIN protein, length: 213 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 2 4 11947
95% 43 116 80
90% 223 413 4
70% 771 1388 3
50% 1844 3295 1
40% 1845 3296 1
30% 2087 3893 1
Entity #4: Chains: H,P - FAB 48D HEAVY CHAIN protein, length: 220 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 2 4 11904
95% 2 4 11342
90% 2 4 11168
70% 895 1590 2
50% 1845 3295 1
40% 1846 3296 1
30% 2088 3893 1
 

Documentation

Click here for more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB.