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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 # 16824 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 26676
95% 1 2 17261
90% 1 2 16824
70% 41 64 332
50% 41 64 363
40% 41 64 388
30% 41 64 396
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 30 861
95% 20 35 975
90% 20 35 994
70% 20 35 1023
50% 20 35 1063
40% 20 35 1090
30% 20 35 1067
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 11937
95% 43 115 80
90% 223 412 4
70% 771 1386 3
50% 1844 3291 1
40% 1845 3292 1
30% 2087 3880 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 11894
95% 2 4 11333
90% 2 4 11158
70% 895 1588 2
50% 1845 3291 1
40% 1846 3292 1
30% 2088 3880 1
 

Documentation

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