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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 # 11145 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 26158
95% 1 2 16968
90% 1 2 16534
70% 37 57 354
50% 37 57 393
40% 37 57 415
30% 37 57 421
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 30 843
95% 20 35 945
90% 20 35 964
70% 20 35 997
50% 20 35 1042
40% 20 35 1067
30% 20 35 1046
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 11681
95% 41 108 88
90% 204 379 5
70% 755 1337 3
50% 1803 3184 1
40% 1804 3185 1
30% 2044 3767 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 11638
95% 2 4 11145
90% 2 4 10974
70% 875 1535 2
50% 1804 3184 1
40% 1805 3185 1
30% 2045 3767 1
 

Documentation

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