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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 # 10800 Members. Sequence cutoff: 90% 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 25702
95% 1 2 16695
90% 1 2 16272
70% 37 57 349
50% 37 57 385
40% 37 57 406
30% 37 57 415
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 29 856
95% 20 34 961
90% 20 34 979
70% 20 34 1007
50% 20 34 1057
40% 20 34 1086
30% 20 34 1063
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 11442
95% 41 107 74
90% 203 374 5
70% 748 1317 3
50% 1785 3136 1
40% 1786 3137 1
30% 2024 3713 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 11401
95% 2 4 10966
90% 2 4 10800
70% 866 1511 2
50% 1786 3136 1
40% 1787 3137 1
30% 2025 3713 1
 

Documentation

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