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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 # 16490 Members. Sequence cutoff: 95% Cluster size: 2 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 3JWD 1 A, B HIV-1 GP120 ENVELOPE GLYCOPROTEIN 11676  
2 3JWO 1 A HIV-1 GP120 ENVELOPE GLYCOPROTEIN 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 25340
95% 1 2 16490
90% 1 2 16079
70% 37 56 375
50% 37 56 411
40% 37 56 438
30% 37 56 456
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 29 816
95% 20 34 893
90% 20 34 915
70% 20 34 954
50% 20 34 1033
40% 20 34 1066
30% 20 34 1043
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 11280
95% 41 105 75
90% 201 368 4
70% 737 1297 3
50% 1761 3090 1
40% 1762 3091 1
30% 1995 3653 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 11240
95% 2 4 10831
90% 2 4 10666
70% 855 1490 2
50% 1762 3090 1
40% 1763 3091 1
30% 1996 3653 1
 

Documentation

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