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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 # 10810 Members. Sequence cutoff: 95% 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 25283
95% 1 2 16459
90% 1 2 16049
70% 37 56 375
50% 37 56 411
40% 37 56 438
30% 37 56 454
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 29 776
95% 20 34 871
90% 20 34 892
70% 20 34 918
50% 20 34 977
40% 20 34 1008
30% 20 34 989
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 11248
95% 41 105 75
90% 199 366 5
70% 734 1293 3
50% 1755 3082 1
40% 1756 3083 1
30% 1989 3645 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 11209
95% 2 4 10810
90% 2 4 10646
70% 852 1486 2
50% 1756 3082 1
40% 1757 3083 1
30% 1990 3645 1
 

Documentation

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