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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 # 16724 Members. Sequence cutoff: 90% 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 26498
95% 1 2 17157
90% 1 2 16724
70% 38 60 349
50% 38 60 385
40% 38 60 409
30% 38 60 414
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 30 852
95% 20 35 965
90% 20 35 985
70% 20 35 1015
50% 20 35 1057
40% 20 35 1084
30% 20 35 1060
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 11850
95% 43 113 83
90% 210 389 5
70% 766 1361 3
50% 1835 3242 1
40% 1836 3243 1
30% 2076 3827 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 11806
95% 2 4 11263
90% 2 4 11092
70% 891 1564 2
50% 1836 3242 1
40% 1837 3243 1
30% 2077 3827 1
 

Documentation

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