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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 # 16858 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 25953
95% 1 2 16858
90% 1 2 16429
70% 37 57 349
50% 37 57 389
40% 37 57 409
30% 37 57 418
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 30 835
95% 20 35 936
90% 20 35 956
70% 20 35 991
50% 20 35 1037
40% 20 35 1062
30% 20 35 1040
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 11558
95% 41 108 73
90% 203 377 5
70% 753 1332 3
50% 1795 3170 1
40% 1796 3171 1
30% 2036 3753 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 11515
95% 2 4 11070
90% 2 4 10904
70% 871 1528 2
50% 1796 3170 1
40% 1797 3171 1
30% 2037 3753 1
 

Documentation

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