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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 # 11333 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 25547
95% 1 2 16609
90% 1 2 16196
70% 37 57 347
50% 37 57 383
40% 37 57 404
30% 37 57 414
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 29 851
95% 20 34 952
90% 20 34 971
70% 20 34 999
50% 20 34 1047
40% 20 34 1077
30% 20 34 1054
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 11373
95% 41 105 76
90% 202 370 5
70% 740 1303 3
50% 1769 3106 1
40% 1770 3107 1
30% 2008 3679 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 11333
95% 2 4 10907
90% 2 4 10744
70% 859 1498 2
50% 1770 3106 1
40% 1771 3107 1
30% 2009 3679 1
 

Documentation

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